Pairwise Alignments

Query, 1405 a.a., DNA-directed RNA polymerase, beta' subunit (NCBI ptt file) from Shewanella oneidensis MR-1

Subject, 1385 a.a., DNA-directed RNA polymerase, beta prime subunit (TIGR) from Desulfovibrio vulgaris Hildenborough JW710

 Score = 1608 bits (4165), Expect = 0.0
 Identities = 796/1346 (59%), Positives = 1029/1346 (76%), Gaps = 21/1346 (1%)

Query: 20   IKIGLASPDLIRSWSFGEVKKPETINYRTFKPEREGLFCARIFGPVKDYECLCGKYKRLK 79
            I+I +ASP+ IR WS+GEVKKPETINYRTFKPER+GLFCA+IFGPVKDYEC CGKYKR+K
Sbjct: 25   IQITIASPENIREWSYGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYECNCGKYKRMK 84

Query: 80   HRGVICEKCGVEVTQTKVRRERMGHIELASPVAHIWFLKSLPSRIGLMLDMTLRDIERVL 139
            HRG++CEKCGVEV  +KVRRERMGHIELA+PVAHIWFLK+LPS+IG +LDMT+ D+E+VL
Sbjct: 85   HRGIVCEKCGVEVIASKVRRERMGHIELAAPVAHIWFLKTLPSKIGTLLDMTMADLEKVL 144

Query: 140  YFESFVVIEPGMTSLERGQMLTEETYLDALEEYG-DEFEAKMGAEAVLELLRAIDLEKEI 198
            YF+S++V++PG T+L + Q+++E+ YL  ++ YG D     MGAEAV  LL  ++LE+  
Sbjct: 145  YFDSYIVLDPGSTNLTKMQVISEDQYLQVIDHYGEDALTVGMGAEAVRSLLEELNLEELR 204

Query: 199  EQMREELPSINSETRRKKVTKRLKLMEAFHTSGNKPEWMILKVLPVLPPDLRPLVPLDGG 258
             Q+REE  +  S+T++KK+TKRLK++EAF  S NKPEWM+++V+PV+PP+LRPLVPLDGG
Sbjct: 205  VQLREESQATKSQTKKKKLTKRLKIVEAFLESNNKPEWMVMEVIPVIPPELRPLVPLDGG 264

Query: 259  RFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQESVDALLDNGRRGRAITG 318
            RFATSDLNDLYRRVINRNNRLKRL++L APDII+RNEKRMLQE+VDAL DNGRRGRAITG
Sbjct: 265  RFATSDLNDLYRRVINRNNRLKRLMELGAPDIIIRNEKRMLQEAVDALFDNGRRGRAITG 324

Query: 319  SNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPTLRLHQCGLPKKMALELFK 378
            +N RPLKSL+DMIKGKQGRFRQNLLGKRVDYSGRSVI VGP L+LHQCGLPKKMALELFK
Sbjct: 325  TNGRPLKSLSDMIKGKQGRFRQNLLGKRVDYSGRSVIVVGPKLKLHQCGLPKKMALELFK 384

Query: 379  PFIYGKLEGRGLATTIKAAKKMVEREVAEVWDVLDEVIREHPVMLNRAPTLHRLGIQAFE 438
            PFIY +LE RGLA+TIK+AKKMVERE   VWD+L+EV+RE+P+MLNRAPTLHRLGIQ+FE
Sbjct: 385  PFIYSELEKRGLASTIKSAKKMVEREELVVWDILEEVVREYPIMLNRAPTLHRLGIQSFE 444

Query: 439  PVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEP 498
            P+L+EGKAIQLHPLVC+AYNADFDGDQMAVHVPL++EAQ+E R LMMSTNNILSPANG P
Sbjct: 445  PLLVEGKAIQLHPLVCSAYNADFDGDQMAVHVPLSVEAQIECRVLMMSTNNILSPANGSP 504

Query: 499  VITPSQDVVLGLYYTSRERINGRGEGMYFMSVAEVEKAYATGAAELHARVKVRITETIID 558
            VI PSQD+VLGLYY + +R   +GE M F +  EV  AY  G   LHAR+ VR+      
Sbjct: 505  VIVPSQDIVLGLYYMTVDRSFEKGENMSFCAPWEVVAAYDAGVVALHARINVRM------ 558

Query: 559  ENGERSEQRRIVDTTVGRALLSQILPAGLSFDLVNQNMGKKQISKLLNTCYRQLGLKDTV 618
                  E  ++V TTVGR L+ ++LP  + F +VN  + KK I++L++T YR  G K TV
Sbjct: 559  ------EDGKVVRTTVGRILVWELLPHCVPFSMVNTTLTKKNIARLVSTAYRDAGTKATV 612

Query: 619  IFADQLMYTGFRYATISGASVGIDDMVIPAEKYTLVADAEAEVLEIQEQFQSGLVTAGER 678
            I  D+L   G+ YAT +G ++ + D+ IP+ K  L+  A+ EV +I+ Q++ G++T  E+
Sbjct: 613  ILCDRLKDVGYEYATRAGVTIAVKDLTIPSTKKGLIETAQNEVDDIERQYRDGIITRTEK 672

Query: 679  YNKVIDIWASANEKVSKAMMENLSTETVIN-RDGVEEKQASFNSIYMMADSGARGSAAQI 737
            YNKV+D+W  A + VS  M+  +S++ V + R G +E  +SFNSIYMM+ SGARG+  Q+
Sbjct: 673  YNKVVDVWTKATQDVSNEMIREISSDIVEDPRTGAKEANSSFNSIYMMSTSGARGNQDQM 732

Query: 738  RQLAGMRGLMAKPDGSIIETPIVANFREGLNVLQYFISTHGARKGLADTALKTANSGYLT 797
            RQLAGMRGLMAKP G IIETPI ++FREGL+VLQYF STHGARKGLADTALKTANSGYLT
Sbjct: 733  RQLAGMRGLMAKPSGEIIETPITSSFREGLSVLQYFTSTHGARKGLADTALKTANSGYLT 792

Query: 798  RRLVDVAQDLVVIEDDCGTHEGLTMKPLIEGGDVVEPLRERVLGRVVAVDVFYPGTEDVL 857
            RRLVDV QD++V E DCGT +G+ +  + EGG++  PL +R LGRV+   V+ P T D+L
Sbjct: 793  RRLVDVVQDVIVSEHDCGTVDGIELTHIKEGGEIKIPLADRALGRVLLYPVYDPETRDLL 852

Query: 858  APRNTLLDEAWCDKLEEHSIDEVIVRSVITCDTDFGVCAACYGRDLARGHIINHGEAIGV 917
             P NTL+DE     L E  +  V++RS +TC +D G+C  CYGRDLARGHI+N GE +G+
Sbjct: 853  FPENTLVDENVAKVLVEREVSSVMIRSALTCQSDRGICTLCYGRDLARGHIVNIGETVGI 912

Query: 918  VAAQSIGEPGTQLTMRTFHIGGAASRASAENNVQVKNSGSLKLHNAKYVTNTDGKLVIVS 977
            +AAQSIGEPGTQLTMRTFHIGG ASR    ++ + ++ G + L   K V N DG+ +++ 
Sbjct: 913  IAAQSIGEPGTQLTMRTFHIGGTASREIERSSFEAQHPGRVILSRVKAVRNRDGQYMVMG 972

Query: 978  RSSELAIIDELGREKERYKVPYGTVLEKLEEASVEAGDIIANWDPHTHPIITEVAGSIKF 1037
            +S +LAI+D+ GRE+E+Y +P G+ L   E   +  G I+A WDP   P ++EV G I+F
Sbjct: 973  KSGQLAIVDDQGREREKYTLPNGSRLLVTEGEEIRKGQILAEWDPFNEPFVSEVDGVIRF 1032

Query: 1038 VDMIDGVTMTRQTDELTGLSSIVILDVGQRGSAGKEMRPMIRLVGADGSDLMIPGTEVPA 1097
             D+++G T   + DE T +++  I++           RP I +    G ++ + G  +PA
Sbjct: 1033 SDIVEGKTFQEKMDEATRMTTQTIIEY-----RTTNFRPSISICDEHG-EVKMRGNNIPA 1086

Query: 1098 QYFLPGSAIVNLDDNAQIAVGDALARIPQESSKTRDITGGLPRVADLFEARKPKEPAILA 1157
             Y LP  AI+ + +   +  GD +AR P+E+SKT+DI GGLPRVA+LFE RKPK+ A+++
Sbjct: 1087 TYSLPVGAIIMVKNGQDLQAGDIIARKPRETSKTKDIVGGLPRVAELFEVRKPKDMAVVS 1146

Query: 1158 EISGTISFGKETKGKRRLVITPADGGEQYEEMIPKWRNLNVFEGEKVERGEVIADGPEAA 1217
            EI+G +++  ETKGKR+LV+TP + GE  E ++PK +++ V +G+ VE G+++ +G    
Sbjct: 1147 EIAGIVTYAGETKGKRKLVVTP-EIGEAKEYLVPKGKHITVTDGDFVEAGDLLTEGHPEL 1205

Query: 1218 HDILRLRGIHNVANYIVNEVQDVYRLQGVKINDKHIEVIIRQMLRKCVITAAGDSEFLEG 1277
            HDILR RG   +A Y+ +E+Q+VYR QGV I+DKHIEVI+RQML+K  +   G + FL G
Sbjct: 1206 HDILRTRGEKYLARYLTDEIQEVYRFQGVAIDDKHIEVIVRQMLKKVTVLDPGGTTFLVG 1265

Query: 1278 EQVEVSRVKIANRELVEQGKVPATFERELLGITKASLATESFISAASFQETTRVLTEAAV 1337
            EQV+    ++ N   + +G+ PAT E  +LGIT+ASL T SFISAASFQETT+VLTEA++
Sbjct: 1266 EQVDKGEFRVENTRAMGEGRTPATAEPLVLGITQASLTTSSFISAASFQETTKVLTEASL 1325

Query: 1338 GGKSDNLRGLKENVIVGRLIPAGTGY 1363
             GK D LRGLKENVIVGRLIPAGTGY
Sbjct: 1326 RGKMDYLRGLKENVIVGRLIPAGTGY 1351