Pairwise Alignments

Query, 1393 a.a., DNA-directed RNA polymerase, beta subunit (NCBI) from Rhodospirillum rubrum S1H

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

 Score = 1627 bits (4214), Expect = 0.0
 Identities = 818/1391 (58%), Positives = 1061/1391 (76%), Gaps = 56/1391 (4%)

Query: 1    MTKSLTSRKRIRKDFGRIPTVAPMPNLIEVQKSSYDQFLQIGVPVDKRTDSGLQEVFKSV 60
            M  S T +KRIRKDFG  P V  +P L+ +Q  S+++F++     D     GL+  F+SV
Sbjct: 1    MVYSYTEKKRIRKDFGTRPQVLDIPYLLSIQLDSFEKFIE----QDPEGQYGLEAAFRSV 56

Query: 61   FPIRDFSGKGELEFVAYELEEPKYDTDECQQRGMTFAAPLKVTLRLLVWDVDEETGARSI 120
            FPI+ ++G  EL++V+Y L EP +D  ECQ RG+T++ PL+V LRL+++D D   G  ++
Sbjct: 57   FPIQSYNGNSELQYVSYRLGEPVFDVKECQIRGVTYSKPLRVKLRLVIFDKDAPAG--TV 114

Query: 121  RDIKEQDVYMGDMPLMTSNGTFIINGTERVIVSQMHRSPGVFFDHDKGKTHSSGKFLFAA 180
            +DIKEQ+VYMG++PLMT NGTF+INGTERVIVSQ+HRSPGVFFD DKGKTHSSGK L+ A
Sbjct: 115  KDIKEQEVYMGEIPLMTENGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNA 174

Query: 181  RVIPYRGSWLDFEFDAKDMVYVRIDRRRKLPVTTLLYALEGAAATALREARTAEGRSVDP 240
            R+IPYRGSWLDFEFD KD +YVRIDRRRKLP + +L AL                     
Sbjct: 175  RIIPYRGSWLDFEFDPKDNLYVRIDRRRKLPASIILRAL--------------------- 213

Query: 241  SEIAGMTSEEILDFFYQKLSYKRDDKGWKVDFKPDHLRGVKLMFDLVDAATGEVKIEAGT 300
                G TS EILD F++K++++  D+   ++  P+ LRG    FD+   A G+V +E G 
Sbjct: 214  ----GKTSAEILDIFFEKVNFEVKDQTLMMELVPERLRGETATFDI--EADGKVYVEKGR 267

Query: 301  KVTPRAARKLAEDGMTEMRVFTEELVGRYAAEDMINEASGEIYAEAGEELTEAMLADMEK 360
            +VT R  R+L +DG+  + V  E +VG+ +A+D +NEA+GE+   A +E++   LA++ +
Sbjct: 268  RVTARHIRQLEKDGVNFIEVPVEYIVGKVSAKDYVNEATGELIITANQEISLEALANLSQ 327

Query: 361  AGFTELRVLHIDHVNVGPYVRNTLAMDKNTTREEALIDIYRVMRPGEPPTLETADALFKG 420
            AG+ +L VL  + ++ GP++  TL +D  T R  AL++IYR+MRPGEPPT E A++LF+ 
Sbjct: 328  AGYKKLEVLFTNDLDHGPFMSETLRVDSTTDRISALVEIYRMMRPGEPPTKEAAESLFES 387

Query: 421  LFFDSERYDLSAVGRVKMNARLGFTMQEAPDTMRVLRKEDVLHIIRQLVELKDGKGEIDD 480
            LFF +ERYDLS VGR+K N+ +G   +E  +    L + D++ ++++L+ +++GKGE+DD
Sbjct: 388  LFFSAERYDLSTVGRMKFNSSIG---REDAEEQGTLDEVDIIEVMKKLISIRNGKGEVDD 444

Query: 481  IDHLGNRRVRSVGELMENQYRVGLLRMERAIRERMSSVDIDTVMPHDLINAKPAAAAVRE 540
            IDHLGNRR+RSVGE+ ENQ+RVGL+R+ERA++ER+S  D+D VMP DLINAKP +AAV+E
Sbjct: 445  IDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLGDLDNVMPQDLINAKPISAAVKE 504

Query: 541  FFGSSQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETP 600
            FFGSSQLSQFMDQ NPLSE+THKRR+SALGPGGLTRERAGFEVRDVH THYGR+CPIETP
Sbjct: 505  FFGSSQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHVTHYGRLCPIETP 564

Query: 601  EGPNIGLINSLATFARVNQYGFIESPYRKVVEGTVTDEVTYMSAMEEGKYVIAQANAALT 660
            EGPNIGLINSL+ FAR N+YGF+E+PYR+VV G VTDEV Y+SA+EEG++VIAQANA LT
Sbjct: 565  EGPNIGLINSLSAFARCNEYGFLETPYRRVVNGVVTDEVDYLSAIEEGQFVIAQANAKLT 624

Query: 661  EDGHFADDLISCRKASDFEMVQPQDIDYIDVSPKQLVSVAAALIPFLENDDANRALMGSN 720
            E+G FAD+L++ R+  +  +   + +DY+DV+  Q+VS+AA+LIPFLE+DDANRALMG+N
Sbjct: 625  EEGGFADELVTARQKGESGLHPREHVDYMDVATNQVVSIAASLIPFLEHDDANRALMGAN 684

Query: 721  MQRQAVPLVKAEAPYVGTGMEAAVARDSGATIAAKRAGVVQQVDATRIVIRATEDLKI-A 779
            MQRQAVP +++E P VGTG+E  VA DSG T  AKR GV+Q VDA+RIV++  E+  I  
Sbjct: 685  MQRQAVPTLRSEKPLVGTGIERNVAVDSGVTAVAKRGGVIQSVDASRIVVKVNEEELIPG 744

Query: 780  ESGVDIYRLQKFQRSNQSTCINQRPLVKVGDLVGRGEILADGPLTEMGELALGRNVLVAF 839
            E+G+DIY L K+ RSNQ+TCINQRP V  G+ V RG++LADGP T++GELALG+N+ +AF
Sbjct: 745  EAGIDIYNLTKYTRSNQNTCINQRPCVMPGEPVARGDVLADGPSTDLGELALGQNMRIAF 804

Query: 840  MPWNGYNFEDSILISERIVSDDVFTSIHIEEFEVMARDTKLGQEEITRDIPNVGEEALKN 899
            MPWNGYNFEDSIL+SER+V DD FT+IHI+E   +ARDTKLG EEIT DIPNVGE AL  
Sbjct: 805  MPWNGYNFEDSILVSERVVQDDRFTTIHIQELSCVARDTKLGAEEITADIPNVGEAALSK 864

Query: 900  LDEAGIVYIGAEVQAGDILVGKVTPKGESPMTPEEKLLRAIFGEKASDVRDTSLRIPPGV 959
            LDE+GIVYIGAEV+ GDILVGKVTPKGE+ +TPEEKLLRAIFGEKASDV+DTSLR+P  V
Sbjct: 865  LDESGIVYIGAEVKGGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPNSV 924

Query: 960  TGTVVEVRVFNRRGVEKDERALAIERQEIESLAKDRDDERAILEGSFARRLKELLIGQKV 1019
             GTV++V+VF R GVEKD+RAL IE+ +++   KD  +E  ILEG    R++ +L+    
Sbjct: 925  AGTVIDVQVFTRDGVEKDKRALEIEQMQLKEAKKDLTEEFQILEGGLLARVRSVLL---- 980

Query: 1020 VGGPRGMATGGVISEDLLSGYTAAQWRQIAVENDETATEIEGLKKAYEESIAKIQERFEN 1079
                      G  +E  L      +W +  +EN+E   ++E L + Y+E  A   ++FE 
Sbjct: 981  ---------AGGYTEAKLGSIERKKWLEQTLENEELQNQLEQLAEQYDELKADFDKKFEA 1031

Query: 1080 KVEKLQRGDELPPGVLKMVKVFVAVKRKLQPGDKMAGRHGNKGVISKINPIEDMPYLEDG 1139
            K  K+ +GD+L PGVLK+VKV++AVKR++QPGDKMAGRHGNKGVISKINP+EDMPY E+G
Sbjct: 1032 KRRKITQGDDLAPGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPVEDMPYDENG 1091

Query: 1140 TYVDIVLNPLGVPSRMNVGQILETHLGWACRGLGAQIGALLEQVKRGLIPINDLREKLDD 1199
              VDIVLNPLGVPSRMN+GQILE HLG A +G+G +I  ++++ +     +  LRE L  
Sbjct: 1092 QPVDIVLNPLGVPSRMNIGQILEVHLGLAAKGIGDKINQMIKEQQE----LAKLREFLQK 1147

Query: 1200 VY--GPRHAKEDLAPMGDDQIKELAFNLRSGVPIATPVFDGARESDIVDMLRKAGLDSSG 1257
            VY  G    + D++ + D+ ++ LA NLR+G+P+ATPVFDGA ES I  ML  A L +SG
Sbjct: 1148 VYDLGDTRQRVDISELSDEDVRTLAHNLRAGLPVATPVFDGAPESSIKAMLELADLPASG 1207

Query: 1258 QVTLSDGRTGEPFDRKVTVGYIYMLKLHHLVDDKIHARSIGPYSLVTQQPLGGKAQFGGQ 1317
            Q+TL DGRTG+ F+R VTVGY+YMLKL+HLVDDK+HARS G YSLVTQQPLGGKAQFGGQ
Sbjct: 1208 QLTLFDGRTGDAFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQ 1267

Query: 1318 RFGEMEVWALEAYGAAYTLQEMLTVKSDDVSGRTKVYEAIVKGDDTFEAGIPESFNVLVK 1377
            RFGEMEVWALEAYGAAYTLQEMLTVKSDDV+GRTK+Y+ IV G+   E G+PESFNVL+K
Sbjct: 1268 RFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGNHAMEPGMPESFNVLLK 1327

Query: 1378 EMRSLGLDVEL 1388
            E+RSLG+++EL
Sbjct: 1328 EIRSLGINIEL 1338