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= 0001.2680.p (170 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_001666991.1| ECF subfamily RNA polymerase sigma-24 factor... 167 5e-40 ref|YP_003277814.1| ECF subfamily RNA polymerase sigma-24 subuni... 166 1e-39 ref|YP_785729.1| RNA polymerase ECF family sigma factor [Bordete... 164 4e-39 ref|YP_004380514.1| ECF subfamily RNA polymerase sigma-24 factor... 161 3e-38 gb|EGP45075.1| RNA polymerase sigma factor [Achromobacter xyloso... 161 4e-38 >ref|YP_001666991.1| ECF subfamily RNA polymerase sigma-24 factor [Pseudomonas putida GB-1] gb|ABY96655.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Pseudomonas putida GB-1] Length = 167 Score = 167 bits (423), Expect = 5e-40, Method: Composition-based stats. Identities = 92/164 (56%), Positives = 118/164 (71%), Gaps = 2/164 (1%) Query: 7 SRPHD--IAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFIVDEVRTLL 64 S PH+ + +Y GHH WL GWL +R + AADLAQDTF+R++ + E R L Sbjct: 3 SLPHNAQVGELYRGHHSWLRGWLFKRLECQHQAADLAQDTFLRLLGRDTLNGLREPRAFL 62 Query: 65 ATIARGLMIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKV 124 AT+A+GL++DH+RR +LE A+L+ LA +P PS EA++LVLETL E+D ML GL PKV Sbjct: 63 ATVAKGLVVDHYRRLSLERAWLDSLAALPEPEAPSAEARVLVLETLVEIDRMLDGLKPKV 122 Query: 125 RSAFLLSQLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACYRLQY 168 RSAFLLSQLDGL Y +IA +L +SLSSVQQYM +AF CYR+ Y Sbjct: 123 RSAFLLSQLDGLTYPQIAEQLGLSLSSVQQYMTQAFGHCYRVLY 166 >ref|YP_003277814.1| ECF subfamily RNA polymerase sigma-24 subunit [Comamonas testosteroni CNB-2] gb|ACY32518.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Comamonas testosteroni CNB-2] Length = 163 Score = 166 bits (421), Expect = 1e-39, Method: Composition-based stats. Identities = 90/159 (56%), Positives = 119/159 (74%), Gaps = 3/159 (1%) Query: 11 DIAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSR---RDFIVDEVRTLLATI 67 D+A IY HH WLLGWLRR+ A+ AADLAQDTFVR++ ++ R ++ E R L T+ Sbjct: 3 DVAKIYGEHHPWLLGWLRRKLGGADHAADLAQDTFVRVLAAQAEQRALVLREPRAYLTTV 62 Query: 68 ARGLMIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKVRSA 127 AR L+I+H +R +LE A+L+ +AQ+P PSPE QLLVLE+L++VDAML GLPPKVR A Sbjct: 63 ARNLLINHVQRLSLEKAWLDAMAQLPEPLAPSPEQQLLVLESLHQVDAMLNGLPPKVREA 122 Query: 128 FLLSQLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACYRL 166 FLLSQLDGL+YA++A RL V+ +V++YM +AF C L Sbjct: 123 FLLSQLDGLSYAQVAERLGVTSRTVKRYMAQAFEQCILL 161 >ref|YP_785729.1| RNA polymerase ECF family sigma factor [Bordetella avium 197N] emb|CAJ48815.1| RNA polymerase ECF-family sigma factor [Bordetella avium 197N] Length = 169 Score = 164 bits (416), Expect = 4e-39, Method: Composition-based stats. Identities = 81/155 (52%), Positives = 112/155 (72%) Query: 12 IAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFIVDEVRTLLATIARGL 71 + G+Y H WL+GWLRR+ ++ A D+AQD F+R++ R+ V + R L TIARG+ Sbjct: 12 VDGLYRQHRSWLMGWLRRKLGGSDHAEDMAQDVFIRIIQGRKQVDVVQARAFLTTIARGM 71 Query: 72 MIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKVRSAFLLS 131 +IDH+RR ALEAA+ + LA +P P PEA++ V+++L +D MLAGL P+ R AF+LS Sbjct: 72 LIDHWRRAALEAAYRDYLASLPQVSEPGPEARIEVMQSLAVLDRMLAGLSPRAREAFMLS 131 Query: 132 QLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACYRL 166 Q+DGL Y EIAVRL VS+SSVQQYM +A +ACY + Sbjct: 132 QIDGLTYPEIAVRLGVSVSSVQQYMVKAMSACYEV 166 >ref|YP_004380514.1| ECF subfamily RNA polymerase sigma-24 factor [Pseudomonas mendocina NK-01] gb|AEB58762.1| ECF subfamily RNA polymerase sigma-24 factor [Pseudomonas mendocina NK-01] Length = 172 Score = 161 bits (408), Expect = 3e-38, Method: Composition-based stats. Identities = 88/159 (55%), Positives = 113/159 (71%) Query: 11 DIAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFIVDEVRTLLATIARG 70 DI +Y HH WL GWLRRR + E AAD+AQDTF+R++V+RR E R LA IAR Sbjct: 13 DIQRLYDNHHGWLKGWLRRRLGDRERAADIAQDTFLRLLVTRRMPEHGEGRRFLAQIARN 72 Query: 71 LMIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKVRSAFLL 130 L+ID +RR +E A+L+ LA +P PS E + +V+ETL ++DAML +P KVR AFLL Sbjct: 73 LVIDQWRRQRIEQAYLDSLAALPEPETPSLETRAMVIETLLQIDAMLDSMPRKVREAFLL 132 Query: 131 SQLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACYRLQYG 169 SQ +GL Y +IAVRLEVS+SSVQ+YM RA ACY++ Y Sbjct: 133 SQFEGLTYPQIAVRLEVSVSSVQKYMLRAIAACYQVLYA 171 >gb|EGP45075.1| RNA polymerase sigma factor [Achromobacter xylosoxidans AXX-A] Length = 177 Score = 161 bits (407), Expect = 4e-38, Method: Composition-based stats. Identities = 88/157 (56%), Positives = 105/157 (66%) Query: 12 IAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFIVDEVRTLLATIARGL 71 + G+Y H WL GWLRR+ A A DLAQD FVR++ R+ + R LL TIA+GL Sbjct: 20 VDGLYRDHRPWLFGWLRRKLGCAHRAEDLAQDVFVRVIQGRKVVRTADARALLTTIAKGL 79 Query: 72 MIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKVRSAFLLS 131 ++DH R ALE A+L LA MP H PSPE Q ++ L ++D +L LPPK RSAFLLS Sbjct: 80 VVDHQRHAALEHAYLAYLASMPEAHAPSPETQAEQMQALMQLDRLLDSLPPKARSAFLLS 139 Query: 132 QLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACYRLQY 168 QLDGL Y EIA RL VSLSSVQQYM RA +ACY Y Sbjct: 140 QLDGLTYPEIAQRLGVSLSSVQQYMVRAMSACYAALY 176