BLASTP 2.2.18 [Mar-02-2008] 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. Query= 0331.0005.p (317 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_241538.1| RNA polymerase ECF-type sigma factor [Bacillus ... 236 4e-61 ref|NP_832148.1| RNA polymerase ECF-type sigma factor [Bacillus ... 210 4e-53 ref|NP_656311.1| Sigma70_ECF, Sigma-70 factor (ECF subfamily) [B... 209 5e-53 ref|ZP_00186141.1| hypothetical protein Rxyl307101 [Rubrobacter ... 203 5e-51 ref|NP_923615.1| RNA polymerase sigma-70 factor [Gloeobacter vio... 192 6e-48 >ref|NP_241538.1| RNA polymerase ECF-type sigma factor [Bacillus halodurans] pir||H83733 RNA polymerase ECF-type sigma factor BH0672 [imported] - Bacillus halodurans (strain C-125) dbj|BAB04391.1| RNA polymerase ECF-type sigma factor [Bacillus halodurans] Length = 285 Score = 236 bits (603), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 125/286 (43%), Positives = 178/286 (62%), Gaps = 7/286 (2%) Query: 28 IGSEDMEELYQKYKGLLFKLAYQLTGSVTDAEDVVHDVFLKIVDVPPEKLAEPKAYLCKM 87 I +ED E+L K LLF L Y+L GSVTDAED+V + FL+ ++ KAYLCKM Sbjct: 3 ISNEDYEQL----KPLLFSLGYRLLGSVTDAEDLVQETFLRAYQAEEREINNKKAYLCKM 58 Query: 88 VTNRCRDLQKSARRKREQYYGEWLPEPLHSMNDDAIDAVVRDDLLSYAMLVLLERLSPTE 147 +TNRC D+ KSARRKREQY G WLPEPL +DD +A+++ + LS A L ++E L+P E Sbjct: 59 MTNRCLDVLKSARRKREQYVGPWLPEPLLITSDDPSEAILQKEGLSMAYLRMMEHLTPHE 118 Query: 148 RVVFVLREALGFDYHEIAELVEKSEVNCRKLFSRANAKMGITSEQLVHSEGATPELVHGF 207 R VF+LRE F Y EIA ++EK E NCRKL+SRA K+ + +H E +V F Sbjct: 119 RAVFLLREVFTFSYREIASMMEKKEDNCRKLYSRAKEKLSAVKGESLHYEN-NRSVVDRF 177 Query: 208 LSALKQGNLNQILSILDQEVVLVSDGGGKVSAVVEPLSTRELVAQFLVGPLHRASTIDGV 267 + + + + +L +L V L +DGGGKV A + P+ T++ VA FL G + + Sbjct: 178 IHSFQTEDQGDLLELLSDHVTLYTDGGGKVRAALRPIYTKDHVAAFLFGIAKKRP--NDF 235 Query: 268 HIEVVQMNRQPAFILRSSEGIHTVGIFHVEKNRIRNIYIVRNPDKL 313 ++EV +N QPA I + ++ V F++ +I++IYI+ NP+KL Sbjct: 236 YVEVKNVNGQPALISYADSKLYNVICFYIVGGQIQDIYIIMNPEKL 281 >ref|NP_832148.1| RNA polymerase ECF-type sigma factor [Bacillus cereus ATCC 14579] gb|AAP09349.1| RNA polymerase ECF-type sigma factor [Bacillus cereus ATCC 14579] Length = 289 Score = 210 bits (534), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 111/285 (38%), Positives = 169/285 (59%), Gaps = 3/285 (1%) Query: 32 DMEELYQKYKGLLFKLAYQLTGSVTDAEDVVHDVFLKIVDVP-PEKLAEPKAYLCKMVTN 90 + E+LY+ Y+ LLF L+Y++ GSV DAED+V DVF+ + ++ P+ + KAYLCKM TN Sbjct: 2 ETEQLYEAYQPLLFSLSYRILGSVMDAEDIVQDVFISLNNIEDPQSIENMKAYLCKMATN 61 Query: 91 RCRDLQKSARRKREQYYGEWLPEPLHSMNDDAIDAVVRDDLLSYAMLVLLERLSPTERVV 150 R D +SA KR Y G WLPEPL +D+ + + + LS A L+LL++LS ER+V Sbjct: 62 RSIDKLRSAAHKRNVYVGMWLPEPLVEESDEPSKSFIMKESLSTAYLLLLQQLSEVERIV 121 Query: 151 FVLREALGFDYHEIAELVEKSEVNCRKLFSRANAKMGITSEQLVHSEGATPELVHGFLSA 210 F+LRE ++Y EIA +V+KS VNCRK+F RA M +Q S V F+++ Sbjct: 122 FILREVFSYEYEEIASIVDKSSVNCRKIFQRARKSMLEKPKQSKLSTEKMASYVEKFVAS 181 Query: 211 LKQGNLNQILSILDQEVVLVSDGGGKVSAVVEPLSTRELVAQFLVGPLHRASTIDGVHIE 270 L+ G+ +L +L + +L +DGGGKV+ + P+ + + + + G R + V + Sbjct: 182 LQCGDTEGMLEVLKTDAILKADGGGKVTTAINPIYSADRIIRLFFGIAQRLTEEYTVDFK 241 Query: 271 VVQMNRQPAFILRSSEGIHTVGIFHVEKNRIRNIYIVRNPDKLKH 315 +V N P I+ + + V F E +I NIY++ NP+KL H Sbjct: 242 MV--NGIPGVIVTINNKVTYVLSFAFEDEKISNIYMMVNPEKLMH 284 >ref|NP_656311.1| Sigma70_ECF, Sigma-70 factor (ECF subfamily) [Bacillus anthracis A2012] ref|NP_844830.1| RNA polymerase sigma-70 factor, ECF subfamily [Bacillus anthracis str. Ames] gb|AAP26316.1| RNA polymerase sigma-70 factor, ECF subfamily [Bacillus anthracis str. Ames] Length = 289 Score = 209 bits (533), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 112/285 (39%), Positives = 169/285 (59%), Gaps = 3/285 (1%) Query: 32 DMEELYQKYKGLLFKLAYQLTGSVTDAEDVVHDVFLKIVDVPP-EKLAEPKAYLCKMVTN 90 + E+LY+ Y+ LLF LAY++ GSV DAED+V DVF+ + ++ + + KA+LCKM TN Sbjct: 2 ETEQLYEAYQPLLFSLAYRILGSVMDAEDIVQDVFISLNNIENLQSIENMKAFLCKMATN 61 Query: 91 RCRDLQKSARRKREQYYGEWLPEPLHSMNDDAIDAVVRDDLLSYAMLVLLERLSPTERVV 150 R D +SA KR Y G WLPEPL +++ ++ V + LS A L+LL++LS ER+V Sbjct: 62 RSIDKLRSAAHKRNVYVGMWLPEPLVEESNEPSESFVMKESLSTAYLLLLQQLSEVERIV 121 Query: 151 FVLREALGFDYHEIAELVEKSEVNCRKLFSRANAKMGITSEQLVHSEGATPELVHGFLSA 210 F+LRE ++Y EIA +V+KS VNCRK+F RA + +Q S V F+S+ Sbjct: 122 FILREVFSYEYEEIASIVDKSSVNCRKIFQRARKSILDKPKQSTLSTKKMAAYVEKFVSS 181 Query: 211 LKQGNLNQILSILDQEVVLVSDGGGKVSAVVEPLSTRELVAQFLVGPLHRASTIDGVHIE 270 L+ G+ +L +L + +L +DGGGKV+ + P+ + + + + G R + V + Sbjct: 182 LQCGDAQGMLEVLKTDAILKADGGGKVTTAIHPIYSADRIIRLFFGIAQRLTEAYTVDFK 241 Query: 271 VVQMNRQPAFILRSSEGIHTVGIFHVEKNRIRNIYIVRNPDKLKH 315 +V N P I+ + I V F E +I NIY+V NP+KL H Sbjct: 242 MV--NGMPGVIVTINNKITYVLSFAFEDEKISNIYMVGNPEKLMH 284 >ref|ZP_00186141.1| hypothetical protein Rxyl307101 [Rubrobacter xylanophilus DSM 9941] Length = 298 Score = 203 bits (516), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 110/282 (39%), Positives = 167/282 (59%), Gaps = 7/282 (2%) Query: 34 EELYQKYKGLLFKLAYQLTGSVTDAEDVVHDVFLKIVDVPPEKLAEPKAYLCKMVTNRCR 93 +E++++++ LLF +AY++ GSV DAEDVV + F++ ++ P+AYL +VT C Sbjct: 4 DEVFEEHRPLLFSIAYRMLGSVMDAEDVVQEAFVRWRGA--GEVRSPRAYLSSVVTRLCI 61 Query: 94 DLQKSARRKREQYYGEWLPEPLHSMNDDAIDAVVRDDLLSYAMLVLLERLSPTERVVFVL 153 D +SAR +RE+Y G WLPEPL + + A D V D+ LS A LVLLE LSP ER VF+L Sbjct: 62 DQLRSARARREEYAGPWLPEPLAA--EPAADPAVLDETLSMAFLVLLESLSPVERAVFLL 119 Query: 154 REALGFDYHEIAELVEKSEVNCRKLFSRANAKMGITSEQLVHSEGATPELVHGFLSALKQ 213 RE + Y EIAE+V KSE NCR++ RA + + S G LV F+ A Sbjct: 120 REVFDYGYAEIAEIVGKSEANCRQIARRARQSVAARRPRFDVSPGEGERLVRRFVEASMS 179 Query: 214 GNLNQILSILDQEVVLVSDGGGKVSAVVEPLSTRELVAQFLVGPLHRASTIDGVHIEVVQ 273 G++ +L ++ +++ L +DGGG+V A P+ + VA+FL+G + A +G+ I + Sbjct: 180 GDMEGLLQVISEDITLWTDGGGRVRAARNPIHGADRVARFLLGVIPEAP--EGLEIRYAR 237 Query: 274 MNRQPAFILRSSEGI-HTVGIFHVEKNRIRNIYIVRNPDKLK 314 +N QP + ++G F + RIR + V NP+KL+ Sbjct: 238 VNGQPGIVSYYADGTAQGAAAFDISGGRIRAVRYVINPEKLR 279 >ref|NP_923615.1| RNA polymerase sigma-70 factor [Gloeobacter violaceus] dbj|BAC88610.1| RNA polymerase sigma-70 factor [Gloeobacter violaceus PCC 7421] Length = 300 Score = 192 bits (489), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 107/281 (38%), Positives = 154/281 (54%), Gaps = 3/281 (1%) Query: 35 ELYQKYKGLLFKLAYQLTGSVTDAEDVVHDVFLKIVDVPPEKLAEPKAYLCKMVTNRCRD 94 E +Q+++G+LF +AY++ G+V DAED+V + FL+ + K+YL +VT D Sbjct: 12 ETFQQHRGMLFAIAYRMLGTVADAEDMVQETFLRWQQASAAGVQSQKSYLAAVVTRLSID 71 Query: 95 LQKSARRKREQYYGEWLPEPLHSMNDDAIDAVVRDDLLSYAMLVLLERLSPTERVVFVLR 154 +SAR +REQY G WLPEPL D + D LS A LVLLE LSP ER VF+L Sbjct: 72 HLRSARVRREQYVGPWLPEPLAQTAADPLQQSELADSLSMAFLVLLESLSPLERAVFLLS 131 Query: 155 EALGFDYHEIAELVEKSEVNCRKLFSRANAKMGITSEQLVHSEGATPELVHGFLSALKQG 214 E +D+ EIA +V+KS NCR++ RA + + S + +LV FL A G Sbjct: 132 EVFEYDHAEIARIVDKSPANCRQILRRARRHLAERQPRFRSSRPHSEKLVARFLQACSGG 191 Query: 215 NLNQILSILDQEVVLVSDGGGKVSAVVEPLSTRELVAQFLVGPLHRASTIDGVHIEVVQM 274 +L +L++L EV LV DGGGKV+A + PL VA+F V R + + + Sbjct: 192 DLEGLLAVLAPEVTLVGDGGGKVAATIRPLQGAARVARFFVALRRR---VGHFTLMPTVI 248 Query: 275 NRQPAFILRSSEGIHTVGIFHVEKNRIRNIYIVRNPDKLKH 315 N Q + + + F + + I+ IY VRNP+KL+ Sbjct: 249 NGQSGIAFLVAGNLQSAMTFDITEAGIQTIYSVRNPEKLQR 289 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.320 0.137 0.390 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 446,010,122 Number of extensions: 17494876 Number of successful extensions: 46676 Number of sequences better than 1.0e-05: 70 Number of HSP's gapped: 46654 Number of HSP's successfully gapped: 70 Length of query: 317 Length of database: 757,237,578 Length adjustment: 125 Effective length of query: 192 Effective length of database: 417,850,203 Effective search space: 80227238976 Effective search space used: 80227238976 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 126 (53.1 bits)