Pairwise Alignments

Query, 386 a.a., DNA-directed RNA polymerase subunit A'' from Methanococcus maripaludis S2

Subject, 1404 a.a., DNA-directed RNA polymerase subunit beta' (RefSeq) from Shewanella loihica PV-4

 Score = 57.8 bits (138), Expect = 2e-12
 Identities = 26/34 (76%), Positives = 29/34 (85%)

Query: 53  LVEPGEAVGVVAAQSIGEPGTQMTMRTFHYAGVA 86
           L+  GEA+GVVAAQSIGEPGTQ+TMRTFH  G A
Sbjct: 908 LINQGEAIGVVAAQSIGEPGTQLTMRTFHIGGAA 941



 Score = 42.4 bits (98), Expect = 8e-08
 Identities = 40/165 (24%), Positives = 68/165 (41%), Gaps = 41/165 (24%)

Query: 247  VFDIEGVDTTKTTTNNIVEIQDVL---GIEAARNAIIYEMDATLGNQGLTVDKRHLMMVA 303
            VF+ E V+  +   +      D+L   GI    N I+ E+      QG+ ++ +H+ ++ 
Sbjct: 1198 VFEGEKVERGEVIADGPEAAHDILRLRGIHKVANYIVNEVQDVYRLQGVKINDKHIEVII 1257

Query: 304  DLMCTDGVVKPIG---------------------------------RHGIGGEKASV--- 327
              M     +   G                                 R  +G  KAS+   
Sbjct: 1258 RQMLRKCEITEAGDSEFLPGEQVEVSRVKIANRELEAQGKEPAKFERELLGITKASLATE 1317

Query: 328  --LARAAFEETVKHLYSASMRGYVDELGGVVENIIVGKPISMGTG 370
              ++ A+F+ET + L  A++ G  D+L G+ EN+IVG+ I  GTG
Sbjct: 1318 SFISAASFQETTRVLTEAAVGGKSDKLRGLKENVIVGRLIPAGTG 1362



 Score = 27.7 bits (60), Expect = 0.002
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 7/49 (14%)

Query: 89   NVTLGLPRMIEIVDARKEPSTPTM------TIYLNDEFKGNREKAATVA 131
            ++T GLPR+ ++ +ARK P  P +      TI    E KG R    T A
Sbjct: 1133 DITGGLPRVADLFEARK-PKEPAILAEYSGTISFGKETKGKRRLVITPA 1180