Pairwise Alignments

Query, 440 a.a., 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD from Vibrio cholerae E7946 ATCC 55056

Subject, 449 a.a., RNA methyltransferase, TrmA family (NCBI ptt file) from Shewanella oneidensis MR-1

 Score =  384 bits (986), Expect = e-111
 Identities = 204/446 (45%), Positives = 280/446 (62%), Gaps = 11/446 (2%)

Query: 1   MARFFQPKKHSTLD-TKHQPVTIERLDHQGSGLAFLHKKPLFVDGALPGEEVLIQLTENK 59
           MA+FF+ K +S+   +  Q  ++++LDH G+G+A    K +F+ GALP E V  QLTE K
Sbjct: 1   MAQFFKAKPNSSKQLSAKQSFSVQQLDHLGAGIAQHQGKVVFIPGALPNETVQAQLTEQK 60

Query: 60  SKYARGQLIKVLKPSAERVAPFCAHYAQCGGCDLQHLDRAGQIHHKQQALSQLMVKFAGQ 119
             YAR +LIKV  PS ERV+P C HY  CGGCDLQH+    Q  HK  AL  +M KFAG 
Sbjct: 61  KNYARAKLIKVETPSTERVSPLCPHYHTCGGCDLQHMSLTAQREHKSAALVDIMAKFAGA 120

Query: 120 SLALSAPVCSDDQGYRRRARLSLMWDKKTQQLQLGFRRKQSKAIVNVTHCPVLEPSLNAL 179
             +L+  +  +   YRRRARL+ ++DK T+QL LGFR   S  +V++T C VL   L+ L
Sbjct: 121 EGSLAPALSGEGWHYRRRARLATLFDKNTKQLSLGFRASSSSHVVSITECLVLAKPLSDL 180

Query: 180 LPDLNALLSEWSQPERLGHVELVKGDNTRVLVLRHLGALIEQDQQRLTDFASQNQLTLYL 239
           +     LL++ +    LGH+EL+  DN    V+R   +L ++D  +L  FA Q+Q+ + L
Sbjct: 181 IAPFAKLLNQLAAKSSLGHLELIAADNGHFAVIRITKSLNDKDMAKLAQFAEQHQIHICL 240

Query: 240 MLEAGELQHVQGE--APYCEETGSR-------LSFLPSHFIQVNRAVNQHMVVQALNWLE 290
               GE   V G    P  +    +       L+F P +F+QVN  +N+ MV QAL+WL 
Sbjct: 241 QDNEGEFHGVNGTLLLPVYQLLDDKTDVQPVSLTFTPGNFVQVNAQINKAMVAQALDWLA 300

Query: 291 VSPQERVLDLFCGLGNFTLPLAKQAQAVVGVEGVDEMVQHATHNAKLNQINNVAFYQANL 350
             P ER+LDLFCG+GNF+LPLA+    V+GVEGV EMV  A  NA  N ++N+ FY  +L
Sbjct: 301 PQPGERILDLFCGMGNFSLPLARMGADVIGVEGVPEMVSQARENAVANGLSNLTFYHGDL 360

Query: 351 EQDMTSASWAQQKFAKVLLDPARAGAEGIVDQLSALGAKRVVYVSCNPATLARDSQSLLS 410
             D++S  W   K  K+LLDPARAGA   +  L  +  ++VVYVSCNPA+LARDS  LL 
Sbjct: 361 SADLSSEPW-MGKIDKLLLDPARAGAYESLQWLKKMKPRQVVYVSCNPASLARDSAVLLE 419

Query: 411 QGFRLEKLGMLDMFPHTSHLESMALF 436
           +G++L+KLG++DMFP T H+E+MALF
Sbjct: 420 RGYKLQKLGLIDMFPQTHHIEAMALF 445