› 3m9v

X-ray diffraction
2.05Å resolution

X-ray Structure of a KijD3 in Complex with dTDP

Released:
DOI: 10.2210/pdb3m9v/pdb
PDB entry 3m9v coloured by chain, front view.
PDB entry 3m9v coloured by chain, side view.
PDB entry 3m9v coloured by chain, top view.
Source organism: Actinomadura kijaniata
Primary publication:
X-ray structure of kijd3, a key enzyme involved in the biosynthesis of D-kijanose.
Bruender NA, Thoden JB, Holden HM
Biochemistry 49 3517-24 (2010)
PMID: 20334431

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-109919 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
FAD-dependent oxidoreductase Chain: A
Molecule details ›
Chain: A
Length: 439 amino acids
Theoretical weight: 46.49 KDa
Source organism: Actinomadura kijaniata
Expression system: Escherichia coli
UniProt:
  • Canonical: B3TMR1 (Residues: 1-437; Coverage: 100%)
Gene name: KijD3
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand TYD 1 x TYD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: I222
Unit cell:
a: 72.948Å b: 82.487Å c: 153.22Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.171 0.168 0.221
Expression system: Escherichia coli

Quick links

Citations

5 review citations

Naturally-occurring nitro compounds.
Parry et al. (2011)
4 more

3 mentions without citation

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