Pairwise Alignments

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

Subject, 1356 a.a., DNA-directed RNA polymerase, beta subunit from Pseudomonas stutzeri RCH2

 Score = 1935 bits (5012), Expect = 0.0
 Identities = 974/1359 (71%), Positives = 1145/1359 (84%), Gaps = 21/1359 (1%)

Query: 1    MVYSYTEKKRIRKDFGTRPQVLDIPYLLSIQLDSFEKFIE----QDPEGQYGLEAAFRSV 56
            M YSYTEKKRIRKDF   P V+D+PYLL+IQLDS+ +F++    +D     GL AAF+SV
Sbjct: 1    MAYSYTEKKRIRKDFSKLPHVMDVPYLLAIQLDSYREFLQAGATKDQFRDIGLHAAFKSV 60

Query: 57   FPIQSYNGNSELQYVSYRLGEPVFDVKECQIRGVTYSKPLRVKLRLVIFDKDAPAGTVKD 116
            FPI SY+GN+ L+YV YRLGEP FDVKEC +RGVT++ PLRVK+RL+IFDK++    +KD
Sbjct: 61   FPIISYSGNAALEYVGYRLGEPAFDVKECVLRGVTFAVPLRVKVRLIIFDKESSNKAIKD 120

Query: 117  IKEQEVYMGEIPLMTENGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNARI 176
            IKEQEVYMGEIPLMTENGTF+INGTERVIVSQLHRSPGVFFD D+GKTHSSGK+LY+ARI
Sbjct: 121  IKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFDHDRGKTHSSGKLLYSARI 180

Query: 177  IPYRGSWLDFEFDPKDNLYVRIDRRRKLPASIILRALGKTSAEILDIFFEKVNFEVKDQT 236
            IPYRGSWLDFEFDPKD ++VRIDRRRKLPAS++LRAL  ++ EILD F++   F VK +T
Sbjct: 181  IPYRGSWLDFEFDPKDAVFVRIDRRRKLPASVLLRALNYSTEEILDAFYDTNVFHVKGET 240

Query: 237  LMMELVPERLRGETATFDI-EADGKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYIVGK 295
            L +ELVP+RLRGE A+FDI + +GKV VE+GRR+TARHI QL+K G+  +E+P++Y++G+
Sbjct: 241  LSLELVPQRLRGEIASFDIKDENGKVIVEQGRRITARHINQLDKSGIKELEMPMDYVLGR 300

Query: 296  VSAKDYVNEATGELIITANQEISLEALANLSQAGYKKLEVLFTNDLDHGPFMSETLRVDS 355
              AK  V+ ATGE+I   N E++++ +A + +A   + E L+TND+D GPF+S+TL++DS
Sbjct: 301  TVAKAIVHPATGEIIAECNTELTVDVMAKIVKAQVVRFETLYTNDIDCGPFISDTLKIDS 360

Query: 356  TTDRISALVEIYRMMRPGEPPTKEAAESLFESLFFSAERYDLSTVGRMKFNSSIGREDAE 415
            TT+++ ALVEIYRMMRPGEPPTK+AAE+LF +LFF++ERYDLS VGRMKFN  IGR + E
Sbjct: 361  TTNQLEALVEIYRMMRPGEPPTKDAAETLFNNLFFASERYDLSAVGRMKFNRRIGRTEIE 420

Query: 416  EQGTLDEVDIIEVMKKLISIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAV 475
              G L   DI+ V+K L+ IRNGKG VDDIDHLGNRR+R VGEMAENQFRVGLVRVERAV
Sbjct: 421  GSGVLSREDIVAVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAV 480

Query: 476  KERLSLGDLDNVMPQDLINAKPISAAVKEFFGSSQLSQFMDQNNPLSEVTHKRRISALGP 535
            KERLS+ + + +MPQDLINAKP++AAVKEFFGSSQLSQFMDQNNPLSE+THKRR+SALGP
Sbjct: 481  KERLSMAESEGLMPQDLINAKPVAAAVKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGP 540

Query: 536  GGLTRERAGFEVRDVHVTHYGRLCPIETPEGPNIGLINSLSAFARCNEYGFLETPYRRVV 595
            GGLTRERAGFEVRDVH THYGR+CPIETPEGPNIGLINSL+A+AR N+YGFLE+PYR V 
Sbjct: 541  GGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLAAYARTNQYGFLESPYRVVK 600

Query: 596  NGVVTDEVDYLSAIEEGQFVIAQANAKLTEEGGFADELVTARQKGESGLHPREHVDYMDV 655
             G VTDE+ +LSAIEE   VIAQA+AKL +     DELV  R   E  +   E V  MDV
Sbjct: 601  EGEVTDEIVFLSAIEEADHVIAQASAKL-DGRKLVDELVAVRHLNEFTVKAPEDVTLMDV 659

Query: 656  ATNQVVSIAASLIPFLEHDDANRALMGANMQRQAVPTLRSEKPLVGTGIERNVAVDSGVT 715
            +  QVVS+AASLIPFLEHDDANRALMG+NMQRQAVPTLRS+KPLVGTG+ERNVA DSGV 
Sbjct: 660  SPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRSDKPLVGTGMERNVARDSGVC 719

Query: 716  AVAKRGGVIQSVDASRIVVKVNEEELIPGEAGIDIYNLTKYTRSNQNTCINQRPCVMPGE 775
             VA+RGGVI SVDASR+VV+V++ E+  GEAG+DIYNLTKYTRSNQNTCINQRP V  G+
Sbjct: 720  VVARRGGVIDSVDASRVVVRVHDAEVETGEAGVDIYNLTKYTRSNQNTCINQRPLVRKGD 779

Query: 776  PVARGDVLADGPSTDLGELALGQNMRIAFMPWNGYNFEDSILVSERVVQDDRFTTIHIQE 835
             V RGD++ADGPSTD+GELALGQNMR+AFMPWNGYNFEDSIL+SERVVQ+DRFTTIHIQE
Sbjct: 780  VVERGDIMADGPSTDMGELALGQNMRVAFMPWNGYNFEDSILLSERVVQEDRFTTIHIQE 839

Query: 836  LSCVARDTKLGAEEITADIPNVGEAALSKLDESGIVYIGAEVKGGDILVGKVTPKGETQL 895
            L+CV+RDTKLG EEITADIPNVGEAAL+KLDE+GIVY+GAEV  GDILVGKVTPKGETQL
Sbjct: 840  LTCVSRDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGAEVGPGDILVGKVTPKGETQL 899

Query: 896  TPEEKLLRAIFGEKASDVKDTSLRVPNSVAGTVIDVQVFTRDGVEKDKRALEIEQMQLKE 955
            TPEEKLLRAIFGEKASDVKDTSLRVP    GTVIDVQVF RDGVE+D RAL IE+MQL E
Sbjct: 900  TPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFIRDGVERDSRALAIEKMQLDE 959

Query: 956  AKKDLTEEFQILEGGLLARVRSVLLA----GG--------YTEAKLGSIERKKWLEQTLE 1003
             +KDL EEF+I+EG    R+RS L+     GG         T+  L  +E  +W +  + 
Sbjct: 960  IRKDLNEEFRIVEGATFERLRSALVGATAEGGAGLKKGAVITDEILDGLEHGQWFKLRMA 1019

Query: 1004 NEELQNQLEQLAEQYDELKADFDKKFEAKRRKITQGDDLAPGVLKIVKVYLAVKRRIQPG 1063
             + L  QLE+      + +   D KFE K+RK+ QGDDLAPGVLKIVKVYLA+KRRIQPG
Sbjct: 1020 EDALNEQLEKAQAYLSDRRQLLDDKFEDKKRKLQQGDDLAPGVLKIVKVYLAIKRRIQPG 1079

Query: 1064 DKMAGRHGNKGVISKINPVEDMPYDENGQPVDIVLNPLGVPSRMNIGQILEVHLGLAAKG 1123
            DKMAGRHGNKGV+S I PVEDMP+D NG PVDIVLNPLGVPSRMN+GQILE HLGLAAKG
Sbjct: 1080 DKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGLAAKG 1139

Query: 1124 IGDKINQMIKEQQELAKLREFLQKVY-DLGDTRQRVDISELSDEDVRTLAHNLRAGLPVA 1182
            +G+KIN M++EQ+++A+LR+FL ++Y ++G  ++ +D  +LSD++V  LA+NLR G+P+A
Sbjct: 1140 LGEKINLMLEEQRKVAELRKFLHEIYNEIGGRQESLD--DLSDQEVLDLANNLRKGVPMA 1197

Query: 1183 TPVFDGAPESSIKAMLELADLPASGQLTLFDGRTGDAFERPVTVGYMYMLKLNHLVDDKM 1242
            TPVFDGA E  IKAML+LADLP SGQ+ LFDGRTG+ FER  TVGYMYMLKLNHLVDDKM
Sbjct: 1198 TPVFDGAKEREIKAMLKLADLPESGQMQLFDGRTGNKFERTTTVGYMYMLKLNHLVDDKM 1257

Query: 1243 HARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTK 1302
            HARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTK
Sbjct: 1258 HARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTK 1317

Query: 1303 MYKNIVDGNHAMEPGMPESFNVLLKEIRSLGINIELEDE 1341
            MYKNIVDG+H ME GMPESFNVL+KEIRSLGI+I+LE E
Sbjct: 1318 MYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIDLETE 1356