› 2zxh

X-ray diffraction
3.2Å resolution

Structure of Aquifex aeolicus GidA in the form I crystal

Released:
DOI: 10.2210/pdb2zxh/pdb
PDB entry 2zxh coloured by chain, front view.
PDB entry 2zxh coloured by chain, side view.
PDB entry 2zxh coloured by chain, top view.
Source organism: Aquifex aeolicus
Primary publication:
Conserved cysteine residues of GidA are essential for biogenesis of 5-carboxymethylaminomethyluridine at tRNA anticodon.
Osawa T, Ito K, Inanaga H, Nureki O, Tomita K, Numata T
Structure 17 713-24 (2009)
PMID: 19446527

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-130405 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA uridine 5-carboxymethylaminomethyl modification enzyme MnmG Chains: A, B
Molecule details ›
Chains: A, B
Length: 637 amino acids
Theoretical weight: 71.82 KDa
Source organism: Aquifex aeolicus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O66962 (Residues: 1-617; Coverage: 100%)
Gene names: aq_761, gidA, mnmG
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand FAD 2 x FAD
Ligand PO4 3 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: I212121
Unit cell:
a: 101.638Å b: 213.272Å c: 231.737Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.242 0.242 0.271
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

11 review citations

Human mitochondrial tRNAs: biogenesis, function, structural aspects, and diseases.
Suzuki et al. (2011)
10 more

2 mentions without citation

Can I solve my structure by SAD phasing? Anomalous signal in SAD phasing.
Terwilliger et al. (2016)
1 more