› 2zyf

X-ray diffraction
2.15Å resolution

Crystal structure of homocitrate synthase from Thermus thermophilus complexed with magnesuim ion and alpha-ketoglutarate

Released:
DOI: 10.2210/pdb2zyf/pdb
PDB entry 2zyf coloured by chain, front view.
PDB entry 2zyf coloured by chain, side view.
PDB entry 2zyf coloured by chain, top view.
Source organism: Thermus thermophilus HB27
Primary publication:
Mechanism of substrate recognition and insight into feedback inhibition of homocitrate synthase from Thermus thermophilus.
Okada T, Tomita T, Wulandari AP, Kuzuyama T, Nishiyama M
J Biol Chem 285 4195-4205 (2010)
PMID: 19996101

Function and Biology Details

Reaction catalysed: 
Acetyl-CoA + H(2)O + 2-oxoglutarate = (R)-2-hydroxybutane-1,2,4-tricarboxylate + CoA
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131492 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Homocitrate synthase Chain: A
Molecule details ›
Chain: A
Length: 382 amino acids
Theoretical weight: 43.07 KDa
Source organism: Thermus thermophilus HB27
Expression system: Escherichia coli
UniProt:
  • Canonical: O87198 (Residues: 1-376; Coverage: 100%)
Gene names: TT_C1550, lys20
Sequence domains: HMGL-like
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand AKG 1 x AKG
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P6322
Unit cell:
a: 135.465Å b: 135.465Å c: 126.612Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.205 0.203 0.232
Expression system: Escherichia coli

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Citations

3 review citations

The Spectroscopy of Nitrogenases.
Van Stappen et al. (2020)
2 more

3 mentions without citation

Insight into de-regulation of amino acid feedback inhibition: a focus on structure analysis method.
Naz et al. (2023)
2 more