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= 0001.3469.p (337 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... 572 e-161 ref|YP_004752564.1| RNA polymerase sigma factor RpoS [Collimonas... 444 e-122 ref|YP_001099559.1| RNA polymerase sigma factor RpoS [Herminiimo... 423 e-116 ref|YP_001353824.1| RNA polymerase sigma factor RpoS [Janthinoba... 422 e-116 ref|ZP_08273157.1| RNA polymerase sigma factor RpoS [Oxalobacter... 413 e-113 >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 = 572 bits (1473), Expect = e-161, Method: Composition-based stats. Identities = 324/337 (96%), Positives = 331/337 (98%) Query: 1 MTSNRRDHLPDQDPREEDMDDPIEEIDEPEVIDGDAAEQPQEAAPAEGVDELKKVLAAEL 60 MTSNRRDHLPDQDPREE++DD ++EIDEPEVIDGDA E+ QEAAPAEGVDELKKVLAAEL Sbjct: 1 MTSNRRDHLPDQDPREEELDDSVDEIDEPEVIDGDAGEEVQEAAPAEGVDELKKVLAAEL 60 Query: 61 STDTTQHYLNKIGAKPLLTAAEELHFATQAKAGEFEARQKMIEHNLRLVVSIAKHYINRG 120 STDTTQHYLNKIGAKPLLTAAEELHFATQAKAGEF ARQKMIEHNLRLVVSIAKHYINRG Sbjct: 61 STDTTQHYLNKIGAKPLLTAAEELHFATQAKAGEFVARQKMIEHNLRLVVSIAKHYINRG 120 Query: 121 VALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHMVR 180 VALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHMVR Sbjct: 121 VALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHMVR 180 Query: 181 ELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHAASLDTPLDNDPQ 240 ELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHAASLDTPLDNDPQ Sbjct: 181 ELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHAASLDTPLDNDPQ 240 Query: 241 ASLMDLLPSAVEEHPDTRAESQEMALLIREWLKSLSEKQRVVVARRFGLDNDDPSTLEQL 300 ASLMDLLPSAVEEHPDTRAESQEMA+LIREWLKSLSEKQRVVVARRFGLDNDDPSTLEQL Sbjct: 241 ASLMDLLPSAVEEHPDTRAESQEMAVLIREWLKSLSEKQRVVVARRFGLDNDDPSTLEQL 300 Query: 301 AGEMGITRERVRQVQQEALVKLKRLLTSRGVSRDALF 337 A EMGITRERVRQVQQEAL+KLKRLLTSRGV RDALF Sbjct: 301 ASEMGITRERVRQVQQEALIKLKRLLTSRGVGRDALF 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 = 444 bits (1142), Expect = e-122, Method: Composition-based stats. Identities = 252/335 (75%), Positives = 283/335 (84%), Gaps = 10/335 (2%) Query: 13 DPREEDMDDPIEEI--DEPEVIDGDAAEQPQEAAPAEGVDE--------LKKVLAAELST 62 D +++++DD E I D E +D AAEQ + LKKVLAAELST Sbjct: 7 DHQDDELDDTSERIADDGQEDVDAVAAEQDVDDEVVVDGVVVVVDGVEELKKVLAAELST 66 Query: 63 DTTQHYLNKIGAKPLLTAAEELHFATQAKAGEFEARQKMIEHNLRLVVSIAKHYINRGVA 122 DTTQHYLN+IG +PLL+ EE+HFAT AK G FEARQKMIEHNLRLVVSIAKHYINRGVA Sbjct: 67 DTTQHYLNQIGTRPLLSVTEEVHFATLAKQGNFEARQKMIEHNLRLVVSIAKHYINRGVA 126 Query: 123 LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHMVREL 182 LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHMVREL Sbjct: 127 LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHMVREL 186 Query: 183 NQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHAASLDTPLDNDPQAS 242 NQILRAKYHLEAQ DG+DASAEDIAHLVDRPVE+VQDVLALSEHAASLD PLD DP AS Sbjct: 187 NQILRAKYHLEAQHHDGKDASAEDIAHLVDRPVEDVQDVLALSEHAASLDAPLDQDPLAS 246 Query: 243 LMDLLPSAVEEHPDTRAESQEMALLIREWLKSLSEKQRVVVARRFGLDNDDPSTLEQLAG 302 LMDLLPSA EE+PD+RAE QEM++L+R WL+ L++KQR V+ RRFGLDNDDPSTLE+LA Sbjct: 247 LMDLLPSATEENPDSRAEQQEMSILVRVWLEKLTDKQRNVIMRRFGLDNDDPSTLEELAA 306 Query: 303 EMGITRERVRQVQQEALVKLKRLLTSRGVSRDALF 337 E+G+TRERVRQ+QQEAL+KLKRLL ++GV +D+ Sbjct: 307 EIGVTRERVRQIQQEALLKLKRLLGAKGVGKDSFL 341 >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 = 423 bits (1087), Expect = e-116, Method: Composition-based stats. Identities = 231/303 (76%), Positives = 258/303 (85%) Query: 35 DAAEQPQEAAPAEGVDELKKVLAAELSTDTTQHYLNKIGAKPLLTAAEELHFATQAKAGE 94 D EA G+DELKKVL++ELSTD TQHYLN+IGA+PLLT EE+HFAT AK G Sbjct: 42 DVESHEPEALEVAGIDELKKVLSSELSTDATQHYLNQIGARPLLTVPEEVHFATLAKQGN 101 Query: 95 FEARQKMIEHNLRLVVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYAT 154 F ARQKMIEHNLRLVVSIAKHYINRGV LLDLIEEGNLGLMRAIDKFEPERGFRFSTYAT Sbjct: 102 FAARQKMIEHNLRLVVSIAKHYINRGVVLLDLIEEGNLGLMRAIDKFEPERGFRFSTYAT 161 Query: 155 WWIRQSIERAIMNQARTVRLPVHMVRELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRP 214 WWIRQSIERAIMNQARTVRLPVH+VRELNQ LRAK+HLEAQ DG+DA+AEDIAHLV+R Sbjct: 162 WWIRQSIERAIMNQARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVERS 221 Query: 215 VEEVQDVLALSEHAASLDTPLDNDPQASLMDLLPSAVEEHPDTRAESQEMALLIREWLKS 274 VE+VQD+LALSEHA+SLD PLD DPQ+SLMDLL PD AE QEM +L+R+WL Sbjct: 222 VEDVQDILALSEHASSLDAPLDGDPQSSLMDLLQGDHANDPDVLAEHQEMIVLVRDWLDK 281 Query: 275 LSEKQRVVVARRFGLDNDDPSTLEQLAGEMGITRERVRQVQQEALVKLKRLLTSRGVSRD 334 LS+KQR+V+ RRFGLDNDDP+TLE+LA EM +TRERVRQ+QQEALVKLKR L GVS+D Sbjct: 282 LSDKQRLVITRRFGLDNDDPATLEELATEMHVTRERVRQIQQEALVKLKRSLARTGVSKD 341 Query: 335 ALF 337 +L Sbjct: 342 SLL 344 >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 = 422 bits (1084), Expect = e-116, Method: Composition-based stats. Identities = 243/346 (70%), Positives = 271/346 (78%), Gaps = 10/346 (2%) Query: 1 MTSNRRDHLPDQDPREE-------DMDDPIEEIDEPEVIDGDAAEQPQEAAPAE--GVDE 51 MT NR H D + + DD E+ D + DGDA E + AP E G+DE Sbjct: 1 MTRNRDVHAEDDENSDALSSELSLQADDDAEKSDITD-DDGDAVELAERVAPVEVAGIDE 59 Query: 52 LKKVLAAELSTDTTQHYLNKIGAKPLLTAAEELHFATQAKAGEFEARQKMIEHNLRLVVS 111 LKKVLA ELSTD TQHYLN+IG +PLLT EE+HFAT AK G F ARQKMIEHNLRLVVS Sbjct: 60 LKKVLATELSTDATQHYLNQIGTRPLLTVPEEVHFATLAKQGNFAARQKMIEHNLRLVVS 119 Query: 112 IAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQART 171 IAKHYINRGV LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQART Sbjct: 120 IAKHYINRGVILLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQART 179 Query: 172 VRLPVHMVRELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHAASL 231 VRLPVH+VRELNQ LRAK+HLEAQ DG+DA+AEDIAHLVDR VE+VQD+LALSEHA SL Sbjct: 180 VRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVDRSVEDVQDILALSEHATSL 239 Query: 232 DTPLDNDPQASLMDLLPSAVEEHPDTRAESQEMALLIREWLKSLSEKQRVVVARRFGLDN 291 D PLD DPQ+SLMDLL PD AE EM +L+ +WL+ L +KQR+V+ RRFGLDN Sbjct: 240 DAPLDGDPQSSLMDLLQGDHANDPDALAEHNEMTVLVHDWLEKLPDKQRLVITRRFGLDN 299 Query: 292 DDPSTLEQLAGEMGITRERVRQVQQEALVKLKRLLTSRGVSRDALF 337 DDP+TLE LA EM +TRERVRQ+QQEALVKLKR L GV +D+L Sbjct: 300 DDPATLEALAAEMHVTRERVRQIQQEALVKLKRSLMRTGVGKDSLL 345 >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 = 413 bits (1061), Expect = e-113, Method: Composition-based stats. Identities = 231/336 (68%), Positives = 269/336 (80%), Gaps = 4/336 (1%) Query: 3 SNRRDHLPDQDPREEDMDDPIEEIDEPEVIDGDAAEQPQEAAP-AEGVDELKKVLAAELS 61 S+ D LPD+D E D E DGDA A + +D+++KVLA+ELS Sbjct: 2 SDVHDALPDED---EAGDGASNEDGLDARGDGDADNDSAGATVLVDSIDDIRKVLASELS 58 Query: 62 TDTTQHYLNKIGAKPLLTAAEELHFATQAKAGEFEARQKMIEHNLRLVVSIAKHYINRGV 121 TDTTQ YLN+IGA+ LLT A+E+H+AT AKAG+F ARQ MIEHNLRLVVSIAKHYINRGV Sbjct: 59 TDTTQLYLNQIGARALLTVAQEVHYATLAKAGDFPARQVMIEHNLRLVVSIAKHYINRGV 118 Query: 122 ALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHMVRE 181 LLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVH++RE Sbjct: 119 VLLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 178 Query: 182 LNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHAASLDTPLDNDPQA 241 LNQ+LRAKYHLEA DG+DAS +DIAHL R E+VQD+LALS+H ASLD PLD DP + Sbjct: 179 LNQVLRAKYHLEALHHDGKDASIDDIAHLTGRSAEDVQDILALSDHPASLDAPLDADPGS 238 Query: 242 SLMDLLPSAVEEHPDTRAESQEMALLIREWLKSLSEKQRVVVARRFGLDNDDPSTLEQLA 301 SLMDLLP + P+ RAE E ALL+R+WL LS+KQR+++ RRFGL++DDP+TLE LA Sbjct: 239 SLMDLLPGDPGDGPEARAEQHETALLVRDWLARLSDKQRLIITRRFGLEDDDPATLEALA 298 Query: 302 GEMGITRERVRQVQQEALVKLKRLLTSRGVSRDALF 337 E+G+TRERVRQVQQEAL+KLKR L +RGV RDAL Sbjct: 299 AEIGVTRERVRQVQQEALIKLKRALATRGVDRDALL 334