› 3n4j

X-ray diffraction
1.47Å resolution

Putative RNA methyltransferase from Yersinia pestis

Released:
DOI: 10.2210/pdb3n4j/pdb
PDB entry 3n4j coloured by chain, front view.
PDB entry 3n4j coloured by chain, side view.
PDB entry 3n4j coloured by chain, top view.
Source organism: Yersinia pestis CO92
Entry authors: Osipiuk J, Maltseva N, Peterson S, Anderson WF, Joachimiak A, Center for Structural Genomics of Infectious Diseases (CSGID)

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + 5-carboxymethylaminomethyluridine(34) in tRNA(Leu) = S-adenosyl-L-homocysteine + 5-carboxymethylaminomethyl-2'-O-methyluridine(34) in tRNA(Leu)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-181094 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA (cytidine(34)-2'-O)-methyltransferase Chain: A
Molecule details ›
Chain: A
Length: 165 amino acids
Theoretical weight: 18.53 KDa
Source organism: Yersinia pestis CO92
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q74Y93 (Residues: 1-162; Coverage: 100%)
Gene names: YPO0071, YP_0071, trmL
Sequence domains: SpoU rRNA Methylase family
Structure domains: Alpha/beta knot

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P3121
Unit cell:
a: 79.719Å b: 79.719Å c: 44.638Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.145 0.143 0.186
Expression system: Escherichia coli BL21(DE3)

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