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= 0030.0059.p (329 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... 192 1e-48 BH0672 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 158 1e-38 SMb20030 [K] COG1595 DNA-directed RNA polymerase specialized sig... 154 3e-37 mll6869 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 149 6e-36 Rv3328c [K] COG1595 DNA-directed RNA polymerase specialized sigm... 142 7e-34 >CC3266 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Ccr Caulobacter vibrioides Length = 291 Score = 192 bits (487), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 125/326 (38%), Positives = 176/326 (53%), Gaps = 40/326 (12%) Query: 5 LALALFTQHRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKAVLDSAEAWLVTVVTRL 64 +A +F R + G+AYRML SR+EA+DV+QDAWLRW D + + A+L VVTRL Sbjct: 3 VAETIFETRRRAMTGLAYRMLGSRAEAEDVVQDAWLRWRGVDVSEVQEPAAFLSRVVTRL 62 Query: 65 CIDRLRQLQQERQHYVGHWLPEPLVDLAEPGPGPDIDLYGQAHLAPSPEQLLEQHSDLSF 124 +DRL+ + R+ YVG WLPEP+VD PD D + +DLS Sbjct: 63 ALDRLKSARARREVYVGEWLPEPVVD-------PDFD--------------AGRDADLSV 101 Query: 125 AYLLLLERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLDTKPTRAAQQXGLARQ 184 A+LL LERL P ERAAFLL +VFD + +IAA L +SE +CR+L +RA + R Sbjct: 102 AFLLALERLTPLERAAFLLHDVFDTPFAEIAATLGRSETACRRL---ASRAREHVRRDRP 158 Query: 185 GHQADPRSPAVRAASSPVTRETHALLLEKFMQALQSGQREAMLGLLAEDARLIGDGGGKV 244 HQ P+V + L F +A+ +G A+ LLA+D + DGGG Sbjct: 159 RHQ-----PSV---------DQERRLTAAFFEAVMTGDEAALRDLLAQDVVMHADGGGLA 204 Query: 245 ASFPHPLEGAERISWLYYANVRRF--GARIVYRAAWINGAAGLLRYVDGVLESAQALQWQ 302 ++ +P+ G + L R++ + V R A +NG G + VDG + L+ Sbjct: 205 SANLNPVRGLAKAVALILGVRRKWPPPSATVVRLARVNGQPGFVLAVDGSVFQTVGLEVD 264 Query: 303 AGRVSAIYVVRNPDKLAAIARQQLAV 328 AGR+ A+Y VRNP+KLA + Q L + Sbjct: 265 AGRIVAVYTVRNPEKLAHLDPQALGL 290 >BH0672 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Bha Bacillus halodurans Length = 285 Score = 158 bits (400), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 88/311 (28%), Positives = 163/311 (52%), Gaps = 35/311 (11%) Query: 10 FTQHRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKAVLDSAEAWLVTVVTRLCIDRL 69 + Q +P LF + YR+L S ++A+D++Q+ +LR + ++ +++ +A+L ++T C+D L Sbjct: 8 YEQLKPLLFSLGYRLLGSVTDAEDLVQETFLRAYQAEEREINNKKAYLCKMMTNRCLDVL 67 Query: 70 RQLQQERQHYVGHWLPEPLVDLAEPGPGPDIDLYGQAHLAPSPEQLLEQHSDLSFAYLLL 129 + +++R+ YVG WLPEPL+ ++ P + + Q LS AYL + Sbjct: 68 KSARRKREQYVGPWLPEPLLITSD-----------------DPSEAILQKEGLSMAYLRM 110 Query: 130 LERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLDTKPTRAAQQXGLARQGHQAD 189 +E L P ERA FLLREVF Y +IA++++K E +CR+L ++ A Sbjct: 111 MEHLTPHERAVFLLREVFTFSYREIASMMEKKEDNCRKLYSR----------------AK 154 Query: 190 PRSPAVRAASSPVTRETHALLLEKFMQALQSGQREAMLGLLAEDARLIGDGGGKVASFPH 249 + AV+ S + E + ++++F+ + Q+ + +L LL++ L DGGGKV + Sbjct: 155 EKLSAVKGES--LHYENNRSVVDRFIHSFQTEDQGDLLELLSDHVTLYTDGGGKVRAALR 212 Query: 250 PLEGAERISWLYYANVRRFGARIVYRAAWINGAAGLLRYVDGVLESAQALQWQAGRVSAI 309 P+ + ++ + ++ +NG L+ Y D L + G++ I Sbjct: 213 PIYTKDHVAAFLFGIAKKRPNDFYVEVKNVNGQPALISYADSKLYNVICFYIVGGQIQDI 272 Query: 310 YVVRNPDKLAA 320 Y++ NP+KL + Sbjct: 273 YIIMNPEKLPS 283 >SMb20030 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Sme Sinorhizobium meliloti Length = 285 Score = 154 bits (388), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 113/317 (35%), Positives = 171/317 (53%), Gaps = 56/317 (17%) Query: 10 FTQHRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKAVLDSAEAWLVTVVTRLCIDRL 69 F RP+L VAYRML S ++A+D++Q+A++RW D+A + EA+L VTRLC+D+L Sbjct: 13 FDPLRPKLMRVAYRMLGSVADAEDMVQEAFIRWMGADRAEVREPEAFLRRTVTRLCLDQL 72 Query: 70 RQLQQERQHYVGHWLPEPLVDLAEPGPGPDIDLYGQAHLAPSPEQLLEQHSDLSFAYLLL 129 + +++R+ YVG WL P P E+ D++ +L Sbjct: 73 KSARRQRETYVGPWL-------------------------PDPVVEEEEVEDVTLPLMLA 107 Query: 130 LERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLDTKPTRAAQQXGLARQGHQAD 189 LERL P ERAAFLL +VF + ++AA +Q+ A+CRQL AA+ R +A Sbjct: 108 LERLSPLERAAFLLHDVFGLGFEEVAATIQRDAAACRQL------AARARTHVR---EAR 158 Query: 190 PRSPAVRAASSPVTRETHALLLEKFMQALQSGQREAMLGLLAEDARLIGDGGGKVASFPH 249 PR V +E L E F +A +SG A +LA D + DGGGK ++ Sbjct: 159 PR--------FHVEKERGLELAEAFFKASRSGDMNAFGAMLAADVSIHADGGGKRSAAIM 210 Query: 250 PLEGA-------ERISWLYYANVRRFGARIVYRAAWINGAAGLLRY-VDGVLESAQALQW 301 P+ G E+++ L+ AN G++++ R ++NG G + DG +++ AL+ Sbjct: 211 PIIGFDAVMKVHEKLAALFRAN----GSKLL-RVGFVNGLPGFITMEADGEIQTT-ALEI 264 Query: 302 QAGRVSAIYVVRNPDKL 318 + G+V+AIYVVRNPDKL Sbjct: 265 EGGKVAAIYVVRNPDKL 281 >mll6869 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Mlo Mesorhizobium loti Length = 286 Score = 149 bits (377), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 113/319 (35%), Positives = 168/319 (52%), Gaps = 48/319 (15%) Query: 4 DLALALFTQHRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKAVLDSAEAWLVTVVTR 63 D A A F RP+L VAYRML S ++A+D +Q+A++RW D++ + EA+L VTR Sbjct: 8 DDAAAGFAPLRPKLMRVAYRMLGSVADAEDAVQEAFIRWMKADRSAVREPEAFLRRTVTR 67 Query: 64 LCIDRLRQLQQERQHYVGHWLPEPLVDLAEPGPGPDIDLYGQAHLAPSPEQLLEQHSDLS 123 LC+D+L+ + +R+ YVG WL P P ++ D++ Sbjct: 68 LCLDQLKSARHKRETYVGPWL-------------------------PDPVVEEDEVEDVT 102 Query: 124 FAYLLLLERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLDTKPTRAAQQXGLAR 183 +L+LERL P ERAAF+L +VF + ++AA +++ A+CRQL AA+ G R Sbjct: 103 LPLMLVLERLSPLERAAFMLHDVFGLGFDEVAAAIERDPAACRQL------AARARGHVR 156 Query: 184 QGHQADPRSPAVRAASSPVTRETHALLLEKFMQALQSGQREAMLGLLAEDARLIGDGGGK 243 +A PR V R+ L E F A +SG +A+ +LA D DGGGK Sbjct: 157 ---EARPR--------FTVERQRGLALAEAFFTASRSGDMKALGAMLATDVIAHADGGGK 205 Query: 244 VASFPHPLEGAERISWLY---YANVRRFGARIVYRAAWINGAAGLLRY-VDGVLESAQAL 299 + P G + + Y A +R G+++V R +ING G + DG ++ AL Sbjct: 206 RPAATLPALGFDAVMRQYEQVAAWLRTHGSKLV-RIGFINGLPGFVSLEADGEFQT-TAL 263 Query: 300 QWQAGRVSAIYVVRNPDKL 318 + G+++AIYVVRNPDKL Sbjct: 264 DIEDGKIAAIYVVRNPDKL 282 >Rv3328c [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Mtu Mycobacterium tuberculosis H37Rv Length = 312 Score = 142 bits (359), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 100/318 (31%), Positives = 157/318 (49%), Gaps = 41/318 (12%) Query: 10 FTQHRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKAVLDSAEAWLVTVVTRLCIDRL 69 F R L VAYR+ + ++A+D++Q+AWLRW + D + D AWL TVV+RL +D+L Sbjct: 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADP-RAWLTTVVSRLGLDKL 64 Query: 70 RQLQQERQHYVGHWLPEPLVDLAEPGPGPDIDLYGQAHLAPSPEQLLEQHSDLSFAYLLL 129 R R+ Y G WLPEP+V G D A P + D FA +++ Sbjct: 65 RSAAHRRETYTGTWLPEPVVT------GLD---------ATDPLAAVVAAEDARFAAMVV 109 Query: 130 LERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLDTKPTRAAQQXGLARQGHQAD 189 LERL+P++R AF+L + F + ++A +L SEA+ RQL ++ AR+ A Sbjct: 110 LERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASR----------ARKAVTAQ 159 Query: 190 PRSPAVRAASSPVTRETHALLLEKFMQALQSGQREAMLGLLAEDARLIGDGGGKVASFPH 249 P A S H ++ + M A+ +G + ++ LL D GD GK + Sbjct: 160 P------ALISGDPDPAHNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVR 213 Query: 250 PLEGAERISWLYYANVRRFGARI--VYRAAWINGAAGL----LRYVDGVLESA---QALQ 300 + G++++ V+R+G + + A +NG G L VDG A A+ Sbjct: 214 AVRGSDKVVRFILGLVQRYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAIT 273 Query: 301 WQAGRVSAIYVVRNPDKL 318 + G+V A++ + NPDK Sbjct: 274 VRDGKVCALWDIANPDKF 291