BLASTP 2.2.17 [Aug-26-2007] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for composition-based statistics: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= 0001.0376.p (320 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF excluding environmental samples from WGS projects 15,459,386 sequences; 5,307,515,862 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|YP_003773584.1| RNA polymerase sigma-24 factor protein [Herb... 507 e-141 ref|ZP_04764502.1| RNA polymerase, sigma-24 subunit, ECF subfami... 300 2e-79 ref|ZP_02355014.1| RNA polymerase sigma-70 factor, ECF family pr... 286 2e-75 ref|YP_003753862.1| RNA polymerase sigma-70, ECF type [Ralstonia... 284 1e-74 ref|ZP_05588021.1| ECF subfamily RNA polymerase sigma factor [Bu... 283 3e-74 >ref|YP_003773584.1| RNA polymerase sigma-24 factor protein [Herbaspirillum seropedicae SmR1] gb|ADJ61676.1| RNA polymerase sigma-24 factor protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 507 bits (1305), Expect = e-141, Method: Composition-based stats. Identities = 280/322 (86%), Positives = 289/322 (89%), Gaps = 3/322 (0%) Query: 1 MTDDPALAQFTQLRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKSVLHSTEAWLVTV 60 MTDD ALA FTQ RPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDK+VL S EAWLVTV Sbjct: 1 MTDDLALALFTQHRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKAVLDSAEAWLVTV 60 Query: 61 VTRLCIDRLRQLQQERQHYVGHWLPEPLVGLAEPAP--EIDLFGAARLAPSPEALLEQQS 118 VTRLCIDRLRQLQQERQHYVGHWLPEPLV LAEP P +IDL+G ARLAPSPE LLEQ S Sbjct: 61 VTRLCIDRLRQLQQERQHYVGHWLPEPLVDLAEPGPGPDIDLYGQARLAPSPEQLLEQHS 120 Query: 119 DVSFAYLLLLERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQE 178 D+SFAYLLLLE LKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQE Sbjct: 121 DLSFAYLLLLEHLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQE 180 Query: 179 ADGVAR-PAVRAASSPVTRETHALLLEKFMQAVQSGQREAMLGLLAEDARLIGDGGGKVA 237 R PAVRAASSPVTRETHALLLEKFMQA+QSGQREAMLGLLAEDARLIGDGGGKVA Sbjct: 181 HQADPRSPAVRAASSPVTRETHALLLEKFMQALQSGQREAMLGLLAEDARLIGDGGGKVA 240 Query: 238 SFPHPLAGGERISWLYYANVRRFAQRIVYRAAWINGSPGLLRYVDGALESAQVLESDGLR 297 SFPHPL G ERISWLYYANVRRF RIVYRAAWING+ GLLRYVDG LESAQ L+ R Sbjct: 241 SFPHPLEGAERISWLYYANVRRFGTRIVYRAAWINGAAGLLRYVDGVLESAQALQWQAGR 300 Query: 298 IHAIYVVRNPDKLAAIAQQNTA 319 + AIYVVRNPDKLAAIA+Q A Sbjct: 301 VSAIYVVRNPDKLAAIARQQLA 322 >ref|ZP_04764502.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Acidovorax delafieldii 2AN] gb|EER58693.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Acidovorax delafieldii 2AN] Length = 299 Score = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 172/304 (56%), Positives = 206/304 (67%), Gaps = 25/304 (8%) Query: 10 FTQLRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKSVLHSTEAWLVTVVTRLCIDRL 69 F RPRLF +AYRML R++A+DVLQDAWLRW D + L S EAWLVT+VTRL IDRL Sbjct: 15 FNTARPRLFRIAYRMLGVRADAEDVLQDAWLRWSRTDANALQSAEAWLVTIVTRLSIDRL 74 Query: 70 RQLQQERQHYVGHWLPEPLVGLAEPAPEIDLFGAARLAPSPEALLEQQSDVSFAYLLLLE 129 R + ER+ YVG WLPEPLV E+D A +PE E ++S A++ +LE Sbjct: 75 RAAKAEREAYVGWWLPEPLV-------ELD-------AHTPETAAELAGELSVAFMYVLE 120 Query: 130 RLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQEADGVARPAVRA 189 RL PEERAAFLLR+VFD DYP+IAA L K+EASCRQ+VHRA ER+ + Sbjct: 121 RLGPEERAAFLLRQVFDYDYPEIAAQLGKTEASCRQMVHRASERVQQART---------- 170 Query: 190 ASSPVTRETHALLLEKFMQAVQSGQREAMLGLLAEDARLIGDGGGKVASFPHPLAGGERI 249 V + H LL++FM A QSG R A+ LL+EDA+LIGDGGG+V SFP PL G RI Sbjct: 171 -RFEVPQAVHHQLLQRFMNAAQSGDRHAIQALLSEDAQLIGDGGGRVPSFPKPLVGPFRI 229 Query: 250 SWLYYANVRRFAQRIVYRAAWINGSPGLLRYVDGALESAQVLESDGLRIHAIYVVRNPDK 309 + LY+A RR ++VYR A ING PGLLRYVDG +ESAQ +DG RI AIY VRNPDK Sbjct: 230 TNLYWALFRRLGAQVVYRMAHINGEPGLLRYVDGRIESAQAFVTDGERIVAIYAVRNPDK 289 Query: 310 LAAI 313 LA I Sbjct: 290 LAGI 293 >ref|ZP_02355014.1| RNA polymerase sigma-70 factor, ECF family protein [Burkholderia oklahomensis EO147] ref|ZP_02362222.1| RNA polymerase sigma-70 factor, ECF family protein [Burkholderia oklahomensis C6786] Length = 299 Score = 286 bits (733), Expect = 2e-75, Method: Composition-based stats. Identities = 168/309 (54%), Positives = 202/309 (65%), Gaps = 25/309 (8%) Query: 5 PALAQFTQLRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKSVLHSTEAWLVTVVTRL 64 P+ FT LRPRLF +AYRML +R++A+DVLQDAWLRWH D L S EAWLVTVVTRL Sbjct: 11 PSDEPFTALRPRLFSIAYRMLGTRADAEDVLQDAWLRWHQADHDALDSAEAWLVTVVTRL 70 Query: 65 CIDRLRQLQQERQHYVGHWLPEPLVGLAEPAPEIDLFGAARLAPSPEALLEQQSDVSFAY 124 IDRLR + +R YVG WLPEPLV + E +PEA E D+S A Sbjct: 71 SIDRLRAAKAQRDAYVGWWLPEPLVDVDER--------------TPEAAAEFADDLSVAL 116 Query: 125 LLLLERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQEADGVAR 184 L +LERL PEERAAFLLR+ F+ DY +IA +L KSEA+CRQLVHRA R+ ++ Sbjct: 117 LWVLERLSPEERAAFLLRQAFERDYAEIAQLLDKSEAACRQLVHRASTRVQQEHR----- 171 Query: 185 PAVRAASSPVTRETHALLLEKFMQAVQSGQREAMLGLLAEDARLIGDGGGKVASFPHPLA 244 VTR+ H L+E+F +A SG+R A+ LLA+D L+GDGGGKV SF L Sbjct: 172 ------RFDVTRDRHRQLVERFARAAASGERSAIQALLADDVELVGDGGGKVPSFFKVLR 225 Query: 245 GGERISWLYYANVRRFAQRIVYRAAWINGSPGLLRYVDGALESAQVLESDGLRIHAIYVV 304 G RI+ LY+ RR RI YR A ING PGLLR++DG +ESAQ +DG RI AIY V Sbjct: 226 GALRIANLYWVVGRRNVGRIEYRLAQINGEPGLLRFIDGQIESAQAFVTDGARIVAIYAV 285 Query: 305 RNPDKLAAI 313 RNPDKLA I Sbjct: 286 RNPDKLAHI 294 >ref|YP_003753862.1| RNA polymerase sigma-70, ECF type [Ralstonia solanacearum PSI07] emb|CBJ52604.1| RNA polymerase sigma-70, ECF type [Ralstonia solanacearum PSI07] emb|CCA81002.1| RNA polymerase sigma-70, ECF type [blood disease bacterium R229] Length = 304 Score = 284 bits (726), Expect = 1e-74, Method: Composition-based stats. Identities = 170/312 (54%), Positives = 208/312 (66%), Gaps = 25/312 (8%) Query: 3 DDPALAQFTQLRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKSVLHSTEAWLVTVVT 62 + P F RPRLF +AYRML +R++A+DVLQDAWLRWH + L S EAWLVTVVT Sbjct: 17 EPPGDNAFDATRPRLFAIAYRMLGTRADAEDVLQDAWLRWHRAAPAELQSPEAWLVTVVT 76 Query: 63 RLCIDRLRQLQQERQHYVGHWLPEPLVGLAEPAPEIDLFGAARLAPSPEALLEQQSDVSF 122 RL IDRLR + ER+ YVG WLPEPLV L E +PEA +E D+S Sbjct: 77 RLSIDRLRAAKTEREAYVGWWLPEPLVELDER--------------TPEAAVELAGDLSM 122 Query: 123 AYLLLLERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQEADGV 182 A L +LERL PEERAAFLLR+VFD+DY DIAA+L K+EA+CRQ+VHRA R+ ++ Sbjct: 123 ALLWVLERLSPEERAAFLLRQVFDHDYADIAALLGKTEAACRQMVHRASNRVQQE----- 177 Query: 183 ARPAVRAASSPVTRETHALLLEKFMQAVQSGQREAMLGLLAEDARLIGDGGGKVASFPHP 242 RP V+ + H LLE F+QA +SGQREA+ LLA+DA L+GDGGGKV +F H Sbjct: 178 -RPRF-----DVSEDAHRHLLEAFVQAARSGQREAVRALLADDAHLVGDGGGKVPAFLHI 231 Query: 243 LAGGERISWLYYANVRRFAQRIVYRAAWINGSPGLLRYVDGALESAQVLESDGLRIHAIY 302 + ++I+ +Y R + YRAA +NG PGLLRYVDG LESAQ + RI AIY Sbjct: 232 VRDPDQITQVYTVLAPRMGDDVRYRAARVNGEPGLLRYVDGRLESAQSFVIENGRIVAIY 291 Query: 303 VVRNPDKLAAIA 314 VVRNPDKLA IA Sbjct: 292 VVRNPDKLARIA 303 >ref|ZP_05588021.1| ECF subfamily RNA polymerase sigma factor [Burkholderia thailandensis E264] Length = 297 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 169/309 (54%), Positives = 203/309 (65%), Gaps = 25/309 (8%) Query: 5 PALAQFTQLRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKSVLHSTEAWLVTVVTRL 64 P+ F LRPRLF +AYRML +R++A+DVLQDAWLRWH D+ L S EAWLVTVVTRL Sbjct: 9 PSDEPFAALRPRLFSIAYRMLGTRADAEDVLQDAWLRWHQADRDALDSPEAWLVTVVTRL 68 Query: 65 CIDRLRQLQQERQHYVGHWLPEPLVGLAEPAPEIDLFGAARLAPSPEALLEQQSDVSFAY 124 IDRLR + +R YVG WLPEPLV + E PE AA A D+S A Sbjct: 69 SIDRLRAAKAQRDTYVGWWLPEPLVDVDERTPET----AAEFA----------DDLSVAL 114 Query: 125 LLLLERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQEADGVAR 184 L +LERL PEERAAFLLR+ F+ DY +IA +L KSEA+CRQLVHRA R+ ++ Sbjct: 115 LWVLERLSPEERAAFLLRQAFERDYAEIAQLLDKSEAACRQLVHRASTRVQQEHR----- 169 Query: 185 PAVRAASSPVTRETHALLLEKFMQAVQSGQREAMLGLLAEDARLIGDGGGKVASFPHPLA 244 V+R+ H L+E+F QA SG+R A+ LLA+D L+GDGGGKV SF L Sbjct: 170 ------RFDVSRDRHRQLVERFAQASASGERSAIQALLADDVELVGDGGGKVPSFFKVLR 223 Query: 245 GGERISWLYYANVRRFAQRIVYRAAWINGSPGLLRYVDGALESAQVLESDGLRIHAIYVV 304 G RI+ LY+ RR A RI YR A ING PGLLR++DG +ESAQ +DG RI AIY V Sbjct: 224 GALRIANLYWVVGRRHAGRIEYRLAQINGEPGLLRFIDGQIESAQAFVTDGARIVAIYAV 283 Query: 305 RNPDKLAAI 313 RNPDKLA I Sbjct: 284 RNPDKLAHI 292