› 1qyb

X-ray diffraction
1.75Å resolution

X-ray crystal structure of Desulfovibrio vulgaris rubrerythrin with zinc substituted into the [Fe(SCys)4] site and alternative diiron site structures

Released:
DOI: 10.2210/pdb1qyb/pdb
PDB entry 1qyb coloured by chain, front view.
PDB entry 1qyb coloured by chain, side view.
PDB entry 1qyb coloured by chain, top view.
Source organism: Desulfovibrio vulgaris str. Hildenborough
Primary publication:
X-ray crystal structure of Desulfovibrio vulgaris rubrerythrin with zinc substituted into the [Fe(SCys)4] site and alternative diiron site structures.
Jin S, Kurtz DM, Liu ZJ, Rose J, Wang BC
Biochemistry 43 3204-13 (2004)
PMID: 15023070

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
homo dimer (preferred)
homo tetramer
Assembly name:
PDBe Complex ID:
PDB-CPX-150311 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Rubrerythrin Chain: A
Molecule details ›
Chain: A
Length: 191 amino acids
Theoretical weight: 21.58 KDa
Source organism: Desulfovibrio vulgaris str. Hildenborough
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P24931 (Residues: 1-191; Coverage: 100%)
Gene names: DVU_3094, rbr
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand FE 2 x FE
Ligand ZN 1 x ZN
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 17-ID
Spacegroup: I222
Unit cell:
a: 48.008Å b: 80.161Å c: 101.029Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.182 0.182 0.213
Expression system: Escherichia coli BL21(DE3)

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Citations

3 review citations

Metalloproteins containing cytochrome, iron-sulfur, or copper redox centers.
Liu et al. (2014)
2 more