› 2gfq

X-ray diffraction
1.75Å resolution

Structure of Protein of Unknown Function PH0006 from Pyrococcus horikoshii

Released:
DOI: 10.2210/pdb2gfq/pdb
PDB entry 2gfq coloured by chain, front view.
PDB entry 2gfq coloured by chain, side view.
PDB entry 2gfq coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Entry authors: Cuff ME, Skarina T, Gorodichtchenskaia E, Edwards A, Savchenko A, Joachimiak A, Midwest Center for Structural Genomics (MCSG)

Function and Biology Details

Reaction catalysed: 
A D-aminoacyl-tRNA + H(2)O = a D-amino acid + tRNA
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129609 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-aminoacyl-tRNA deacylase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 298 amino acids
Theoretical weight: 34.08 KDa
Source organism: Pyrococcus horikoshii OT3
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O57774 (Residues: 1-274; Coverage: 100%)
Gene names: PH0006, dtdA
Sequence domains: D-aminoacyl-tRNA deacylase
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand SO4 17 x SO4
Ligand MG 3 x MG
1 modified residue:
Ligand MSE 27 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P21
Unit cell:
a: 65.021Å b: 67.029Å c: 111.572Å
α: 90° β: 90.09° γ: 90°
R-values:
R R work R free
0.152 0.15 0.179
Expression system: Escherichia coli BL21(DE3)

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