Pairwise Alignments

Query, 889 a.a., DNA-directed RNA polymerase subunit A' from Methanococcus maripaludis S2

Subject, 1418 a.a., DNA-directed RNA polymerase beta from Sphingobium sp. HT1-2

 Score =  241 bits (616), Expect = 2e-67
 Identities = 239/889 (26%), Positives = 395/889 (44%), Gaps = 158/889 (17%)

Query: 7   PKEIGDITFGLLSPEQIRTMSVAKIVTADTYDDDGY-PIDGGLMDTRL-GVIDP------ 58
           P+    I  GL SPE+IR+ S  +I   +T +   + P   GL   R+ G I        
Sbjct: 14  PETFDQIQIGLASPERIRSWSFGEIKKPETINYRTFKPERDGLFCARIFGPIKDYECLCG 73

Query: 59  --------GLVCKSCSGRVGTCP---GHFGHIELSKPVVHIGFAKDIYKILKAVCPHCGK 107
                   G+VC+ C   V          GHIEL+ PV HI F K +   +  +      
Sbjct: 74  KYKRMKYKGIVCEKCGVEVTVSKVRRERMGHIELAAPVAHIWFLKSLPSRIGLLLD---- 129

Query: 108 VTITEIKRDEYLEKMAKLEEDGGDPWT----LCDDLLKEAAK--GSVCPSCGEVKADVKY 161
           + + +++R  Y E    + E G  P      L +D L +A    G    S G     VK 
Sbjct: 130 MQLKQLERVLYFESYI-VTEPGLTPLEKYQLLTEDELLDAQDEYGEDAFSAGIGAEAVKQ 188

Query: 162 DKPTAYHQLDGKAQKQ-------LTSSEVR--EILEKIPAEDCKLLGINAKVARPEFMVL 212
                   LD + +KQ       +T SE++  +I++++   +  L   N    RPE+M+L
Sbjct: 189 ----MLMDLDLEGEKQALLDELAVTKSELKPKKIIKRLKVVESFLESGN----RPEWMIL 240

Query: 213 TVLPVPPVTVRPSITLESGERSEDDLTHKLVDIIRINQRLEENINGGAPNLIIEDLWDLL 272
            V+PV P  +RP + L+ G  +  DL      +I  N RL+  +   AP++I+ +   +L
Sbjct: 241 DVVPVIPPELRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLMELRAPDIIVRNEKRML 300

Query: 273 QYHINTYFDNEAPGIPPARHRSGRPLRTLAQRLKGKEGRFRHNLAGKRVNFSARTVISPD 332
           Q  ++  FDN   G       + RPL++L+  LKGK+GRFR NL GKRV++S R+VI   
Sbjct: 301 QEAVDALFDNGRRG-RVITGANKRPLKSLSDMLKGKQGRFRQNLLGKRVDYSGRSVIVTG 359

Query: 333 PRLSINEVGIPKLIAKELTVPEKVTPYNIEKVRALLRNGSDNHPGVNYVVKKVRTKDGKE 392
           P L +++ G+PK +A EL       P+   ++ A          G++  +K+ +    KE
Sbjct: 360 PELKLHQCGLPKKMALEL-----FKPFIYARLDA---------KGLSMTLKQAKKWVEKE 405

Query: 393 EEYKIKITDANKDMWVENITDGMVIERHLSDGDIVLYNRQPSLHRMSIMAHKVKVLPYRT 452
                      K++W  +I D ++ E        V+ NR P+LHR+ I A +  ++  + 
Sbjct: 406 R----------KEVW--DILDEVIREHP------VMLNRAPTLHRLGIQAFEPVLIEGKA 447

Query: 453 FRHNLCVCPPYNADFDGDEMNVHVPQSEEARAEAEKLMLVEKHIVSPRFGGPIIGAIHDF 512
            + +  VC  +NADFDGD+M VHVP S EA+ EA  LM+   +I+SP  G PII    D 
Sbjct: 448 IQLHPLVCSAFNADFDGDQMAVHVPLSLEAQLEARVLMMSTNNILSPANGKPIIVPSQDM 507

Query: 513 ISGAYVLTSSLFTKDEALTLLKSSGLNVELGEPDVIENNIEYYSGKSLFSKTLPEGLSLQ 572
           + G Y L+            ++  G   E GE  ++ +  E +  ++L++K      ++ 
Sbjct: 508 VLGIYYLS------------MEREG---EPGEGMLLSDMQEVH--QALYAK------AVT 544

Query: 573 YRAKICKKCDTCTKEECEHDAYVVIRNGKLLRG------------VIDKNGFGSEAGIVL 620
             +KI  +     +   ++        G++L G            V+++     E G V+
Sbjct: 545 LHSKIISRVPQTDENGQQYMKRFETTPGRMLLGECLPKSHKVPFDVVNRLLTKKEIGDVI 604

Query: 621 NTLVKDFGSEDARLFLDAATKMSIKAMVLKGFTTGIDDEDIPAEAIQEIQDLLNKAEQDV 680
           + + +  G +D  LF DA   +  +     G + G DD  IP   +     ++++ +  V
Sbjct: 605 DQVYRHTGQKDTVLFADAIMSLGFRHAFQAGISFGKDDMVIPDSKV----TMVDETKALV 660

Query: 681 EDIVEKYENGTLESLPGRGVEESREAYIMQILGKARDQAGNVAEKYLSKE---------- 730
            D  ++Y++G +        ++ +   ++    +  DQ  N     +  +          
Sbjct: 661 ADYEQQYQDGLI-------TQQEKYNKVIDAWSRCGDQVANAMMDEIRAQPKDPKTGRLA 713

Query: 731 --NHAALMARTGARGSLLNITMMAASVGQQSVRGGRVFRGYRERTLPHFGKGSLDAKSHG 788
             N   +MA +GARGS   +  +A   G  +   G +                       
Sbjct: 714 PINSIYMMAHSGARGSQAQMKQLAGMRGLMAKPSGEIIETP------------------- 754

Query: 789 FVRSCYKKGLAPTEYFFHAMGGREGLVDQAVRTAQSGYMQRRLVNALQD 837
            + S +K+GL   EYF    G R+GL D A++TA SGY+ RRLV+  QD
Sbjct: 755 -IISNFKEGLTVLEYFNSTHGARKGLADTALKTANSGYLTRRLVDVSQD 802