› 2vdv

X-ray diffraction
2.3Å resolution

Structure of trm8, m7G methylation enzyme

Released:
DOI: 10.2210/pdb2vdv/pdb
PDB entry 2vdv coloured by chain, front view.
PDB entry 2vdv coloured by chain, side view.
PDB entry 2vdv coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structure of the yeast tRNA m7G methylation complex.
Leulliot N, Chaillet M, Durand D, Ulryck N, Blondeau K, van Tilbeurgh H
Structure 16 52-61 (2008)
PMID: 18184583

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + guanine(46) in tRNA = S-adenosyl-L-homocysteine + N(7)-methylguanine(46) in tRNA
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-171276 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA (guanine-N(7)-)-methyltransferase Chains: E, F
Molecule details ›
Chains: E, F
Length: 246 amino acids
Theoretical weight: 28.9 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q12009 (Residues: 47-286; Coverage: 84%)
Gene names: D1075, TRM8, YDL201W
Sequence domains: Putative methyltransferase
Structure domains: Vaccinia Virus protein VP39

Ligands and Environments


Cofactor: Ligand SAM 2 x SAM
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: C2
Unit cell:
a: 128.318Å b: 58.686Å c: 94.76Å
α: 90° β: 130.13° γ: 90°
R-values:
R R work R free
0.233 0.233 0.265
Expression system: Escherichia coli

Quick links

Citations

16 review citations

Gene expression regulation mediated through reversible m⁶A RNA methylation.
Fu et al. (2014)
15 more

3 mentions without citation

An integrated suite of fast docking algorithms.
Mashiach et al. (2010)
2 more