› 1r9d

X-ray diffraction
1.8Å resolution

Glycerol bound form of the B12-independent glycerol dehydratase from Clostridium butyricum

Released:
DOI: 10.2210/pdb1r9d/pdb
PDB entry 1r9d coloured by chain, front view.
PDB entry 1r9d coloured by chain, side view.
PDB entry 1r9d coloured by chain, top view.
Source organism: Clostridium butyricum
Primary publication:
Insight into the mechanism of the B12-independent glycerol dehydratase from Clostridium butyricum: preliminary biochemical and structural characterization.
O'Brien JR, Raynaud C, Croux C, Girbal L, Soucaille P, Lanzilotta WN
Biochemistry 43 4635-45 (2004)
PMID: 15096031

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-184502 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycerol dehydratase Chains: A, B
Molecule details ›
Chains: A, B
Length: 787 amino acids
Theoretical weight: 88.15 KDa
Source organism: Clostridium butyricum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8GEZ8 (Residues: 1-787; Coverage: 100%)
Gene name: dhaB1
Sequence domains:
Structure domains: Anaerobic Ribonucleotide-triphosphate Reductase Large Chain

Ligands and Environments

1 bound ligand:
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: C2221
Unit cell:
a: 103.092Å b: 213.42Å c: 199.596Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.217 0.217 0.238
Expression system: Escherichia coli

Quick links

Citations

22 review citations

Radical S-adenosylmethionine enzymes.
Broderick et al. (2014)
21 more

11 mentions without citation

Glycyl radical activating enzymes: structure, mechanism, and substrate interactions.
Shisler et al. (2014)
10 more