Pairwise Alignments

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

Subject, 444 a.a., 23S rRNA 5-methyluridine methyltransferase (RefSeq) from Shewanella loihica PV-4

 Score =  366 bits (939), Expect = e-106
 Identities = 198/441 (44%), Positives = 276/441 (62%), Gaps = 6/441 (1%)

Query: 1   MARFFQPKKHSTLDTK-HQPVTIERLDHQGSGLAFLHKKPLFVDGALPGEEVLIQLTENK 59
           MA+F++ K   T  T+  Q   + +LDH G+G+A    K +F+ GALP E V  Q+ E K
Sbjct: 1   MAQFYKAKPRKTQQTQAKQSFHVSQLDHLGAGIAEHQGKIVFIPGALPDETVTAQIVEQK 60

Query: 60  SKYARGQLIKVLKPSAERVAPFCAHYAQCGGCDLQHLDRAGQIHHKQQALSQLMVKFAG- 118
            ++A+ +LIKV   SA R+   C +Y +CGGCDLQHL+ + Q   KQ AL  L+ K    
Sbjct: 61  KRHAKAKLIKVESASAARIEASCPYYGRCGGCDLQHLELSAQRDAKQTALENLINKMGRT 120

Query: 119 QSLALSAPVCSDDQGYRRRARLSLMWDKKTQQLQLGFRRKQSKAIVNVTHCPVLEPSLNA 178
           Q   +S P+  +   YRRRARL+  + + T+QL LGFR   S  +VN+  CPVL  SL+ 
Sbjct: 121 QPQTMSEPLSGEGWHYRRRARLATQYLRDTKQLNLGFRALASSEVVNIDACPVLAKSLSE 180

Query: 179 LLPDLNALLSEWSQPERLGHVELVKGDNTRVLVLRHLGALIEQDQQRLTDFASQNQLTLY 238
           L+  LN  L+  S    LGHVEL+  D+   +VLR    L ++D+  L  F  Q+++ L 
Sbjct: 181 LIAPLNQCLNRLSAKRSLGHVELLSVDSGPCVVLRITSPLNDKDKALLATFGEQHKVRLV 240

Query: 239 LMLEAGELQHVQGEAP---YCEETGSRLSFLPSHFIQVNRAVNQHMVVQALNWLEVSPQE 295
           L+ +  +L+ + G+     Y  E GS L F P +FIQVN  +NQ MV QA++WL++ P E
Sbjct: 241 LLDDDSKLETLWGDEGLPYYTLEDGSSLGFSPGNFIQVNGEINQQMVTQAIDWLQIQPGE 300

Query: 296 RVLDLFCGLGNFTLPLAKQAQAVVGVEGVDEMVQHATHNAKLNQINNVAFYQANLEQDMT 355
           RVLDLFCG+GNFTLPLAK    VVGVEGVD MV  A  NA ++ +    FY  +L  D++
Sbjct: 301 RVLDLFCGVGNFTLPLAKAGAQVVGVEGVDAMVAQARVNATMSGVEGAEFYHGDLSADLS 360

Query: 356 SASWAQQKFAKVLLDPARAGAEGIVDQLSALGAKRVVYVSCNPATLARDSQSLLSQGFRL 415
           +A W   +  K+LLDPARAGA   +  L  +  K +VY+SCNP +LARD + LL+QG++L
Sbjct: 361 AAPWL-GRIDKLLLDPARAGAYESLQWLKKMKPKAIVYISCNPVSLARDCEPLLAQGYQL 419

Query: 416 EKLGMLDMFPHTSHLESMALF 436
            +LG++DMFP T H+E+MALF
Sbjct: 420 SRLGLIDMFPQTHHIEAMALF 440