Pairwise Alignments

Query, 889 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 =  230 bits (587), Expect = 4e-64
 Identities = 233/928 (25%), Positives = 391/928 (42%), Gaps = 174/928 (18%)

Query: 8   KEIGDITFGLLSPEQIRTMSVAKIVTADTYDDDGY-PIDGGLMDTRL-GVIDP------- 58
           +E   I  GL SP+ IR+ S  ++   +T +   + P   GL   R+ G +         
Sbjct: 15  EEFEGIKIGLASPDLIRSWSFGEVKKPETINYRTFKPEREGLFCARIFGPVKDYECLCGK 74

Query: 59  -------GLVCKSCSGRVGTCP---GHFGHIELSKPVVHIGFAKDIYKILKAVCPHCGKV 108
                  G++C+ C   V          GHI+L+ PV HI F K +   +  +      +
Sbjct: 75  YKRLKHRGVICEKCGVEVTQTKVRRERMGHIDLASPVAHIWFLKSLPSRIGLMLD----M 130

Query: 109 TITEIKRDEYLEKMAKLEEDGGDPWTLCDDLLKEAAKGSVCPSCGEVKADVKY-DKPTAY 167
           T+ +I+R  Y E    +E             +    +G +      + A  +Y D+  A 
Sbjct: 131 TLRDIERVLYFESFVVIEPG-----------MTSLERGQMLTEENYLDALEEYGDEFEA- 178

Query: 168 HQLDGKAQKQLTSS-----EVREILEKIPA--EDCKLLGINAKVA----------RPEFM 210
            ++  +A  +L  +     E+ E+ E++P+   + +   I  ++           +PE+M
Sbjct: 179 -KMGAEAVLELLRAIDLEKEIEEMREELPSINSETRRKKITKRLKLIEAFYQSGNKPEWM 237

Query: 211 VLTVLPVPPVTVRPSITLESGERSEDDLTHKLVDIIRINQRLEENINGGAPNLIIEDLWD 270
           +L VLPV P  +RP + L+ G  +  DL      +I  N RL+  ++  AP++I+ +   
Sbjct: 238 ILKVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKR 297

Query: 271 LLQYHINTYFDNEAPGIPPARHRSGRPLRTLAQRLKGKEGRFRHNLAGKRVNFSARTVIS 330
           +LQ  ++   DN   G       + RPL++LA  +KGK+GRFR NL GKRV++S R+VI+
Sbjct: 298 MLQESVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIT 356

Query: 331 PDPRLSINEVGIPKLIAKELTVPEKVTPYNIEKVRALLRNGSDNHPGVNYVVKKVRTKDG 390
             P L +++ G+PK +A EL  P                          ++  K+   +G
Sbjct: 357 VGPTLRLHQCGLPKKMALELFKP--------------------------FIYGKL---EG 387

Query: 391 KEEEYKIKITDANKDMWVENITDGM--VIERHLSDGDIVLYNRQPSLHRMSIMAHKVKVL 448
           +     IK      +  V  + D +  VI  H      V+ NR P+LHR+ I A +  ++
Sbjct: 388 RGLATTIKAAKKMVEREVPEVWDVLDDVIREH-----PVMLNRAPTLHRLGIQAFEPVLI 442

Query: 449 PYRTFRHNLCVCPPYNADFDGDEMNVHVPQSEEARAEAEKLMLVEKHIVSPRFGGPIIGA 508
             +  + +  VC  YNADFDGD+M VHVP + EA+ EA  LM+   +I+SP  G P+I  
Sbjct: 443 EGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEARSLMMSTNNILSPANGEPVITP 502

Query: 509 IHDFISGAYVLTSSLFT-KDEALTLLK---------------SSGLNVELGEPDVIENN- 551
             D + G Y  +      + E +                    + + V + E  + E+  
Sbjct: 503 SQDVVLGLYYTSRERINGRGEGMAFESVAEVEKAYRTGVAELHARVKVRITETTIAEDGE 562

Query: 552 -------IEYYSGKSLFSKTLPEGLSLQYRAKICKKCDTCTKEECEHDAYVVIRNGKLLR 604
                  ++   G++L S+ LP+GLS                                  
Sbjct: 563 RTESRRIVDTTVGRALLSQVLPKGLSYD-------------------------------- 590

Query: 605 GVIDKNGFGSEAGIVLNTLVKDFGSEDARLFLDAATKMSIKAMVLKGFTTGIDDEDIPAE 664
            ++++N    +   +LNT  +  G +D  +F D           + G + GI+D  IP E
Sbjct: 591 -LVNQNMGKKQISKLLNTCYRQLGLKDTVIFADQLMYTGFHFATVSGASVGINDMVIPDE 649

Query: 665 AIQEIQDLLNKAEQDVEDIVEKYENGTLESLPGRGVEESREAYIMQILGKARDQAGNVAE 724
               + D    AE +V +I E++++G + +         R   ++ I   A ++      
Sbjct: 650 KYSLVAD----AEAEVLEIQEQFQSGLVTA-------GERYNKVIDIWASANEKVSKAMM 698

Query: 725 KYLSKENHAALMARTGARGSLLNITMMAASVGQQSVRGGRVFRGYRERTLPHFGKGSLDA 784
             LS E           + S  +I MMA S  + S    R   G R           L A
Sbjct: 699 DNLSTETVINRDGEEETQASFNSIYMMADSGARGSAAQIRQLAGMR----------GLMA 748

Query: 785 KSHGF-----VRSCYKKGLAPTEYFFHAMGGREGLVDQAVRTAQSGYMQRRLVNALQDIR 839
           K  G      + + +++GL   +YF    G R+GL D A++TA SGY+ RRLV+  QD+ 
Sbjct: 749 KPDGSIIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLV 808

Query: 840 AEYDGTVRDSRGLVVQFEYGEDLVDPAK 867
              D         +     G D+V+P +
Sbjct: 809 VIEDDCGTHEGLTMKPLIEGGDVVEPLR 836