› 2vgn

X-ray diffraction
2.5Å resolution

Structure of S. cerevisiae Dom34, a translation termination-like factor involved in RNA quality control pathways and interacting with Hbs1 (SelenoMet-labeled protein)

Released:
DOI: 10.2210/pdb2vgn/pdb
PDB entry 2vgn coloured by chain, front view.
PDB entry 2vgn coloured by chain, side view.
PDB entry 2vgn coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Structure of yeast Dom34: a protein related to translation termination factor Erf1 and involved in No-Go decay.
Graille M, Chaillet M, van Tilbeurgh H
J Biol Chem 283 7145-54 (2008)
PMID: 18180287

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152581 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Protein DOM34 Chains: A, B
Molecule details ›
Chains: A, B
Length: 386 amino acids
Theoretical weight: 44.59 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P33309 (Residues: 1-386; Coverage: 100%)
Gene names: DOM34, N2016, YNL001W
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand GOL 2 x GOL
Ligand PO4 1 x PO4
1 modified residue:
Ligand MSE 20 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM30A
Spacegroup: P3121
Unit cell:
a: 75.64Å b: 75.64Å c: 324.51Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.21 0.21 0.251
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

20 review citations

RNA degradation in Saccharomyces cerevisae.
Parker R. (2012)
19 more

1 mention without citation

Structural insights into ribosomal rescue by Dom34 and Hbs1 at near-atomic resolution.
Hilal et al. (2016)