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 beta subunit (EC 2.7.7.6) from Hydrogenophaga sp. GW460-11-11-14-LB1

 Score = 1714 bits (4439), Expect = 0.0
 Identities = 858/1368 (62%), Positives = 1076/1368 (78%), Gaps = 33/1368 (2%)

Query: 3    YSYTEKKRIRKDFGTRPQVLDIPYLLSIQLDSFEKFIEQDPEGQY----GLEAAFRSVFP 58
            YSYTE+KRIRK FGTR  VL IPYLL +Q D++  F++ D   +     GL+AAF + FP
Sbjct: 7    YSYTERKRIRKSFGTRENVLAIPYLLQMQKDAYTAFLQADSAPKKRTAEGLQAAFEAAFP 66

Query: 59   IQSYNGNSELQYVSYRLGEPVFDVKECQIRGVTYSKPLRVKLRLVIFDKD---APAGTVK 115
            I S+NG  E+++V Y L +P FDV+ECQ RG+T++  +R +++L+I+D++   A +  VK
Sbjct: 67   IVSHNGFVEMKFVEYNLAKPAFDVRECQTRGLTFASAVRARVQLIIYDRESSTAQSKVVK 126

Query: 116  DIKEQEVYMGEIPLMTENGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNAR 175
            ++KEQEVYMGE+PLMTE G+F+INGTERVIVSQLHRSPGVFF+ DKGKTHSSGK+L++AR
Sbjct: 127  EVKEQEVYMGEVPLMTEKGSFIINGTERVIVSQLHRSPGVFFEHDKGKTHSSGKLLFSAR 186

Query: 176  IIPYRGSWLDFEFDPKDNLYVRIDRRRKLPASIILRALGKTSAEILDIFFEKVNFEVKDQ 235
            IIPYRGSWLDFEFDPKD L+ R+DRRRK+P +I+L+A+G T   IL  FF   +F + D 
Sbjct: 187  IIPYRGSWLDFEFDPKDVLFFRVDRRRKMPVTILLKAIGLTPEAILANFFVNDHFRLMDS 246

Query: 236  TLMMELVPERLRGETATFDI-EADGKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYIVG 294
               M  VPERLRGE A FDI +  GKV V K +R+TARH R+LE+ G + I VP ++++G
Sbjct: 247  GAQMAFVPERLRGEVARFDITDKSGKVVVAKDKRITARHTRELEQSGTSHISVPEDFMIG 306

Query: 295  KVSAKDYVNEATGELIITANQEISLEALANLSQAGYKKLEVLFTNDLDHGPFMSETLRVD 354
            +V A++ V+  TGE+I  AN+E++   L  L  AG + L+ L+TN+LD G ++S+TLR+D
Sbjct: 307  RVVARNIVDTDTGEIIAKANEELTEALLKKLRTAGVQDLQCLYTNELDQGAYISQTLRID 366

Query: 355  STTDRISALVEIYRMMRPGEPPTKEAAESLFESLFFSAERYDLSTVGRMKFNSSIGREDA 414
             T D  +A V IYRMMRPGEPPT++A ++LF  LF++ + YDLS VGRMKFN+ +GR+++
Sbjct: 367  ETADEFAARVAIYRMMRPGEPPTEDAVQALFHRLFYNPDTYDLSRVGRMKFNARVGRDES 426

Query: 415  EEQGTLDEVDIIEVMKKLISIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERA 474
                 L   DI+ V+K L+ +RNG+GEVDDIDHLGNRR+R VGE+AENQ+R GL R+E+A
Sbjct: 427  TGPMVLSNDDILAVVKILVDLRNGRGEVDDIDHLGNRRVRCVGELAENQYRTGLARIEKA 486

Query: 475  VKERLSLGDLDNVMPQDLINAKPISAAVKEFFGSSQLSQFMDQNNPLSEVTHKRRISALG 534
            VKERL   + + +MP DLIN+KPISAA+KEFFG+SQLSQFMDQ NPL+E+THKRR+SALG
Sbjct: 487  VKERLGQAEQEPLMPHDLINSKPISAALKEFFGASQLSQFMDQTNPLAEITHKRRVSALG 546

Query: 535  PGGLTRERAGFEVRDVHVTHYGRLCPIETPEGPNIGLINSLSAFARCNEYGFLETPYRRV 594
            PGGLTRERAGFEVRDVHVTHYGR+CPIETPEGPNIGLINSL+ +AR NEYGF+ETPYRRV
Sbjct: 547  PGGLTRERAGFEVRDVHVTHYGRVCPIETPEGPNIGLINSLALYARLNEYGFIETPYRRV 606

Query: 595  VNGVVTDEVDYLSAIEEGQFVIAQANAKLTEEGGFADELVTARQKGESGLHPREHVDYMD 654
             +G VT+++DYLSAIEEG++VIAQANA L  EG    +L++AR+KGES L P + + YMD
Sbjct: 607  SDGKVTNQIDYLSAIEEGKYVIAQANAALDAEGRLTGDLISAREKGESILTPADTIQYMD 666

Query: 655  VATNQVVSIAASLIPFLEHDDANRALMGANMQRQAVPTLRSEKPLVGTGIERNVAVDSGV 714
            V+  Q+VS+AASL+PFLEHDDANRALMGANM RQAVP LR EKPLVGTGIER  A+DSG 
Sbjct: 667  VSPAQIVSVAASLVPFLEHDDANRALMGANMSRQAVPVLRPEKPLVGTGIERVAAIDSGT 726

Query: 715  TAVAKRGGVIQSVDASRIVVKVNEEELIPGEAGIDIYNLTKYTRSNQNTCINQRPCVMPG 774
               AKRGGV+  VDA+RIV++VN+ E + GE G+DIYNL KY RSNQNT I+QRP V  G
Sbjct: 727  VVTAKRGGVVDYVDATRIVIRVNDVEAVAGEVGVDIYNLIKYQRSNQNTNIHQRPIVKKG 786

Query: 775  EPVARGDVLADGPSTDLGELALGQNMRIAFMPWNGYNFEDSILVSERVVQDDRFTTIHIQ 834
            + +A+GDV+ADG STDLGE+++GQNM IAFMPWNGYNFEDSIL+SERVV DDR+T+IHI+
Sbjct: 787  DKLAKGDVIADGASTDLGEISIGQNMLIAFMPWNGYNFEDSILISERVVADDRYTSIHIE 846

Query: 835  ELSCVARDTKLGAEEITADIPNVGEAALSKLDESGIVYIGAEVKGGDILVGKVTPKGETQ 894
            EL  +ARDTKLGAEEIT DIPN+ E  L++LD+SGI+Y+GAEV  GD+LVGKVTPKGET 
Sbjct: 847  ELVVMARDTKLGAEEITRDIPNLAEQQLNRLDDSGIIYVGAEVLPGDVLVGKVTPKGETT 906

Query: 895  LTPEEKLLRAIFGEKASDVKDTSLRVPNSVAGTVIDVQVFTRDGVEKDKRALEIEQMQLK 954
            LTPEEKLLRAIFGEKASDVKDTSLRV     GTVIDVQVFTR+G+ +DKRA +I   +LK
Sbjct: 907  LTPEEKLLRAIFGEKASDVKDTSLRVDQGSQGTVIDVQVFTREGITRDKRAQQIIDDELK 966

Query: 955  EAKKDLTEEFQILEGGLLARVRSVL-----------LAGGYT--EAKLGSIERKKWLEQT 1001
              + DL ++ +I+E     R+  +L           L+ G T  +A L  +E+  W +  
Sbjct: 967  RFRLDLNDQLRIVEADAFDRIEKLLVGKVANGGPKKLSKGTTIDKAYLDDVEKYHWFDIR 1026

Query: 1002 LENEELQNQLEQLAEQYDELKADFDKKFEAKRRKITQGDDLAPGVLKIVKVYLAVKRRIQ 1061
              +E +  QLE +    ++ +  FD  FE KR+K+TQGD+L  GVLK+VKVYLAVKRR+Q
Sbjct: 1027 PADETVAAQLESIKNSMEQTRHSFDLAFEEKRKKLTQGDELPAGVLKMVKVYLAVKRRLQ 1086

Query: 1062 PGDKMAGRHGNKGVISKINPVEDMPYDENGQPVDIVLNPLGVPSRMNIGQILEVHLGLAA 1121
            PGDKMAGRHGNKGV+SKI PVEDMP+  +G P DIVLNPLGVPSRMN+GQ+LEVHLG AA
Sbjct: 1087 PGDKMAGRHGNKGVVSKIVPVEDMPHMADGTPADIVLNPLGVPSRMNVGQVLEVHLGWAA 1146

Query: 1122 KGIGDKINQMIKEQQELAKLREFLQKVYDLGDTRQRVDISELSDEDVRTLAHNLRAGLPV 1181
            KG+G +I  M++ + ++A+LR+FL+ VY+    ++   +++LSD +V  +A NL+ G+P 
Sbjct: 1147 KGLGQRIGDMLQAEAKVAELRKFLETVYNQAGKKE--TLADLSDAEVLEMAENLQTGVPF 1204

Query: 1182 ATPVFDGAPESSIKAMLELA---DLPASGQLT-------LFDGRTGDAFERPVTVGYMYM 1231
            ATPVFDGA E  I+AML+LA   D+     LT       L+DGRTGDAFER  TVGYM+ 
Sbjct: 1205 ATPVFDGASEDEIRAMLKLAYPDDIAQLKGLTETRTQAQLYDGRTGDAFERKTTVGYMHF 1264

Query: 1232 LKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLT 1291
            LKL+HLVDDKMHARSTG YSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGA+Y LQEMLT
Sbjct: 1265 LKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGASYILQEMLT 1324

Query: 1292 VKSDDVNGRTKMYKNIVDGNHAMEPGMPESFNVLLKEIRSLGINIELE 1339
            VKSDDV GRTK+Y++IV G H ++ GMPESFNVL+KEIRSLGI+IELE
Sbjct: 1325 VKSDDVQGRTKVYESIVKGEHTIDAGMPESFNVLVKEIRSLGIDIELE 1372