Pairwise Alignments

Query, 1401 a.a., DNA-directed RNA polymerase subunit beta' from Vibrio cholerae E7946 ATCC 55056

Subject, 1407 a.a., RNA polymerase, beta prime subunit from Escherichia coli BL21

 Score = 2290 bits (5934), Expect = 0.0
 Identities = 1157/1405 (82%), Positives = 1260/1405 (89%), Gaps = 5/1405 (0%)

Query: 1    MKDLLNFLKAQHKTEEFDAIKIGLASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCAR 60
            MKDLL FLKAQ KTEEFDAIKI LASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCAR
Sbjct: 1    MKDLLKFLKAQTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCAR 60

Query: 61   IFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRDRMGHIELASPVAHIWFLKSL 120
            IFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRR+RMGHIELASP AHIWFLKSL
Sbjct: 61   IFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSL 120

Query: 121  PSRIGLLMDMPLRDIERVLYFEMYVVTEPGMTDLERGQMLTEEEYLDRLEEWGDEFTAKM 180
            PSRIGLL+DMPLRDIERVLYFE YVV E GMT+LER Q+LTEE+YLD LEE+GDEF AKM
Sbjct: 121  PSRIGLLLDMPLRDIERVLYFESYVVIEGGMTNLERQQILTEEQYLDALEEFGDEFDAKM 180

Query: 181  GAEAIKDLLASMDLPAEAEQMREELDTTNSETKRKKLTKRLKLVEAFVASGNKPEWMILT 240
            GAEAI+ LL SMDL  E EQ+REEL+ TNSETKRKKLTKR+KL+EAFV SGNKPEWMILT
Sbjct: 181  GAEAIQALLKSMDLEQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILT 240

Query: 241  VLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLELAAPDIIVRNEKRMLQ 300
            VLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLL+LAAPDIIVRNEKRMLQ
Sbjct: 241  VLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQ 300

Query: 301  ESVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPY 360
            E+VDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPY
Sbjct: 301  EAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPY 360

Query: 361  LRLHQCGLPKKMALELFKPFIYSKLETRGLATTIKAAKKMVEREEAVVWDILDEVIREHP 420
            LRLHQCGLPKKMALELFKPFIY KLE RGLATTIKAAKKMVEREEAVVWDILDEVIREHP
Sbjct: 361  LRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVEREEAVVWDILDEVIREHP 420

Query: 421  VLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEA 480
            VLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEA
Sbjct: 421  VLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEA 480

Query: 481  RTLMMSTNNILSPASGDPIIVPSQDVVLGLYYMTREKINAKGEGMYLTGPAEAEKAYRTK 540
            R LMMSTNNILSPA+G+PIIVPSQDVVLGLYYMTR+ +NAKGEGM LTGP EAE+ YR+ 
Sbjct: 481  RALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSG 540

Query: 541  TAELHARVKVRITETIKHENGKLTTETKMIDTTVGRAMLWQIVPKGLPYSLVNQKLGKKQ 600
             A LHARVKVRITE  K  NG+L  +T + DTTVGRA+LW IVPKGLPYS+VNQ LGKK 
Sbjct: 541  LASLHARVKVRITEYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKA 600

Query: 601  ISNLLNEAYRKLGLKDTVIFADQIMYTGFAYAALSGVSVGIDDMVVPAAKYTEIAEAEEE 660
            IS +LN  YR LGLK TVIFADQIMYTGFAYAA SG SVGIDDMV+P  K+  I+EAE E
Sbjct: 601  ISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHEIISEAEAE 660

Query: 661  VREIQEQFQSGLVTAGERYNKVIDIWASTNDRVAKAMMENLSSEQVINRQGEQEKQESFN 720
            V EIQEQFQSGLVTAGERYNKVIDIWA+ NDRV+KAMM+NL +E VINR G++EKQ SFN
Sbjct: 661  VAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSFN 720

Query: 721  SIYMMADSGARGSAAQIRQLAGMRGLMARPDGSIIETPITANFKEGLNVLQYFISTHGAR 780
            SIYMMADSGARGSAAQIRQLAGMRGLMA+PDGSIIETPITANF+EGLNVLQYFISTHGAR
Sbjct: 721  SIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQYFISTHGAR 780

Query: 781  KGLADTALKTANSGYLTRRLVDVAQDVVVTEHDCGTLEGVVMTPHIEGGDVKVALTELAL 840
            KGLADTALKTANSGYLTRRLVDVAQD+VVTE DCGT EG++MTP IEGGDVK  L +  L
Sbjct: 781  KGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGIMMTPVIEGGDVKEPLRDRVL 840

Query: 841  GRVVSEDILKPGTDEVLIPRNTLLDEKWCKVINDNSVDQIKVRSVVTCDSDFGCCAQCYG 900
            GRV +ED+LKPGT ++L+PRNTLL E+WC ++ +NSVD +KVRSVV+CD+DFG CA CYG
Sbjct: 841  GRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYG 900

Query: 901  RDLARGHLVNQGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASTAAAENSIQAKNNGSVKL 960
            RDLARGH++N+GEA+GVIAAQSIGEPGTQLTMRTFHIGGAAS AAAE+SIQ KN GS+KL
Sbjct: 901  RDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAESSIQVKNKGSIKL 960

Query: 961  HNAKFVTNKDGKLVITSRASELTIIDEFGRTKEKHKLPYGSMLSKADGDAVAAGETVANW 1020
             N K V N  GKLVITSR +EL +IDEFGRTKE +K+PYG++L+K DG+ VA GETVANW
Sbjct: 961  SNVKSVVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANW 1020

Query: 1021 EAHTMPIITEVAGRVQFVDMIDGVTVSRQTDDLTGLSSSEVTEAAARPAAGKDMRPAIKL 1080
            + HTMP+ITEV+G V+F DMIDG T++RQTD+LTGLSS  V ++A R A GKD+RPA+K+
Sbjct: 1021 DPHTMPVITEVSGFVRFTDMIDGQTITRQTDELTGLSSLVVLDSAERTAGGKDLRPALKI 1080

Query: 1081 VDANGKDVLIPGTDMPAQYFLPGKAIVNLDDGAEVNVGDTLARIPQKSGGNKDITGGLPR 1140
            VDA G DVLIPGTDMPAQYFLPGKAIV L+DG +++ GDTLARIPQ+SGG KDITGGLPR
Sbjct: 1081 VDAQGNDVLIPGTDMPAQYFLPGKAIVQLEDGVQISSGDTLARIPQESGGTKDITGGLPR 1140

Query: 1141 VADLFEARKPKEPAILAEHSGTVSFGKETKGKRRLIITR-DSGDTYEEMIPKHRQLNVFE 1199
            VADLFEAR+PKEPAILAE SG VSFGKETKGKRRL+IT  D  D YEEMIPK RQLNVFE
Sbjct: 1141 VADLFEARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGSDPYEEMIPKWRQLNVFE 1200

Query: 1200 GERIERGDVIADGPESPHDILRLRGIHAVTTYIANEVQEVYRLQGVKINDKHIETIVRQM 1259
            GER+ERGDVI+DGPE+PHDILRLRG+HAVT YI NEVQ+VYRLQGVKINDKHIE IVRQM
Sbjct: 1201 GERVERGDVISDGPEAPHDILRLRGVHAVTRYIVNEVQDVYRLQGVKINDKHIEVIVRQM 1260

Query: 1260 LRKCTITFAGDSEFLPGETVEYSQVKIANRKLVEEGKEPARFERELLGITKASLATESFI 1319
            LRK TI  AG S+FL GE VEYS+VKIANR+L   GK  A + R+LLGITKASLATESFI
Sbjct: 1261 LRKATIVNAGSSDFLEGEQVEYSRVKIANRELEANGKVGATYSRDLLGITKASLATESFI 1320

Query: 1320 SAASFQETTRVLTEAAVSGKRDDLRGLKENVIVGRLIPAGTGFAYHQDRQAKRAQEQQGP 1379
            SAASFQETTRVLTEAAV+GKRD+LRGLKENVIVGRLIPAGTG+AYHQDR  +RA  +   
Sbjct: 1321 SAASFQETTRVLTEAAVAGKRDELRGLKENVIVGRLIPAGTGYAYHQDRMRRRAAGEAPA 1380

Query: 1380 ----SAEQATDNLAALLNAGFSSDD 1400
                +AE A+ +LA LLNAG    D
Sbjct: 1381 APQVTAEDASASLAELLNAGLGGSD 1405