› 1zq1

X-ray diffraction
3Å resolution

Structure of GatDE tRNA-Dependent Amidotransferase from Pyrococcus abyssi

Released:
DOI: 10.2210/pdb1zq1/pdb
PDB entry 1zq1 coloured by chain, front view.
PDB entry 1zq1 coloured by chain, side view.
PDB entry 1zq1 coloured by chain, top view.
Source organism: Pyrococcus abyssi
Primary publication:
Structural basis for tRNA-dependent amidotransferase function.
Schmitt E, Panvert M, Blanquet S, Mechulam Y
Structure 13 1421-33 (2005)
PMID: 16216574

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-194156 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Glutamyl-tRNA(Gln) amidotransferase subunit D Chains: A, B
Molecule details ›
Chains: A, B
Length: 438 amino acids
Theoretical weight: 49.64 KDa
Source organism: Pyrococcus abyssi
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9V0T9 (Residues: 1-438; Coverage: 100%)
Gene names: PAB1901, PYRAB07000, gatD
Sequence domains:
Structure domains:
Glutamyl-tRNA(Gln) amidotransferase subunit E Chains: C, D
Molecule details ›
Chains: C, D
Length: 633 amino acids
Theoretical weight: 71.99 KDa
Source organism: Pyrococcus abyssi
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9V0U0 (Residues: 1-633; Coverage: 100%)
Gene names: PAB1902, PYRAB06990, gatE
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand ASP 2 x ASP
1 modified residue:
Ligand MSE 30 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P21
Unit cell:
a: 102.7Å b: 138.2Å c: 134.4Å
α: 90° β: 109.6° γ: 90°
R-values:
R R work R free
0.217 0.217 0.256
Expression system: Escherichia coli

Quick links

Citations

4 review citations

From one amino acid to another: tRNA-dependent amino acid biosynthesis.
Sheppard et al. (2008)
3 more

2 mentions without citation

Crystal structure of Saccharomyces cerevisiae mitochondrial GatFAB reveals a novel subunit assembly in tRNA-dependent amidotransferases.
Araiso et al. (2014)
1 more