Pairwise Alignments

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

Subject, 1358 a.a., DNA-directed RNA polymerase subunit beta from Xanthobacter sp. DMC5

 Score = 1576 bits (4080), Expect = 0.0
 Identities = 799/1364 (58%), Positives = 1037/1364 (76%), Gaps = 31/1364 (2%)

Query: 1    MVYSYTEKKRIRKDFGTRPQVLDIPYLLSIQLDSFEKFIE-QDPEG---QYGLEAAFRSV 56
            M  ++T +KRIRK FG   +V ++P L+ +Q  S+++F++ ++P+G     GL+A F+SV
Sbjct: 1    MAQTFTGRKRIRKFFGKIKEVAEMPNLIEVQKASYDQFLQIEEPKGGRDDDGLQAVFKSV 60

Query: 57   FPIQSYNGNSELQYVSYRLGEPVFDVKECQIRGVTYSKPLRVKLRLVIFDKDAPAG--TV 114
            FPI  ++G + L++V Y    P +DV EC+ RG+T++ PL+V LRL++FD D   G  +V
Sbjct: 61   FPISDFSGAAMLEFVRYEFEPPKYDVDECRQRGMTFAAPLKVTLRLIVFDVDPDTGAKSV 120

Query: 115  KDIKEQEVYMGEIPLMTENGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNA 174
            KDIKEQ+VY G+IPLMT NGTF++NGTERVIVSQ+HRSPGVFFD DKGKTHSSGK+L+ A
Sbjct: 121  KDIKEQDVYTGDIPLMTMNGTFIVNGTERVIVSQMHRSPGVFFDHDKGKTHSSGKLLFAA 180

Query: 175  RIIPYRGSWLDFEFDPKDNLYVRIDRRRKLPASIILRALGKTSAEILDIFFEKVNFEVKD 234
            RIIPYRGSWLD EFD KD +Y RIDRRRK+P + +L ALG  S EIL  F+EK+ +E   
Sbjct: 181  RIIPYRGSWLDIEFDAKDIVYARIDRRRKIPVTSLLYALGLDSEEILSTFYEKIPYERAK 240

Query: 235  QTLMMELVPERLRGETATFD-IEAD-GKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYI 292
                M   P+R++G  A  D ++AD G+V +E G+++T R  RQL + G+ F+++  E +
Sbjct: 241  GGWRMPFDPKRMKGYKAVSDLVDADTGEVVLEAGKKLTVRAARQLAEKGLKFLKISDEEM 300

Query: 293  VGKVSAKDYVNEATGELIITANQEISLEALANLSQAGYKKLEVLFTNDLDHGPFMSETLR 352
            VG+  A+D V+ A+GE+   A  EI+ + L  L +AGY ++ +L  + ++ G ++  TL 
Sbjct: 301  VGQYIAEDLVDIASGEIHAEAGDEITEKTLKLLEEAGYNEIPILDIDHVNTGAYIRNTLA 360

Query: 353  VDSTTDRISALVEIYRMMRPGEPPTKEAAESLFESLFFSAERYDLSTVGRMKFNSSIGRE 412
             D    R  AL +IYR+MRPGEPPT ++A+++F SLFF  ERYDLS VGR+K N  +  +
Sbjct: 361  ADKNVTREDALFDIYRVMRPGEPPTLDSAQAMFHSLFFDPERYDLSAVGRVKMNMRLDLD 420

Query: 413  DAEEQGTLDEVDIIEVMKKLISIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVE 472
              +    L   DI+ V+K L+ +R+GKGE+DDIDHLGNRR+RSVGE+ ENQ+RVGL+R+E
Sbjct: 421  CPDTVRVLRRDDILSVIKTLVELRDGKGEIDDIDHLGNRRVRSVGELMENQYRVGLLRME 480

Query: 473  RAVKERLSLGDLDNVMPQDLINAKPISAAVKEFFGSSQLSQFMDQNNPLSEVTHKRRISA 532
            RA+KER+S  D+D VMPQDLINAKP++AAV+EFFGSSQLSQFMDQ NPLSE+THKRR+SA
Sbjct: 481  RAIKERMSSVDIDTVMPQDLINAKPVAAAVREFFGSSQLSQFMDQTNPLSEITHKRRLSA 540

Query: 533  LGPGGLTRERAGFEVRDVHVTHYGRLCPIETPEGPNIGLINSLSAFARCNEYGFLETPYR 592
            LGPGGLTRERAGFEVRDVH THYGR+CPIETPEGPNIGLINSL+ FAR N+YGF+E PYR
Sbjct: 541  LGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATFARVNKYGFIEAPYR 600

Query: 593  RVVNGVVTDEVDYLSAIEEGQFVIAQANAKLTEEGGFADELVTARQKGESGLHPREHVDY 652
            RVV+  VTDEV YLSA+EEG++ +AQAN  L ++G F ++L+  R  G+  L   + VD+
Sbjct: 601  RVVDSKVTDEVVYLSAMEEGKYYVAQANIPLDKDGRFEEDLIVCRHAGDVLLVSPDRVDF 660

Query: 653  MDVATNQVVSIAASLIPFLEHDDANRALMGANMQRQAVPTLRSEKPLVGTGIERNVAVDS 712
            MDV+  Q+VS+AA+LIPFLE+DDANRALMG+NMQRQAVP +RS+ PLVGTG+E  VA DS
Sbjct: 661  MDVSPKQLVSVAAALIPFLENDDANRALMGSNMQRQAVPLVRSQAPLVGTGMEAVVARDS 720

Query: 713  GVTAVAKRGGVIQSVDASRIVVKVNEEELIPGEAGIDIYNLTKYTRSNQNTCINQRPCVM 772
            G    A+R GVI  VDA+RIV++   EE  P ++G+DIY L K+ RSNQ+TCINQRP V 
Sbjct: 721  GAAIAARRTGVIDQVDATRIVIRAT-EEADPSKSGVDIYRLMKFQRSNQSTCINQRPLVR 779

Query: 773  PGEPVARGDVLADGPSTDLGELALGQNMRIAFMPWNGYNFEDSILVSERVVQDDRFTTIH 832
             G+ V RGD++ADGPST+LGELALG+N+ +AFMPWNGYNFEDSIL+SE +V++D FT+IH
Sbjct: 780  VGDQVKRGDIIADGPSTELGELALGRNVLVAFMPWNGYNFEDSILLSENIVKEDVFTSIH 839

Query: 833  IQELSCVARDTKLGAEEITADIPNVGEAALSKLDESGIVYIGAEVKGGDILVGKVTPKGE 892
            I+E  C+ARDTKLG EEIT DIPNV E AL  LDE+GIVYIGAEV+ GDILVGK+TPKGE
Sbjct: 840  IEEFECMARDTKLGPEEITRDIPNVSEEALKNLDEAGIVYIGAEVRAGDILVGKITPKGE 899

Query: 893  TQLTPEEKLLRAIFGEKASDVKDTSLRVPNSVAGTVIDVQVFTRDGVEKDKRALEIEQMQ 952
            + +TPEEKLLRAIFGEKA+DV+DTSLR+P    GT+++V+VF R GV+KD+RAL IE+ +
Sbjct: 900  SPMTPEEKLLRAIFGEKAADVRDTSLRLPPGTTGTIVEVRVFNRHGVDKDERALAIEREE 959

Query: 953  LKEAKKDLTEEFQILEGGLLARVRSVL-----LAG--------GYTEAKLGSIERKKWLE 999
            ++   KD  +E  IL+  +  R+  +L     +AG          T   LG   R +W  
Sbjct: 960  IERLAKDRDDEQAILDRNVYGRLTEILDGKVAIAGPKGFKKETAVTREILGEYPRSQWWL 1019

Query: 1000 QTLENEELQNQLEQLAEQYDELKADFDKKFEAKRRKITQGDDLAPGVLKIVKVYLAVKRR 1059
              + ++ +  +LE +  QYD+ K   +++F  K  K+ +GD+L PGV+K+VKV++AVKR+
Sbjct: 1020 FAVADDAIMAELEAIRAQYDDSKKRLEQRFLDKVEKLQRGDELPPGVMKMVKVFVAVKRK 1079

Query: 1060 IQPGDKMAGRHGNKGVISKINPVEDMPYDENGQPVDIVLNPLGVPSRMNIGQILEVHLGL 1119
            IQPGDKMAGRHGNKGV+S+I PVEDMP+ E+G  VDIVLNPLGVPSRMN+GQILE HLG 
Sbjct: 1080 IQPGDKMAGRHGNKGVVSRIVPVEDMPFLEDGTNVDIVLNPLGVPSRMNVGQILETHLGW 1139

Query: 1120 AAKGIGDKI---NQMIKEQQELAKLREFLQKVYDLGDTRQRVDISELSDEDVRTLAHNLR 1176
            A  G+G ++    +    +Q+L  +R+ L+ +Y       + +I +L D ++  LA NLR
Sbjct: 1140 ACAGLGRQVAAAAEAYYARQDLKPVRDRLETIYG------KEEIDQLKDSELPELAENLR 1193

Query: 1177 AGLPVATPVFDGAPESSIKAMLELADLPASGQLTLFDGRTGDAFERPVTVGYMYMLKLNH 1236
             G+P+ATPVFDGA E+ I+  LE A L  SGQ TLFDGRTG+ F+R VTVGY+YMLKL+H
Sbjct: 1194 KGVPMATPVFDGAHEADIEQELERAGLDRSGQSTLFDGRTGEPFDRKVTVGYIYMLKLHH 1253

Query: 1237 LVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDD 1296
            LVDDK+HARS G YSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDD
Sbjct: 1254 LVDDKIHARSIGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDD 1313

Query: 1297 VNGRTKMYKNIVDGNHAMEPGMPESFNVLLKEIRSLGINIELED 1340
            V GRTK+Y+ IV G    E G+PESFNVL+KE+RSLG+N++LE+
Sbjct: 1314 VAGRTKVYEAIVRGEDTFESGIPESFNVLVKEMRSLGLNVDLEN 1357