Structure of PDB 2bh2 Chain B Binding Site BS01

Receptor Information
>2bh2 Chain B (length=416) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IITVSVNDLDSFGQGVARHNGKTLFIPGLLPQENAEVTVTEDKKQYARAK
VVRRLSDSPERETPRCPHFGVCGGCQQQHASVDLQQRSKSAALARLMKHD
VSEVIADVPWGYRRRARLSLNYLPKTQQLQMGFRKAGSSDIVDVKQCPIL
APQLEALLPKVRACLGSLQAMRHLGHVELVQATSGTLMILRHTAPLSSAD
REKLERFSHSEGLDLYLAPDSEILETVSGEMPWYDSNGLRLTFSPRDFIQ
VNAGVNQKMVARALEWLDVQPEDRVLDLFCGMGNFTLPLATQAASVVGVE
GVPALVEKGQQNARLNGLQNVTFYHENLEEDVTKQPWAKNGFDKVLLDPA
RAGAAGVMQQIIKLEPIRIVYVSCNPATLARDSEALLKAGYTIARLAMLD
MFPHTGHLESMVLFSR
Ligand information
>2bh2 Chain D (length=30) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
agcgaaauuccuugucggguaaguuccgac
.............<<<<<<.....>>>>>>
Receptor-Ligand Complex Structure
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PDB2bh2 A Unique RNA Fold in the Ruma-RNA-Cofactor Ternary Complex Contributes to Substrate Selectivity and Enzymatic Function
Resolution2.15 Å
Binding residue
(original residue number in PDB)		D23 D25 F27 R33 G36 K37 T38 F40 K59 Q60 G88 G89 R110 R128 R130 A131 R132 L135 N136 F148 R149 G152 S153 S154 G190 H191 R206 T208 F263 Q265 G316 N342 D363 P364 R366 C389 A392 R396 F417 H422 E424
Binding residue
(residue number reindexed from 1)		D8 D10 F12 R18 G21 K22 T23 F25 K44 Q45 G73 G74 R95 R113 R115 A116 R117 L120 N121 F133 R134 G137 S138 S139 G175 H176 R191 T193 F248 Q250 G301 N327 D348 P349 R351 C374 A377 R381 F402 H407 E409
Enzymatic activity
Enzyme Commision number 2.1.1.190: 23S rRNA (uracil(1939)-C(5))-methyltransferase.
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0005506 iron ion binding
GO:0008168 methyltransferase activity
GO:0008173 RNA methyltransferase activity
GO:0008757 S-adenosylmethionine-dependent methyltransferase activity
GO:0046872 metal ion binding
GO:0051539 4 iron, 4 sulfur cluster binding
GO:0070041 rRNA (uridine-C5-)-methyltransferase activity
Biological Process
GO:0006364 rRNA processing
GO:0006396 RNA processing
GO:0009451 RNA modification
GO:0031167 rRNA methylation
GO:0032259 methylation
GO:0070475 rRNA base methylation

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Molecular Function
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Biological Process
External links
PDB RCSB:2bh2, PDBe:2bh2, PDBj:2bh2
PDBsum2bh2
PubMed15766524
UniProtP55135|RLMD_ECOLI 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD (Gene Name=rlmD)

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