Brand  (β version)

PDB ID: 2BH2

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Ligands
Code Name Style Show Link
SAH S-adenosyl-L-homocysteine PoSSuM
SF4 Iron/sulfur cluster PoSSuM
Non-standard Residues
Code Name Show
FMU 5-fluoro-5-methyluridine-5'-monophosphate
Glycosylation
Code Name Emphasize
Modification
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Structure summary

Code : 2BH2   PDBj   RCSB PDB   PDBe
Header : TRANSFERASE
Title : Crystal Structure of E. coli 5-methyluridine methyltransferase RumA in complex with ribosomal RNA substrate and S-adenosylhomocysteine.
Release Data : 2005-03-30
Compound :
mol_id molecule chains synonym
1 23S RRNA (URACIL-5-)-METHYLTRANSFERASE RUMA A,B 23S RRNA(M-5-U1939)-METHYLTRANSFERASE, 23S RRNA URACIL-5-METHYLTRANSFERASE RUMA
ec: 2.1.1.-
other_details: IRON-SULFUR CLUSTER LINKED BY CYS81, CYS87, CYS90, AND CYS162
mol_id molecule chains
2 23S RIBOSOMAL RNA 1932-1968 C,D
other_details: 5-FLUORO-U1939 IS METHYLATED AND ITS 6-C IS COVALENTLY LINKED TO CYS389 OF RUMA
Source :
mol_id organism_scientific expression_system
1 ESCHERICHIA COLI  (taxid:562) ESCHERICHIA COLI  (taxid:469008)
strain: K12
expression_system_strain: BL21(DE3)
expression_system_vector: PET15B
mol_id organism_scientific
2 ESCHERICHIA COLI  (taxid:562)
synthetic: yes
Authors : Lee, T.T., Agarwalla, S., Stroud, R.M.
Keywords : IRON-SULFUR CLUSTER, METHYLTRANSFERASE, RNA MODIFICATION, RNA PROCESSING, TRANSFERASE, RUMA, BASE FLIPPING, SAM, OB-FOLD, PROTEIN-RNA COMPLEX, BASE STACKING, SUBSTRATE SELECTIVITY, GENERAL BASE, PRODUCT RELEASE, 4FE-4S, METAL-BINDING
Exp. method : X-RAY DIFFRACTION ( 2.15 Å )
Citation :

A Unique RNA Fold in the Ruma-RNA-Cofactor Ternary Complex Contributes to Substrate Selectivity and Enzymatic Function

Lee, T.T.,Agarwalla, S.,Stroud, R.M.
(2005)  Cell(Cambridge,Mass.)  120 : 599

PubMed: 15766524
DOI: 10.1016/J.CELL.2004.12.037

Crystal Structure of Ruma, an Iron-Sulfur Cluster Containing E. Coli Ribosomal RNA 5-Methyluridine Methyltransferase

Lee, T.T.,Agarwalla, S.,Stroud, R.M.
(2004)  Structure  12 : 397

PubMed: 15016356
DOI: 10.1016/J.STR.2004.02.009

Reaction

Chain : A, B
UniProt : P55135 (RLMD_ECOLI)
Reaction: EC: Evidence:
Physiological Direction:
S-adenosyl-L-methionine + uridine(1939) in 23S rRNA = 5- methyluridine(1939) in 23S rRNA + H(+) + S-adenosyl-L-homocysteine 2.1.1.190 HAMAP-Rule:MF_01010, PubMed:11779873, PubMed:12907714
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