Pairwise Alignments

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

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

 Score = 84.0 bits (206), Expect = 3e-20
 Identities = 65/254 (25%), Positives = 116/254 (45%), Gaps = 35/254 (13%)

Query: 268 DALEHIGKRVAPGQPKEYKLKRAETILCNYLLPHMGVESEKLGAKCKYLGRMAKNSIE-- 325
           +AL  I + + PG+P       AET+  N        +   +G + K+  R+ +  IE  
Sbjct: 366 EALVEIYRMMRPGEPPTKDA--AETLFNNLFFASERYDLSAVG-RMKFNRRIGRTEIEGS 422

Query: 326 -----------------LYLGLRVEDDKDHYSNKRLKLAGDLMEDLFRHSFNQLIKDIKY 368
                            +  G  + DD DH  N+R++  G++ E+ FR    ++ + +K 
Sbjct: 423 GVLSREDIVAVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKE 482

Query: 369 QLERQAIRNKEPSIQAAVRSDVLTERMRHAMATGNWVGGRTGVSQLLDRTSYLATVSQLR 428
           +L         P  Q  + +  +   ++          G + +SQ +D+ + L+ ++  R
Sbjct: 483 RLSMAESEGLMP--QDLINAKPVAAAVKEFF-------GSSQLSQFMDQNNPLSEITHKR 533

Query: 429 RVVS----PLSRSQPHFEARDLHATQWGKICPSETPEGPNCGLVKNLAVMCKVTTDEGDD 484
           RV +     L+R +  FE RD+H T +G++CP ETPEGPN GL+ +LA   +       +
Sbjct: 534 RVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLAAYARTNQYGFLE 593

Query: 485 SVIELLKELGLTKE 498
           S   ++KE  +T E
Sbjct: 594 SPYRVVKEGEVTDE 607



 Score = 31.2 bits (69), Expect = 2e-04
 Identities = 38/172 (22%), Positives = 70/172 (40%), Gaps = 36/172 (20%)

Query: 78  EARIRNLAYSAPLYLEMIPTVGEGEEE----KVLSPVEVYIGELPVMLGSEICHLCGKSA 133
           E  +R + ++ PL +++   + + E      K +   EVY+GE+P+M  +          
Sbjct: 88  ECVLRGVTFAVPLRVKVRLIIFDKESSNKAIKDIKEQEVYMGEIPLMTEN---------- 137

Query: 134 EELIKYGEDTQDPLGYFIVNGSEKAVVAQEDLIPNRIICE---KVEKNNKVVDIAKVFST 190
                         G FI+NG+E+ +V+Q    P         K   + K++  A++   
Sbjct: 138 --------------GTFIINGTERVIVSQLHRSPGVFFDHDRGKTHSSGKLLYSARIIPY 183

Query: 191 RHGFRALCTVERNPDGLLNVSFPGMPSTIPLVILMRALGAESDREIIELISD 242
           R  +      E +P   + V        +P  +L+RAL   S  EI++   D
Sbjct: 184 RGSW---LDFEFDPKDAVFVRI-DRRRKLPASVLLRALN-YSTEEILDAFYD 230