› 3wsi

X-ray diffraction
2.3Å resolution

EDTA-treated, reduced HcgD from Methanocaldococcus jannaschii

Released:
DOI: 10.2210/pdb3wsi/pdb
PDB entry 3wsi coloured by chain, front view.
PDB entry 3wsi coloured by chain, side view.
PDB entry 3wsi coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii DSM 2661
Primary publication:
A possible iron delivery function of the dinuclear iron center of HcgD in [Fe]-hydrogenase cofactor biosynthesis.
Fujishiro T, Ermler U, Shima S
FEBS Lett 588 2789-93 (2014)
PMID: 24931373

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-164230 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Putative GTP cyclohydrolase 1 type 2 Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 252 amino acids
Theoretical weight: 28.25 KDa
Source organism: Methanocaldococcus jannaschii DSM 2661
Expression system: Escherichia coli
Structure domains: NIF3 (NGG1p interacting factor 3)-like

Ligands and Environments

2 bound ligands:
Ligand FE2 6 x FE2
Ligand PO4 6 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P21212
Unit cell:
a: 95.21Å b: 135.83Å c: 161.46Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.181 0.179 0.22
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Radical S-adenosyl-L-methionine chemistry in the synthesis of hydrogenase and nitrogenase metal cofactors.
Byer et al. (2015)
1 more

1 mention without citation

Comparative Genomic Analysis of the DUF34 Protein Family Suggests Role as a Metal Ion Chaperone or Insertase.
Reed et al. (2021)