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= 0070.0023.p (269 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CC3266 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 241 1e-63 SMb20030 [K] COG1595 DNA-directed RNA polymerase specialized sig... 205 8e-53 mll6869 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 199 6e-51 Rv3328c [K] COG1595 DNA-directed RNA polymerase specialized sigm... 172 8e-43 MT3431 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 161 1e-39 >CC3266 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Ccr Caulobacter vibrioides Length = 291 Score = 241 bits (614), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 141/267 (52%), Positives = 172/267 (64%), Gaps = 9/267 (3%) Query: 1 MLGSRGDADDVVQDAWLRFAAAD--DVRNPEAFLVTVVTRLCLDRLKSARAQREVYVGAW 58 MLGSR +A+DVVQDAWLR+ D +V+ P AFL VVTRL LDRLKSARA+REVYVG W Sbjct: 22 MLGSRAEAEDVVQDAWLRWRGVDVSEVQEPAAFLSRVVTRLALDRLKSARARREVYVGEW 81 Query: 59 LPEPVFDEALSAEAATELADDLSFALMLALDALTPLERAAFLLHDVFDRPFAEVARTLER 118 LPEPV D A DLS A +LAL+ LTPLERAAFLLHDVFD PFAE+A TL R Sbjct: 82 LPEPVVDPDFDAGRDA----DLSVAFLLALERLTPLERAAFLLHDVFDTPFAEIAATLGR 137 Query: 119 SEAACRQLAARARRTVRDNRPVPVEPPEGHARLLTAFCKAAASGDVSALAKLLREDAIAI 178 SE ACR+LA+RAR VR +RP + RL AF +A +GD +AL LL +D + Sbjct: 138 SETACRRLASRAREHVRRDRPRHQPSVDQERRLTAAFFEAVMTGDEAALRDLLAQDVVMH 197 Query: 179 TDGGGRKLAALKPIKGAEKIVRFVIGIAGK-NAGSEVRVEPMMVNGSAGALIFLDGEVDH 237 DGGG A L P++G K V ++G+ K S V VNG G ++ +DG V Sbjct: 198 ADGGGLASANLNPVRGLAKAVALILGVRRKWPPPSATVVRLARVNGQPGFVLAVDGSVFQ 257 Query: 238 TLSMAIDGETGRIAAIYIVRNPDKLRH 264 T+ + +D GRI A+Y VRNP+KL H Sbjct: 258 TVGLEVDA--GRIVAVYTVRNPEKLAH 282 >SMb20030 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Sme Sinorhizobium meliloti Length = 285 Score = 205 bits (522), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 133/271 (49%), Positives = 169/271 (62%), Gaps = 21/271 (7%) Query: 1 MLGSRGDADDVVQDAWLRFAAAD--DVRNPEAFLVTVVTRLCLDRLKSARAQREVYVGAW 58 MLGS DA+D+VQ+A++R+ AD +VR PEAFL VTRLCLD+LKSAR QRE YVG W Sbjct: 27 MLGSVADAEDMVQEAFIRWMGADRAEVREPEAFLRRTVTRLCLDQLKSARRQRETYVGPW 86 Query: 59 LPEPVFDEALSAEAATELADDLSFALMLALDALTPLERAAFLLHDVFDRPFAEVARTLER 118 L E +D++ LMLAL+ L+PLERAAFLLHDVF F EVA T++R Sbjct: 87 L--------PDPVVEEEEVEDVTLPLMLALERLSPLERAAFLLHDVFGLGFEEVAATIQR 138 Query: 119 SEAACRQLAARARRTVRDNRP-VPVEPPEGHARLLTAFCKAAASGDVSALAKLLREDAIA 177 AACRQLAARAR VR+ RP VE G L AF KA+ SGD++A +L D Sbjct: 139 DAAACRQLAARARTHVREARPRFHVEKERG-LELAEAFFKASRSGDMNAFGAMLAADVSI 197 Query: 178 ITDGGGRKLAALKPIKGAEKIVRFVIGIAG---KNAGSEVRVEPMMVNGSAGALIF-LDG 233 DGGG++ AA+ PI G + +++ +A N +RV VNG G + DG Sbjct: 198 HADGGGKRSAAIMPIIGFDAVMKVHEKLAALFRANGSKLLRVG--FVNGLPGFITMEADG 255 Query: 234 EVDHTLSMAIDGETGRIAAIYIVRNPDKLRH 264 E+ T A++ E G++AAIY+VRNPDKLRH Sbjct: 256 EIQTT---ALEIEGGKVAAIYVVRNPDKLRH 283 >mll6869 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Mlo Mesorhizobium loti Length = 286 Score = 199 bits (506), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 133/270 (49%), Positives = 167/270 (61%), Gaps = 19/270 (7%) Query: 1 MLGSRGDADDVVQDAWLRFAAADD--VRNPEAFLVTVVTRLCLDRLKSARAQREVYVGAW 58 MLGS DA+D VQ+A++R+ AD VR PEAFL VTRLCLD+LKSAR +RE YVG W Sbjct: 28 MLGSVADAEDAVQEAFIRWMKADRSAVREPEAFLRRTVTRLCLDQLKSARHKRETYVGPW 87 Query: 59 LPEPVFDEALSAEAATELADDLSFALMLALDALTPLERAAFLLHDVFDRPFAEVARTLER 118 L + +D++ LML L+ L+PLERAAF+LHDVF F EVA +ER Sbjct: 88 L--------PDPVVEEDEVEDVTLPLMLVLERLSPLERAAFMLHDVFGLGFDEVAAAIER 139 Query: 119 SEAACRQLAARARRTVRDNRP-VPVEPPEGHARLLTAFCKAAASGDVSALAKLLREDAIA 177 AACRQLAARAR VR+ RP VE G A L AF A+ SGD+ AL +L D IA Sbjct: 140 DPAACRQLAARARGHVREARPRFTVERQRGLA-LAEAFFTASRSGDMKALGAMLATDVIA 198 Query: 178 ITDGGGRKLAALKPIKGAEKIVRFVIGIAG--KNAGSEVRVEPMMVNGSAGAL-IFLDGE 234 DGGG++ AA P G + ++R +A + GS++ V +NG G + + DGE Sbjct: 199 HADGGGKRPAATLPALGFDAVMRQYEQVAAWLRTHGSKL-VRIGFINGLPGFVSLEADGE 257 Query: 235 VDHTLSMAIDGETGRIAAIYIVRNPDKLRH 264 T A+D E G+IAAIY+VRNPDKLRH Sbjct: 258 FQTT---ALDIEDGKIAAIYVVRNPDKLRH 284 >Rv3328c [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Mtu Mycobacterium tuberculosis H37Rv Length = 312 Score = 172 bits (435), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 108/277 (38%), Positives = 158/277 (57%), Gaps = 12/277 (4%) Query: 1 MLGSRGDADDVVQDAWLRFAAADDV-RNPEAFLVTVVTRLCLDRLKSARAQREVYVGAWL 59 + G+ DA+D+VQ+AWLR+ + D V +P A+L TVV+RL LD+L+SA +RE Y G WL Sbjct: 20 LTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGLDKLRSAAHRRETYTGTWL 79 Query: 60 PEPVFD--EALSAEAATELADDLSFALMLALDALTPLERAAFLLHDVFDRPFAEVARTLE 117 PEPV +A AA A+D FA M+ L+ L P +R AF+LHD F PFAEVA L Sbjct: 80 PEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLHDGFAVPFAEVAEVLG 139 Query: 118 RSEAACRQLAARARRTVRDNRP--VPVEPPEGHARLLTAFCKAAASGDVSALAKLLREDA 175 SEAA RQLA+RAR+ V +P + +P H ++ A A+GD+ + LL D Sbjct: 140 TSEAAARQLASRARKAV-TAQPALISGDPDPAHNEVVGRLMAAMAAGDLDTVVSLLHPDV 198 Query: 176 IAITDGGGRKLAALKPIKGAEKIVRFVIGIAGKNAGSEVRVEPM-MVNGSAGALIFLDGE 234 D G+ A++ ++G++K+VRF++G+ + + +VNG GA Sbjct: 199 TFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLALVNGELGAYTAGLPG 258 Query: 235 VDHTLSM-----AIDGETGRIAAIYIVRNPDKLRHAP 266 VD +M AI G++ A++ + NPDK +P Sbjct: 259 VDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSP 295 >MT3431 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog MtC Mycobacterium tuberculosis CDC1551 Length = 282 Score = 161 bits (408), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 103/266 (38%), Positives = 150/266 (56%), Gaps = 12/266 (4%) Query: 12 VQDAWLRFAAADDV-RNPEAFLVTVVTRLCLDRLKSARAQREVYVGAWLPEPVFD--EAL 68 +Q+AWLR+ + D V +P A+L TVV+RL LD+L+SA +RE Y G WLPEPV +A Sbjct: 1 MQEAWLRWDSQDTVIADPRAWLTTVVSRLGLDKLRSAAHRRETYTGTWLPEPVVTGLDAT 60 Query: 69 SAEAATELADDLSFALMLALDALTPLERAAFLLHDVFDRPFAEVARTLERSEAACRQLAA 128 AA A+D FA M+ L+ L P +R AF+LHD F PFAEVA L SEAA RQLA+ Sbjct: 61 DPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLAS 120 Query: 129 RARRTVRDNRP--VPVEPPEGHARLLTAFCKAAASGDVSALAKLLREDAIAITDGGGRKL 186 RAR+ V +P + +P H ++ A A+GD+ + LL D D G+ Sbjct: 121 RARKAV-TAQPALISGDPDPAHNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAP 179 Query: 187 AALKPIKGAEKIVRFVIGIAGKNAGSEVRVEPM-MVNGSAGALIFLDGEVDHTLSM---- 241 A++ ++G++K+VRF++G+ + + +VNG GA VD +M Sbjct: 180 TAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRI 239 Query: 242 -AIDGETGRIAAIYIVRNPDKLRHAP 266 AI G++ A++ + NPDK +P Sbjct: 240 TAITVRDGKVCALWDIANPDKFTGSP 265