Pairwise Alignments

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

Subject, 1345 a.a., DNA-directed RNA polymerase subunit beta (RefSeq) from Shewanella sp. ANA-3

 Score =  132 bits (331), Expect = 1e-34
 Identities = 100/317 (31%), Positives = 148/317 (46%), Gaps = 78/317 (24%)

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

Query: 406  TIGQVLEM--------IGGKVGS-LECRRIDGTI-------------------------- 430
             IGQVLE+        IG K+ + LE +R  G                            
Sbjct: 1109 NIGQVLEVHLGAAAKGIGNKIAAMLEDQREKGLAEVRNYIKQVYELGDEVQQRVDIDSFT 1168

Query: 431  ---------------------FSGESEWKLREGLEKYGFEHHAKEAMYDGKSGRKLECDI 469
                                 F G  E ++++ LE  G     +  ++DG++G + E  +
Sbjct: 1169 DDELLRLANNLKGGIPVATPAFDGAKEKEIKQMLELAGLPTSGQLKLFDGRTGNEFERPV 1228

Query: 470  FVGVAYYQKLHHLVAGKIHARSRGPIQVLTRQPTEGRAREGGLRFGEMERDVLVAHGAAM 529
             VG  Y  KL+HLV  K+HARS G   ++T+QP  G+A+ GG RFGEME   L A+GAA 
Sbjct: 1229 TVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAY 1288

Query: 530  LLKERLLDESDPHEDYVCAKCGEIAIFDYKRGMKFCPVCGESEDIQDNRKIPPVKIAYAF 589
             L+E L  +SD          G   ++                 +  N ++ P  +  +F
Sbjct: 1289 TLQEMLTVKSDDVN-------GRTQMY--------------KNIVDGNHQMQP-GMPESF 1326

Query: 590  KLLLDELKSMGIDPKLE 606
             +LL E++S+GI+ +L+
Sbjct: 1327 NVLLKEIRSLGINIELD 1343



 Score = 45.8 bits (107), Expect = 1e-08
 Identities = 38/170 (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  + + ++ I +
Sbjct: 909 EKASDVKDSSLRVPNSVKGTIIDVQVF--TRDGVEKDKRAIEIEEMHIAQ 956