Structure of PDB 3rfa Chain B

Receptor sequence
>3rfaB (length=359) Species: 83333 (Escherichia coli K-12) [Search protein sequence]
KINLLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKV
LRGKLKEVAEIRAPEVVEEQRSSDGTIKWAIAVGDQRVETVYIPEDDRAT
LCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTG
QRPITNVVMMGMGEPLLNLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGVV
PALDKLGDMIDVALAISLHAPNDEIRDEIVPINKKYNIETFLAAVRRYLE
KSNANQGRVTIEYVMLDHVNDGTEHAHQLAELLKDTPCKINLIPWNPFPG
APYGRSSNSRIDRFSKVLMSYGFTTIVRKTRGDDIDAACGQLAGDVIDRT
KRTLRKRMQ
3D structure
PDB3rfa Structural basis for methyl transfer by a radical SAM enzyme.
ChainB
Resolution2.05 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) E105 C118 C125 C129 C132 C355
Catalytic site (residue number reindexed from 1) E89 C102 C109 C113 C116 C339
Enzyme Commision number 2.1.1.192: 23S rRNA (adenine(2503)-C(2))-methyltransferase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 SF4 B C125 L127 C129 C132 G179 S213 C109 L111 C113 C116 G163 S197
BS02 SAM B F131 M176 G177 G179 E180 P181 S211 T212 S233 H235 W311 N312 C355 F115 M160 G161 G163 E164 P165 S195 T196 S217 H219 W295 N296 C339
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0002935 tRNA (adenine(37)-C2)-methyltransferase activity
GO:0003824 catalytic activity
GO:0005515 protein binding
GO:0008168 methyltransferase activity
GO:0008173 RNA methyltransferase activity
GO:0019843 rRNA binding
GO:0046872 metal ion binding
GO:0051536 iron-sulfur cluster binding
GO:0051539 4 iron, 4 sulfur cluster binding
GO:0070040 rRNA (adenine(2503)-C2-)-methyltransferase activity
Biological Process
GO:0006364 rRNA processing
GO:0008033 tRNA processing
GO:0030488 tRNA methylation
GO:0032259 methylation
GO:0046677 response to antibiotic
GO:0070475 rRNA base methylation
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3rfa, PDBe:3rfa, PDBj:3rfa
PDBsum3rfa
PubMed21527678
UniProtP36979|RLMN_ECOLI Dual-specificity RNA methyltransferase RlmN (Gene Name=rlmN)

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