Pairwise Alignments

Query, 499 a.a., DNA-directed RNA polymerase subunit B'' from Methanococcus maripaludis S2

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

 Score = 88.2 bits (217), Expect = 2e-21
 Identities = 67/234 (28%), Positives = 112/234 (47%), Gaps = 31/234 (13%)

Query: 265 TTEDALEHIGKRVAPGQP-----------------KEYKLKRAETILCNYLLPHMGVESE 307
           T EDAL  I + + PG+P                 + Y L     +  N  L     ++ 
Sbjct: 366 TREDALFDIYRVMRPGEPPTLDSAQAMFHSLFFDPERYDLSAVGRVKMNMRLDLDCPDTV 425

Query: 308 KLGAKCKYLGRMAKNSIELYLGLRVEDDKDHYSNKRLKLAGDLMEDLFRHSFNQLIKDIK 367
           ++  +   L  + K  +EL  G    DD DH  N+R++  G+LME+ +R    ++ + IK
Sbjct: 426 RVLRRDDILS-VIKTLVELRDGKGEIDDIDHLGNRRVRSVGELMENQYRVGLLRMERAIK 484

Query: 368 YQLERQAIRNKEPSIQAAVRSDVLTERMRHAMATGNWVGGRTGVSQLLDRTSYLATVSQL 427
            ++    I    P  Q  + +  +   +R          G + +SQ +D+T+ L+ ++  
Sbjct: 485 ERMSSVDIDTVMP--QDLINAKPVAAAVREFF-------GSSQLSQFMDQTNPLSEITHK 535

Query: 428 RRVVS----PLSRSQPHFEARDLHATQWGKICPSETPEGPNCGLVKNLAVMCKV 477
           RR+ +     L+R +  FE RD+H T +G+ICP ETPEGPN GL+ +LA   +V
Sbjct: 536 RRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATFARV 589



 Score = 31.6 bits (70), Expect = 2e-04
 Identities = 46/230 (20%), Positives = 94/230 (40%), Gaps = 42/230 (18%)

Query: 15  SLVKHHIDSYDDFVKNKIQRIIDEVTGVETEIKGGYKVS-FGNVRVTKPINKEADGSVKP 73
           +L++    SYD F++ +  +   +  G++   K  + +S F    + + +  E +     
Sbjct: 26  NLIEVQKASYDQFLQIEEPKGGRDDDGLQAVFKSVFPISDFSGAAMLEFVRYEFEPPKYD 85

Query: 74  ITPMEARIRNLAYSAPLYL-------EMIPTVGEGEEEKVLSPVEVYIGELPVMLGSEIC 126
           +   E R R + ++APL +       ++ P  G  +  K +   +VY G++P+M  +   
Sbjct: 86  VD--ECRQRGMTFAAPLKVTLRLIVFDVDPDTG-AKSVKDIKEQDVYTGDIPLMTMN--- 139

Query: 127 HLCGKSAEELIKYGEDTQDPLGYFIVNGSEKAVVAQEDLIPNRIICE---KVEKNNKVVD 183
                                G FIVNG+E+ +V+Q    P         K   + K++ 
Sbjct: 140 ---------------------GTFIVNGTERVIVSQMHRSPGVFFDHDKGKTHSSGKLLF 178

Query: 184 IAKVFSTRHGFRALCTVERNPDGLLNVSFPGMPSTIPLVILMRALGAESD 233
            A++   R  +     +E +   ++          IP+  L+ ALG +S+
Sbjct: 179 AARIIPYRGSW---LDIEFDAKDIVYARI-DRRRKIPVTSLLYALGLDSE 224