Pairwise Alignments

Query, 1341 a.a., DNA-directed RNA polymerase subunit beta from Vibrio cholerae E7946 ATCC 55056

Subject, 1374 a.a., DNA-directed RNA polymerase subunit beta from Rhodopseudomonas palustris CGA009

 Score = 1582 bits (4097), Expect = 0.0
 Identities = 808/1363 (59%), Positives = 1036/1363 (76%), Gaps = 32/1363 (2%)

Query: 4    SYTEKKRIRKDFGTRPQVLDIPYLLSIQLDSFEKF--IEQDPEGQ--YGLEAAFRSVFPI 59
            ++T +KR+RK FG   +V ++P L+ +Q  S+++F  + + P G+   GL+A FRSVFPI
Sbjct: 5    TFTGRKRVRKFFGHIREVAEMPNLIEVQKASYDQFLMVAEPPGGRPDEGLQAVFRSVFPI 64

Query: 60   QSYNGNSELQYVSYRLGEPVFDVKECQIRGVTYSKPLRVKLRLVIFDKDAPAG--TVKDI 117
              ++  S L++V Y    P +DV EC+ RG+TY+ PL+V LRL++FD D   G  +VKDI
Sbjct: 65   SDFSNASMLEFVRYEFEPPKYDVDECRQRGMTYAAPLKVTLRLIVFDIDEETGARSVKDI 124

Query: 118  KEQEVYMGEIPLMTENGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNARII 177
            KEQ+VYMG+IPLMT NGTF++NGTERVIVSQ+HRSPGVFFD DKGKTHSSGK+L+ ARII
Sbjct: 125  KEQDVYMGDIPLMTMNGTFIVNGTERVIVSQMHRSPGVFFDHDKGKTHSSGKLLFAARII 184

Query: 178  PYRGSWLDFEFDPKDNLYVRIDRRRKLPASIILRALGKTSAEILDIFFEKVNFEVKDQTL 237
            PYRGSWLD EFD KD +Y RIDRRRKLP + ++ ALG    EIL  F+ K+ ++   +  
Sbjct: 185  PYRGSWLDIEFDAKDIVYARIDRRRKLPVTSLMFALGLDGEEILSTFYNKILYKRTKEGW 244

Query: 238  MMELVPERLRGETATFD-IEAD-GKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYIVGK 295
             +     R RG +   D I+AD GKV +E G+++T R  RQL++ G+  + +  E +VG 
Sbjct: 245  RVPFDVNRFRGYSTVNDLIDADTGKVVLEAGKKLTVRAARQLQEKGLKALRMSDEELVGN 304

Query: 296  VSAKDYVNEATGELIITANQEISLEALANLSQAGYKKLEVLFTNDLDHGPFMSETLRVDS 355
              A+D VN  TGE+   A +EI+ + L  L++ GYK+L +L  + ++ GP++  TL  D 
Sbjct: 305  YLAEDLVNPKTGEIYAEAGEEITDKTLKMLNEQGYKELPLLDIDHVNVGPYIRNTLNADK 364

Query: 356  TTDRISALVEIYRMMRPGEPPTKEAAESLFESLFFSAERYDLSTVGRMKFNSSIGREDAE 415
               R  AL +IYR+MRPGEPPT ++A+++F+SLFF AERYDLS VGR+K N  +  +  +
Sbjct: 365  NMTREDALFDIYRVMRPGEPPTLDSAQNMFQSLFFDAERYDLSAVGRVKMNMRLDLDAPD 424

Query: 416  EQGTLDEVDIIEVMKKLISIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAV 475
               TL + DI+ V+K L+ +R+GKGE+DDIDHLGNRR+RSVGE+ ENQ+R+GL+R+ERA+
Sbjct: 425  THRTLRKEDILAVIKTLVGLRDGKGEIDDIDHLGNRRVRSVGELMENQYRIGLLRMERAI 484

Query: 476  KERLSLGDLDNVMPQDLINAKPISAAVKEFFGSSQLSQFMDQNNPLSEVTHKRRISALGP 535
            KER+S  D+D VMPQDLINAKP +AAV+EFFGSSQLSQFMDQ NPLSE+THKRR+SALGP
Sbjct: 485  KERMSSVDIDTVMPQDLINAKPAAAAVREFFGSSQLSQFMDQTNPLSEITHKRRLSALGP 544

Query: 536  GGLTRERAGFEVRDVHVTHYGRLCPIETPEGPNIGLINSLSAFARCNEYGFLETPYRRVV 595
            GGLTRERAGFEVRDVH THYGR+CPIETPEGPNIGLINSL+ FAR N+YGF+ETPYR+V 
Sbjct: 545  GGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATFARVNKYGFVETPYRKVK 604

Query: 596  NGVVTDEVDYLSAIEEGQFVIAQANAKLTEEGGFADELVTARQKGESGL--HPREHVDYM 653
             G VTDEV YLSA+EEG++ +AQAN  L  +G F D+LV  R  G   +   P + VDYM
Sbjct: 605  EGRVTDEVVYLSAMEEGRYAVAQANVSLDAKGKFTDDLVVCRAGGTRDVVPMPADQVDYM 664

Query: 654  DVATNQVVSIAASLIPFLEHDDANRALMGANMQRQAVPTLRSEKPLVGTGIERNVAVDSG 713
            DV+  Q+VS+AA+LIPFLE+DDANRALMG+NMQRQAVP +R+E P VGTG+E  VA DSG
Sbjct: 665  DVSPKQLVSVAAALIPFLENDDANRALMGSNMQRQAVPLVRAEAPFVGTGMEGVVARDSG 724

Query: 714  VTAVAKRGGVIQSVDASRIVVKVNEEELIPGEAGIDIYNLTKYTRSNQNTCINQRPCVMP 773
                A+R G+I  +DA+RIV++   E+L P ++G+DIY L KY RSNQ+TCINQRP V  
Sbjct: 725  AAIAARRTGIIDQIDATRIVIRAT-EDLDPTKSGVDIYRLMKYQRSNQSTCINQRPLVKV 783

Query: 774  GEPVARGDVLADGPSTDLGELALGQNMRIAFMPWNGYNFEDSILVSERVVQDDRFTTIHI 833
            G+ V +GD++ADGPSTDLGELALG+N+ +AFMPWNGYNFEDSIL+SER+V++D FT+IHI
Sbjct: 784  GDHVKKGDIIADGPSTDLGELALGRNVLVAFMPWNGYNFEDSILLSERIVKEDVFTSIHI 843

Query: 834  QELSCVARDTKLGAEEITADIPNVGEAALSKLDESGIVYIGAEVKGGDILVGKVTPKGET 893
            +E   +ARDTKLG EEIT DIPNV E AL  LDE+GIVYIGAEV+ GDILVGK+TPKGE+
Sbjct: 844  EEFEVMARDTKLGPEEITRDIPNVSEEALKNLDEAGIVYIGAEVRAGDILVGKITPKGES 903

Query: 894  QLTPEEKLLRAIFGEKASDVKDTSLRVPNSVAGTVIDVQVFTRDGVEKDKRALEIEQMQL 953
             +TPEEKLLRAIFGEKASDV+DTSLRVP  V GT+++V+VF R GV+KD+RAL IE+ ++
Sbjct: 904  PMTPEEKLLRAIFGEKASDVRDTSLRVPPGVQGTIVEVRVFNRHGVDKDERALAIEREEI 963

Query: 954  KEAKKDLTEEFQILEGGLLARVRSVL-----LAG--GY------TEAKLGSIERKKWLEQ 1000
            +   KD  +E  IL+  +  R+  +L     +AG  G+      T A L    + +W   
Sbjct: 964  ERLAKDRDDEQAILDRNVYGRLADLLDGRQGIAGPKGFKKDTKITRAVLEEYPKSQWWLF 1023

Query: 1001 TLENEELQNQLEQLAEQYDELKADFDKKFEAKRRKITQGDDLAPGVLKIVKVYLAVKRRI 1060
               N++L  ++E + +QYDE K   +++F  K  K+ +GD+L PGV+K+VKV++AVKR+I
Sbjct: 1024 AAPNDKLMAEIEAMRKQYDESKKGLEQRFLDKVEKLQRGDELPPGVMKMVKVFVAVKRKI 1083

Query: 1061 QPGDKMAGRHGNKGVISKINPVEDMPYDENGQPVDIVLNPLGVPSRMNIGQILEVHLGLA 1120
            QPGDKMAGRHGNKGV+SKI P+EDMP+ E+G   DIVLNPLGVPSRMN+GQILE HLG A
Sbjct: 1084 QPGDKMAGRHGNKGVVSKIVPIEDMPFLEDGTHADIVLNPLGVPSRMNVGQILETHLGWA 1143

Query: 1121 AKGIGDKINQMIK---EQQELAKLREFLQKVYDLGDTRQRVDISELSDEDVRTLAHNLRA 1177
              G+G +I + I    + Q+L  LRE L+K+Y   +T     I  L D ++  L  NL  
Sbjct: 1144 CAGLGKRIGETIDAYYQSQDLKPLRETLRKIYGEDET-----IKSLDDGELLELGRNLSH 1198

Query: 1178 GLPVATPVFDGAPESSIKAMLELADLPASGQLTLFDGRTGDAFERPVTVGYMYMLKLNHL 1237
            G+P+ATPVFDGA E+ I+ ML+LA   ASGQ T++DGRTGD F+R VTVGY+YMLKL+HL
Sbjct: 1199 GVPIATPVFDGAKEADIEEMLKLAGFDASGQSTVYDGRTGDQFDRRVTVGYIYMLKLHHL 1258

Query: 1238 VDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDV 1297
            VDDK+HARS G YSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDV
Sbjct: 1259 VDDKIHARSIGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDV 1318

Query: 1298 NGRTKMYKNIVDGNHAMEPGMPESFNVLLKEIRSLGINIELED 1340
             GRTK+Y+ IV G+   E G+PESFNVL+KE+RSLG+N++L +
Sbjct: 1319 AGRTKVYEAIVRGDDTFEAGIPESFNVLVKEMRSLGLNVDLHN 1361