› 3dr4

X-ray diffraction
1.6Å resolution

GDP-perosamine synthase K186A mutant from Caulobacter crescentus with bound sugar ligand

Released:
DOI: 10.2210/pdb3dr4/pdb
PDB entry 3dr4 coloured by chain, front view.
PDB entry 3dr4 coloured by chain, side view.
PDB entry 3dr4 coloured by chain, top view.
Source organism: Caulobacter vibrioides
Primary publication:
Accommodation of GDP-linked sugars in the active site of GDP-perosamine synthase.
Cook PD, Carney AE, Holden HM
Biochemistry 47 10685-93 (2008)
PMID: 18795799

Function and Biology Details

Reaction catalysed: 
GDP-4-amino-4,6-dideoxy-alpha-D-mannose + 2-oxoglutarate = GDP-4-dehydro-6-deoxy-alpha-D-mannose + L-glutamate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-189505 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
GDP-perosamine synthase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 391 amino acids
Theoretical weight: 42.98 KDa
Source organism: Caulobacter vibrioides
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9A9H3 (Residues: 26-371; Coverage: 93%)
Gene names: CC_1012, per
Sequence domains: DegT/DnrJ/EryC1/StrS aminotransferase family
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand G4M 4 x G4M
Ligand EDO 2 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-BM
Spacegroup: P21
Unit cell:
a: 50.099Å b: 151.921Å c: 105.747Å
α: 90° β: 102.09° γ: 90°
R-values:
R R work R free
0.169 0.166 0.238
Expression system: Escherichia coli

Quick links

Citations

5 review citations

The structural biology of enzymes involved in natural product glycosylation.
Singh et al. (2012)
4 more

4 mentions without citation

Giant DNA virus mimivirus encodes pathway for biosynthesis of unusual sugar 4-amino-4,6-dideoxy-D-glucose (Viosamine).
Piacente et al. (2012)
3 more