Pairwise Alignments

Query, 611 a.a., DNA-directed RNA polymerase subunit B from Methanococcus maripaludis S2

Subject, 1343 a.a., DNA-directed RNA polymerase, beta subunit (RefSeq) from Shewanella loihica PV-4

 Score =  131 bits (329), Expect = 2e-34
 Identities = 98/315 (31%), Positives = 149/315 (47%), Gaps = 76/315 (24%)

Query: 346  RLGKVRVRDLRIPEFGDKFASRHGQKGVIGLIVPQEDLPYTEDGVIPDLIINPHAIPSRM 405
            ++ KV +   R  + GDK A RHG KGVI  I P ED+PY E+G   D+++NP  +PSRM
Sbjct: 1049 KIVKVYLAVKRTIQPGDKMAGRHGNKGVISKINPIEDMPYDENGNPVDIVLNPLGVPSRM 1108

Query: 406  TIGQVLEM--------IGGKVGSL-----ECRRIDGTI---------------------- 430
             IGQVLE+        IG ++ ++     E   + G I                      
Sbjct: 1109 NIGQVLEVHLGAAAKGIGDRITAMLEEQRELAELRGYIKKVYELGEDVQQQVDIDSFTDE 1168

Query: 431  -------------------FSGESEWKLREGLEKYGFEHHAKEAMYDGKSGRKLECDIFV 471
                               F G  E ++++ LE  G     +  ++DG++G + E  + V
Sbjct: 1169 EVLRLAKNLKGGIPTATPAFDGAKEKEIKDMLELAGLPTSGQLKLFDGRTGNEFERPVTV 1228

Query: 472  GVAYYQKLHHLVAGKIHARSRGPIQVLTRQPTEGRAREGGLRFGEMERDVLVAHGAAMLL 531
            G  Y  KL+HLV  K+HARS G   ++T+QP  G+A+ GG RFGEME   L A+GAA  L
Sbjct: 1229 GYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTL 1288

Query: 532  KERLLDESDPHEDYVCAKCGEIAIFDYKRGMKFCPVCGESEDIQDNRKIPPVKIAYAFKL 591
            +E L  +SD          G   ++                 +  N ++ P  +  +F +
Sbjct: 1289 QEMLTVKSDDVN-------GRTQMY--------------KNIVDGNHQMQP-GMPESFNV 1326

Query: 592  LLDELKSMGIDPKLE 606
            LL E++S+GI+ +L+
Sbjct: 1327 LLKEIRSLGINIELD 1341



 Score = 46.2 bits (108), Expect = 9e-09
 Identities = 39/170 (22%), Positives = 79/170 (46%), Gaps = 25/170 (14%)

Query: 204 GQNFVVAVMSYEGYNMEDAFIINKASLERGLGRSSFFRSYESFEKRYP-GGQLDKFEVPE 262
           GQN  +A M + GYN ED+ +I++   +     +   +      +    G +    ++P 
Sbjct: 798 GQNMRIAFMPWNGYNFEDSILISERVAQEDRFTTIHIQELSCIARDTKLGSEEITADIPN 857

Query: 263 KGVRGYRAEEAYRNLGDDGLIDLESSVKSGDVILGKTSPPRFLEEQEITLQTK------- 315
            G      E A   L + G++ + + VK GD+++GK +P     E ++T + K       
Sbjct: 858 VG------ESALSKLDESGIVYIGAEVKGGDILVGKVTPK---GETQLTPEEKLLRAIFG 908

Query: 316 ---SQRRDTSVTIRHGEEG-IVDLVILSETKEGNRLGK--VRVRDLRIPE 359
              S  +D+S+ + +  +G I+D+ +   T++G    K  V + ++ I +
Sbjct: 909 EKASDVKDSSLRVPNSVKGTIIDVQVF--TRDGVEKDKRAVEIEEMHIAQ 956