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= 0001.3183.p (174 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_003775840.1| RNA polymerase sigma-70 factor, ECF subfamil... 252 2e-65 ref|YP_004487392.1| ECF subfamily RNA polymerase sigma-24 factor... 186 9e-46 ref|YP_933877.1| RNA polymerase ECF-subfamily sigma-70 factor [A... 172 2e-41 ref|YP_785168.1| RNA polymerase sigma factor [Bordetella avium 1... 162 1e-38 ref|YP_004377880.1| RNA polymerase sigma factor FecI [Pseudomona... 161 3e-38 >ref|YP_003775840.1| RNA polymerase sigma-70 factor, ECF subfamily (sigma-24) transcription regulator protein [Herbaspirillum seropedicae SmR1] gb|ADJ63932.1| RNA polymerase sigma-70 factor, ECF subfamily (sigma-24) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 174 Score = 252 bits (643), Expect = 2e-65, Method: Composition-based stats. Identities = 132/174 (75%), Positives = 150/174 (86%) Query: 1 MPVPRPADAQHIDSLYREHHGWLQQWLRRKLGSSSDAADLAQDTFLRVLGKPQVLAEVRE 60 MPVP AQ +LY EHHGWLQQWLRR++GSS DAADLAQDTFLRVLGKP L VRE Sbjct: 1 MPVPHTVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVRE 60 Query: 61 PRAWLTRIAQGLVVDKVRRDEVERACLEAIAHLPAPEVISPEARMLLVEALATIDAMLEG 120 PRAWL+RIA GLVVDK+RR+EVER CLEAIAHLP PEV+SPEAR++LVEAL IDA+LEG Sbjct: 61 PRAWLSRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEG 120 Query: 121 LGAKPREAFLMSRLDDLGYAEIARRMGVSLSSVEKYMAAAIRHCYLMRQAWQAS 174 LG + R+AFL+SRLD++ Y EIAR +GVSLSSVEKYMAAAIRHCYLMRQ+ QA+ Sbjct: 121 LGERARQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYLMRQSLQAA 174 >ref|YP_004487392.1| ECF subfamily RNA polymerase sigma-24 factor [Delftia sp. Cs1-4] gb|AEF89037.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Delftia sp. Cs1-4] Length = 171 Score = 186 bits (473), Expect = 9e-46, Method: Composition-based stats. Identities = 102/159 (64%), Positives = 118/159 (74%) Query: 15 LYREHHGWLQQWLRRKLGSSSDAADLAQDTFLRVLGKPQVLAEVREPRAWLTRIAQGLVV 74 LY +HHGWL WLRR+LG+ DAADLAQDTF+RVLGKPQ L VREPRAWLT IA GLVV Sbjct: 13 LYSDHHGWLVGWLRRRLGNPCDAADLAQDTFVRVLGKPQSLHGVREPRAWLTTIAHGLVV 72 Query: 75 DKVRRDEVERACLEAIAHLPAPEVISPEARMLLVEALATIDAMLEGLGAKPREAFLMSRL 134 D RR +ERACL+AIA LP P S E R LL+E+L +D +L GL K R AFL+SRL Sbjct: 73 DHTRRAALERACLDAIASLPEPLAPSAEERHLLIESLVRMDNLLAGLPPKARSAFLLSRL 132 Query: 135 DDLGYAEIARRMGVSLSSVEKYMAAAIRHCYLMRQAWQA 173 + L Y EIA ++GV LSSVEKYMA AIRHC +R+ A Sbjct: 133 EGLSYPEIALQLGVCLSSVEKYMATAIRHCLALRKELTA 171 >ref|YP_933877.1| RNA polymerase ECF-subfamily sigma-70 factor [Azoarcus sp. BH72] emb|CAL94990.1| putative sigma-70 factor, ECF subfamily [Azoarcus sp. BH72] Length = 166 Score = 172 bits (435), Expect = 2e-41, Method: Composition-based stats. Identities = 94/165 (56%), Positives = 120/165 (72%), Gaps = 1/165 (0%) Query: 6 PADAQHIDSLYREHHGWLQQWLRRKLGSSSDAADLAQDTFLRVLGKPQVLAEVREPRAWL 65 P+ + ++Y HH WLQ WLRR+LG + DAADLA DTFLRVL + L ++REPRA+L Sbjct: 3 PSADLNFGNIYGTHHNWLQGWLRRRLGCALDAADLAHDTFLRVLAGRE-LTDIREPRAYL 61 Query: 66 TRIAQGLVVDKVRRDEVERACLEAIAHLPAPEVISPEARMLLVEALATIDAMLEGLGAKP 125 T +A GL+V+ +RR ++ERACL+A+A LP P SPEAR L VE L IDAML+GL K Sbjct: 62 TTVAHGLMVNHLRRRDIERACLDALASLPEPLAPSPEARALAVELLLEIDAMLDGLSRKA 121 Query: 126 REAFLMSRLDDLGYAEIARRMGVSLSSVEKYMAAAIRHCYLMRQA 170 R AFL+S+L+ L YAEIA ++GVS+S V KYM AI HC +RQA Sbjct: 122 RTAFLLSQLEGLTYAEIAEQLGVSVSMVRKYMLQAITHCLQIRQA 166 >ref|YP_785168.1| RNA polymerase sigma factor [Bordetella avium 197N] emb|CAJ48241.1| probable RNA polymerase sigma factor [Bordetella avium 197N] Length = 231 Score = 162 bits (411), Expect = 1e-38, Method: Composition-based stats. Identities = 86/158 (54%), Positives = 120/158 (75%), Gaps = 1/158 (0%) Query: 11 HIDSLYREHHGWLQQWLRRKLGSSSDAADLAQDTFLRVLGKPQVLAEVREPRAWLTRIAQ 70 H+++LY +HHGWLQ W+RR+LG+S +AADLA D FLR+L +P + E REPRA+L+ IA+ Sbjct: 71 HVETLYADHHGWLQSWMRRQLGNSFEAADLAHDVFLRLLRRPAAI-ETREPRAYLSAIAR 129 Query: 71 GLVVDKVRRDEVERACLEAIAHLPAPEVISPEARMLLVEALATIDAMLEGLGAKPREAFL 130 GL++D RR E+ERA LEA+AH P SPE RML++EAL ID ML+ L K R+AFL Sbjct: 130 GLLIDHWRRRELERAWLEALAHTPEALAPSPETRMLVLEALIKIDQMLDTLKPKVRQAFL 189 Query: 131 MSRLDDLGYAEIARRMGVSLSSVEKYMAAAIRHCYLMR 168 ++L+ + +IA+R+GVSL++ E+Y+AA +RHCY R Sbjct: 190 WAQLEGMRCPQIAQRLGVSLATAERYVAAGLRHCYACR 227 >ref|YP_004377880.1| RNA polymerase sigma factor FecI [Pseudomonas mendocina NK-01] gb|AEB56128.1| RNA polymerase sigma factor FecI [Pseudomonas mendocina NK-01] Length = 168 Score = 161 bits (408), Expect = 3e-38, Method: Composition-based stats. Identities = 89/167 (53%), Positives = 119/167 (71%), Gaps = 1/167 (0%) Query: 7 ADAQHIDSLYREHHGWLQQWLRRKLGSSSDAADLAQDTFLRVLGKPQVLAEVREPRAWLT 66 AD Q + +LYR+HH WLQ WLRR+LG+ DAADLAQDTF+R+L + A +REPR +L Sbjct: 3 ADVQVLHTLYRDHHSWLQGWLRRRLGNGCDAADLAQDTFVRLL-RAGNAASIREPRDYLA 61 Query: 67 RIAQGLVVDKVRRDEVERACLEAIAHLPAPEVISPEARMLLVEALATIDAMLEGLGAKPR 126 +A+GL+VD +RR +E+A LEA+A P E S E + LL+EAL +D ML GLG R Sbjct: 62 TVARGLMVDFLRRRSLEQAYLEAMALQPQAEQPSAEQQALLLEALMEVDRMLAGLGRNVR 121 Query: 127 EAFLMSRLDDLGYAEIARRMGVSLSSVEKYMAAAIRHCYLMRQAWQA 173 E F++S+LD L YA+IA R+G+SL SV YMA A+ HC L++ WQ+ Sbjct: 122 EVFILSQLDGLTYAQIAARLGISLRSVNSYMARAVEHCCLLQAGWQS 168