Pairwise Alignments

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

Subject, 1357 a.a., DNA-directed RNA polymerase subunit beta from Pseudomonas simiae WCS417

 Score = 87.0 bits (214), Expect = 4e-21
 Identities = 68/253 (26%), Positives = 119/253 (47%), Gaps = 33/253 (13%)

Query: 268 DALEHIGKRVAPGQPKEYKLKRAETILCN-------YLLPHMG----------VESEKLG 310
           +AL  I + + PG+P       AET+  N       Y L  +G           E E  G
Sbjct: 366 EALVEIYRMMRPGEPPTKDA--AETLFNNLFFSPERYDLSAVGRMKFNRRIGRTEIEGSG 423

Query: 311 AKCKY-LGRMAKNSIELYLGLRVEDDKDHYSNKRLKLAGDLMEDLFRHSFNQLIKDIKYQ 369
             CK  +  + K  +++  G  + DD DH  N+R++  G++ E+ FR    ++ + +K +
Sbjct: 424 VLCKEDIVAVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKER 483

Query: 370 LERQAIRNKEPSIQAAVRSDVLTERMRHAMATGNWVGGRTGVSQLLDRTSYLATVSQLRR 429
           L         P  Q  + +  +   ++          G + +SQ +D+ + L+ ++  RR
Sbjct: 484 LSMAESEGLMP--QDLINAKPVAAAVKEFF-------GSSQLSQFMDQNNPLSEITHKRR 534

Query: 430 VVS----PLSRSQPHFEARDLHATQWGKICPSETPEGPNCGLVKNLAVMCKVTTDEGDDS 485
           V +     L+R +  FE RD+H T +G++CP ETPEGPN GL+ +LA   +       +S
Sbjct: 535 VYALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLAAYARTNQYGFLES 594

Query: 486 VIELLKELGLTKE 498
              ++K+  +T E
Sbjct: 595 PYRVVKDALVTDE 607



 Score = 34.3 bits (77), Expect = 3e-05
 Identities = 45/205 (21%), Positives = 87/205 (42%), Gaps = 45/205 (21%)

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

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

Query: 191 RHGFRALCTVERNPDGLLNVSFPGMPSTIPLVILMRALGAESDREI-------IELISDE 243
           R  +      E +P   + V        +P  +L+RALG  +++ +       +  + DE
Sbjct: 184 RGSW---LDFEFDPKDCVFVRI-DRRRKLPASVLLRALGYTTEQVLDAFYTTNVFSLKDE 239

Query: 244 PTVVMQLIANLQEAREEHAINTTED 268
            T+ ++LIA+    R E A+   +D
Sbjct: 240 -TLKLELIAS--RLRGEIAVLDIQD 261