Pairwise Alignments

Query, 889 a.a., DNA-directed RNA polymerase subunit A' from Methanococcus maripaludis S2

Subject, 1399 a.a., DNA-directed RNA polymerase, beta' subunit, predominant form from Pseudomonas stutzeri RCH2

 Score =  228 bits (582), Expect = 2e-63
 Identities = 235/925 (25%), Positives = 392/925 (42%), Gaps = 172/925 (18%)

Query: 8   KEIGDITFGLLSPEQIRTMSVAKIVTADTYDDDGY-PIDGGLMDTRL-GVIDP------- 58
           +E   I   L SPE IR+ S  ++   +T +   + P   GL   ++ G +         
Sbjct: 15  EEFDAIKIALASPEMIRSWSFGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYECLCGK 74

Query: 59  -------GLVCKSCSGRVGTCP---GHFGHIELSKPVVHIGFAKDIYKILKAVCPHCGKV 108
                  G++C+ C   V           HIEL+ PV HI F K +   +  +      +
Sbjct: 75  YKRLKHRGVICEKCGVEVALAKVRRERMAHIELASPVAHIWFLKSLPSRIGLLLD----M 130

Query: 109 TITEIKRDEYLEKMAKLEEDGGDPWTLCDDLLKEAAKGSVCPSCGEVKADVKYDKPTAYH 168
           T+ +I+R  Y E    +     DP             G      G++  D +Y +  A  
Sbjct: 131 TLRDIERVLYFESYVVI-----DP-------------GMTTLEKGQLLNDEQYFE--ALE 170

Query: 169 QLDGKAQKQLTSSEVREIL-------------EKIPAEDC----KLLGINAKVAR----- 206
           +       ++ +  VRE+L             E+IP  +     K L    K+       
Sbjct: 171 EFGDDFDARMGAEAVRELLIQIDLEHEIGRLREEIPQTNSETKIKKLSKRLKLMEAFYGS 230

Query: 207 ---PEFMVLTVLPVPPVTVRPSITLESGERSEDDLTHKLVDIIRINQRLEENINGGAPNL 263
              PE+M+LTVLPV P  +RP + L+ G  +  DL      +I  N RL+  ++  AP++
Sbjct: 231 GNLPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLSAPDI 290

Query: 264 IIEDLWDLLQYHINTYFDNEAPGIPPARHRSGRPLRTLAQRLKGKEGRFRHNLAGKRVNF 323
           I+ +   +LQ  ++   DN   G       + RPL++LA  +KGK+GRFR NL GKRV++
Sbjct: 291 IVRNEKRMLQEAVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDY 349

Query: 324 SARTVISPDPRLSINEVGIPKLIAKELTVPEKVTPYNIEKVRALLRNGSDNHPGVNYVVK 383
           S R+VI+  P L +++ G+PK +A EL  P       +  +   ++             K
Sbjct: 350 SGRSVITVGPTLRLHQCGLPKKMALELFKPFIFGKLEMRGMATTIK-----------AAK 398

Query: 384 KVRTKDGKEEEYKIKITDANKDMWVENITDGMVIERHLSDGDIVLYNRQPSLHRMSIMAH 443
           K+  ++  E      + D   +          VI  H      VL NR P+LHR+ I A 
Sbjct: 399 KMVERELPE------VWDVLAE----------VIREH-----PVLLNRAPTLHRLGIQAF 437

Query: 444 KVKVLPYRTFRHNLCVCPPYNADFDGDEMNVHVPQSEEARAEAEKLMLVEKHIVSPRFGG 503
           +  ++  +  + +  VC  YNADFDGD+M VHVP + EA+ EA  LM+   +I+SP  G 
Sbjct: 438 EPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGE 497

Query: 504 PIIGAIHDFISGAYVLTSSLFTKDEALTLLKSSGLNVELGEPDVIENNIEYYSGKSLFSK 563
           PII    D + G Y +T       EA+       +  +L E D +     + +G++    
Sbjct: 498 PIIVPSQDVVLGLYYMTR------EAINAKGEGRVFADLQEVDRV-----FRAGEA---- 542

Query: 564 TLPEGLSLQYRAKICKKCDTCTKEECEHDAYV-------VIRNGKLLRGVIDKNGFGSEA 616
           +L   + ++    I  +  + TK     D  V       ++ +G +   V+++       
Sbjct: 543 SLHARVKVRINEVIKDRDGSITKNTRIVDTTVGRALLFQIVPDG-MAYDVVNQPMKKKAI 601

Query: 617 GIVLNTLVKDFGSEDARLFLDAATKMSIKAMVLKGFTTGIDDEDIPAEAIQEIQDLLNKA 676
             ++N   +  G +D  +F D           + G + G++D  IP E  +    +++ A
Sbjct: 602 SKLINLCYRTVGLKDTVIFADQLMYTGFAYSTISGVSIGVNDFVIPDEKAR----IIDAA 657

Query: 677 EQDVEDIVEKYENGTLESLPGRGVEESREAYIMQILGKARDQAGNVAEKYLSKE------ 730
            ++V++I  +Y +G +        +  +   ++ +  KA D+        LSKE      
Sbjct: 658 TEEVKEIESQYASGLV-------TQGEKYNKVIDLWSKANDEVSKAMMANLSKEKVIDRD 710

Query: 731 ---------NHAALMARTGARGSLLNITMMAASVGQQSVRGGRVFRGYRERTLPHFGKGS 781
                    N   +MA +GARGS   I  +A   G  +   G +                
Sbjct: 711 GKEAEQDSFNSMYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETP------------ 758

Query: 782 LDAKSHGFVRSCYKKGLAPTEYFFHAMGGREGLVDQAVRTAQSGYMQRRLVNALQD-IRA 840
                   + + +++GL   +YF    G R+GL D A++TA SGY+ RRLV+  QD +  
Sbjct: 759 --------ITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVT 810

Query: 841 EYDGTVRDSRGLVVQFEYGEDLVDP 865
           E D        +    E G D+V+P
Sbjct: 811 EVDCGTEQGLFMTPHIE-GGDVVEP 834