BLASTP 2.2.21 [Jun-14-2009] 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. Query= 0005.0060.p (289 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_003776355.1| RNA polymerase sigma S (sigma38) factor prot... 519 e-145 ref|YP_004752564.1| RNA polymerase sigma factor RpoS [Collimonas... 506 e-141 ref|YP_001353824.1| RNA polymerase sigma factor RpoS [Janthinoba... 501 e-140 ref|YP_001099559.1| RNA polymerase sigma factor RpoS [Herminiimo... 490 e-137 ref|ZP_08273157.1| RNA polymerase sigma factor RpoS [Oxalobacter... 461 e-128 >ref|YP_003776355.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum seropedicae SmR1] gb|ADJ64447.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 519 bits (1336), Expect = e-145, Method: Compositional matrix adjust. Identities = 250/289 (86%), Positives = 274/289 (94%) Query: 1 VEELKKVLAAELSTDTTQHYLNQIGTRPLLTAPEELYFATLAKQGDFASRQKMIEHNLRL 60 V+ELKKVLAAELSTDTTQHYLN+IG +PLLTA EEL+FAT AK G+F +RQKMIEHNLRL Sbjct: 49 VDELKKVLAAELSTDTTQHYLNKIGAKPLLTAAEELHFATQAKAGEFVARQKMIEHNLRL 108 Query: 61 VVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 120 VVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ Sbjct: 109 VVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 168 Query: 121 ARTVRLPVHMVRELNQILRAKYHLEAQHHDGRDATAEDIAHLVDRPVEDVQDVLALSEHA 180 ARTVRLPVHMVRELNQILRAKYHLEAQ DGRDA+AEDIAHLVDRPVE+VQDVLALSEHA Sbjct: 169 ARTVRLPVHMVRELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHA 228 Query: 181 ASLDTPLDNDPQASLIDLLPGSLDESPDSKAEYHEVSILIRDWLKNLPDKQRIVITRRFG 240 ASLDTPLDNDPQASL+DLLP +++E PD++AE E+++LIR+WLK+L +KQR+V+ RRFG Sbjct: 229 ASLDTPLDNDPQASLMDLLPSAVEEHPDTRAESQEMAVLIREWLKSLSEKQRVVVARRFG 288 Query: 241 LDNDDPSTLEQLASEMGITRERVRQVQQEALIKLKRSLLARGVGKDALF 289 LDNDDPSTLEQLASEMGITRERVRQVQQEALIKLKR L +RGVG+DALF Sbjct: 289 LDNDDPSTLEQLASEMGITRERVRQVQQEALIKLKRLLTSRGVGRDALF 337 >ref|YP_004752564.1| RNA polymerase sigma factor RpoS [Collimonas fungivorans Ter331] gb|AEK61741.1| RNA polymerase sigma factor RpoS [Collimonas fungivorans Ter331] Length = 341 Score = 506 bits (1304), Expect = e-141, Method: Compositional matrix adjust. Identities = 244/286 (85%), Positives = 267/286 (93%) Query: 4 LKKVLAAELSTDTTQHYLNQIGTRPLLTAPEELYFATLAKQGDFASRQKMIEHNLRLVVS 63 LKKVLAAELSTDTTQHYLNQIGTRPLL+ EE++FATLAKQG+F +RQKMIEHNLRLVVS Sbjct: 56 LKKVLAAELSTDTTQHYLNQIGTRPLLSVTEEVHFATLAKQGNFEARQKMIEHNLRLVVS 115 Query: 64 IAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQART 123 IAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQART Sbjct: 116 IAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQART 175 Query: 124 VRLPVHMVRELNQILRAKYHLEAQHHDGRDATAEDIAHLVDRPVEDVQDVLALSEHAASL 183 VRLPVHMVRELNQILRAKYHLEAQHHDG+DA+AEDIAHLVDRPVEDVQDVLALSEHAASL Sbjct: 176 VRLPVHMVRELNQILRAKYHLEAQHHDGKDASAEDIAHLVDRPVEDVQDVLALSEHAASL 235 Query: 184 DTPLDNDPQASLIDLLPGSLDESPDSKAEYHEVSILIRDWLKNLPDKQRIVITRRFGLDN 243 D PLD DP ASL+DLLP + +E+PDS+AE E+SIL+R WL+ L DKQR VI RRFGLDN Sbjct: 236 DAPLDQDPLASLMDLLPSATEENPDSRAEQQEMSILVRVWLEKLTDKQRNVIMRRFGLDN 295 Query: 244 DDPSTLEQLASEMGITRERVRQVQQEALIKLKRSLLARGVGKDALF 289 DDPSTLE+LA+E+G+TRERVRQ+QQEAL+KLKR L A+GVGKD+ Sbjct: 296 DDPSTLEELAAEIGVTRERVRQIQQEALLKLKRLLGAKGVGKDSFL 341 >ref|YP_001353824.1| RNA polymerase sigma factor RpoS [Janthinobacterium sp. Marseille] gb|ABR89247.1| RNA polymerase nonessential primary-like sigma factor [Janthinobacterium sp. Marseille] Length = 345 Score = 501 bits (1291), Expect = e-140, Method: Compositional matrix adjust. Identities = 238/289 (82%), Positives = 266/289 (92%) Query: 1 VEELKKVLAAELSTDTTQHYLNQIGTRPLLTAPEELYFATLAKQGDFASRQKMIEHNLRL 60 ++ELKKVLA ELSTD TQHYLNQIGTRPLLT PEE++FATLAKQG+FA+RQKMIEHNLRL Sbjct: 57 IDELKKVLATELSTDATQHYLNQIGTRPLLTVPEEVHFATLAKQGNFAARQKMIEHNLRL 116 Query: 61 VVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 120 VVSIAKHYINRGV LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ Sbjct: 117 VVSIAKHYINRGVILLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 176 Query: 121 ARTVRLPVHMVRELNQILRAKYHLEAQHHDGRDATAEDIAHLVDRPVEDVQDVLALSEHA 180 ARTVRLPVH+VRELNQ LRAK+HLEAQHHDG+DATAEDIAHLVDR VEDVQD+LALSEHA Sbjct: 177 ARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVDRSVEDVQDILALSEHA 236 Query: 181 ASLDTPLDNDPQASLIDLLPGSLDESPDSKAEYHEVSILIRDWLKNLPDKQRIVITRRFG 240 SLD PLD DPQ+SL+DLL G PD+ AE++E+++L+ DWL+ LPDKQR+VITRRFG Sbjct: 237 TSLDAPLDGDPQSSLMDLLQGDHANDPDALAEHNEMTVLVHDWLEKLPDKQRLVITRRFG 296 Query: 241 LDNDDPSTLEQLASEMGITRERVRQVQQEALIKLKRSLLARGVGKDALF 289 LDNDDP+TLE LA+EM +TRERVRQ+QQEAL+KLKRSL+ GVGKD+L Sbjct: 297 LDNDDPATLEALAAEMHVTRERVRQIQQEALVKLKRSLMRTGVGKDSLL 345 >ref|YP_001099559.1| RNA polymerase sigma factor RpoS [Herminiimonas arsenicoxydans] emb|CAL61432.1| RNA polymerase sigma factor rpoS (Sigma-38) [Herminiimonas arsenicoxydans] Length = 344 Score = 490 bits (1262), Expect = e-137, Method: Compositional matrix adjust. Identities = 234/289 (80%), Positives = 262/289 (90%) Query: 1 VEELKKVLAAELSTDTTQHYLNQIGTRPLLTAPEELYFATLAKQGDFASRQKMIEHNLRL 60 ++ELKKVL++ELSTD TQHYLNQIG RPLLT PEE++FATLAKQG+FA+RQKMIEHNLRL Sbjct: 56 IDELKKVLSSELSTDATQHYLNQIGARPLLTVPEEVHFATLAKQGNFAARQKMIEHNLRL 115 Query: 61 VVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 120 VVSIAKHYINRGV LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ Sbjct: 116 VVSIAKHYINRGVVLLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 175 Query: 121 ARTVRLPVHMVRELNQILRAKYHLEAQHHDGRDATAEDIAHLVDRPVEDVQDVLALSEHA 180 ARTVRLPVH+VRELNQ LRAK+HLEAQHHDG+DATAEDIAHLV+R VEDVQD+LALSEHA Sbjct: 176 ARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVERSVEDVQDILALSEHA 235 Query: 181 ASLDTPLDNDPQASLIDLLPGSLDESPDSKAEYHEVSILIRDWLKNLPDKQRIVITRRFG 240 +SLD PLD DPQ+SL+DLL G PD AE+ E+ +L+RDWL L DKQR+VITRRFG Sbjct: 236 SSLDAPLDGDPQSSLMDLLQGDHANDPDVLAEHQEMIVLVRDWLDKLSDKQRLVITRRFG 295 Query: 241 LDNDDPSTLEQLASEMGITRERVRQVQQEALIKLKRSLLARGVGKDALF 289 LDNDDP+TLE+LA+EM +TRERVRQ+QQEAL+KLKRSL GV KD+L Sbjct: 296 LDNDDPATLEELATEMHVTRERVRQIQQEALVKLKRSLARTGVSKDSLL 344 >ref|ZP_08273157.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium IMCC9480] gb|EGF33384.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium IMCC9480] Length = 334 Score = 461 bits (1186), Expect = e-128, Method: Compositional matrix adjust. Identities = 218/289 (75%), Positives = 256/289 (88%) Query: 1 VEELKKVLAAELSTDTTQHYLNQIGTRPLLTAPEELYFATLAKQGDFASRQKMIEHNLRL 60 +++++KVLA+ELSTDTTQ YLNQIG R LLT +E+++ATLAK GDF +RQ MIEHNLRL Sbjct: 46 IDDIRKVLASELSTDTTQLYLNQIGARALLTVAQEVHYATLAKAGDFPARQVMIEHNLRL 105 Query: 61 VVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 120 VVSIAKHYINRGV LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ Sbjct: 106 VVSIAKHYINRGVVLLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQ 165 Query: 121 ARTVRLPVHMVRELNQILRAKYHLEAQHHDGRDATAEDIAHLVDRPVEDVQDVLALSEHA 180 ARTVRLPVH++RELNQ+LRAKYHLEA HHDG+DA+ +DIAHL R EDVQD+LALS+H Sbjct: 166 ARTVRLPVHVIRELNQVLRAKYHLEALHHDGKDASIDDIAHLTGRSAEDVQDILALSDHP 225 Query: 181 ASLDTPLDNDPQASLIDLLPGSLDESPDSKAEYHEVSILIRDWLKNLPDKQRIVITRRFG 240 ASLD PLD DP +SL+DLLPG + P+++AE HE ++L+RDWL L DKQR++ITRRFG Sbjct: 226 ASLDAPLDADPGSSLMDLLPGDPGDGPEARAEQHETALLVRDWLARLSDKQRLIITRRFG 285 Query: 241 LDNDDPSTLEQLASEMGITRERVRQVQQEALIKLKRSLLARGVGKDALF 289 L++DDP+TLE LA+E+G+TRERVRQVQQEALIKLKR+L RGV +DAL Sbjct: 286 LEDDDPATLEALAAEIGVTRERVRQVQQEALIKLKRALATRGVDRDALL 334