› 1pt7

X-ray diffraction
1.8Å resolution

Crystal structure of the apo-form of the yfdW gene product of E. coli

Released:
DOI: 10.2210/pdb1pt7/pdb
PDB entry 1pt7 coloured by chain, front view.
PDB entry 1pt7 coloured by chain, side view.
PDB entry 1pt7 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
The crystal structure of the Escherichia coli YfdW gene product reveals a new fold of two interlaced rings identifying a wide family of CoA transferases.
Gruez A, Roig-Zamboni V, Valencia C, Campanacci V, Cambillau C
J Biol Chem 278 34582-6 (2003)
PMID: 12844490

Function and Biology Details

Reaction catalysed: 
Formyl-CoA + oxalate = formate + oxalyl-CoA
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-159681 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Formyl-CoA:oxalate CoA-transferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 437 amino acids
Theoretical weight: 48.41 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P69902 (Residues: 1-416; Coverage: 100%)
Gene names: JW2371, b2374, frc, yfdW
Sequence domains: CoA-transferase family III
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand PO4 8 x PO4
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: P212121
Unit cell:
a: 60.921Å b: 118.634Å c: 136.305Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.16 0.159 0.191
Expression system: Escherichia coli

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Citations

3 review citations

The enzymes of oxalate metabolism: unexpected structures and mechanisms.
Svedruzić et al. (2005)
2 more

1 mention without citation

Function and X-ray crystal structure of Escherichia coli YfdE.
Mullins et al. (2013)