› 6a3j

X-ray diffraction
1.9Å resolution

Levoglucosan dehydrogenase, complex with NADH and L-sorbose

Released:
DOI: 10.2210/pdb6a3j/pdb
PDB entry 6a3j coloured by chain, front view.
PDB entry 6a3j coloured by chain, side view.
PDB entry 6a3j coloured by chain, top view.
Source organism: Pseudarthrobacter phenanthrenivorans Sphe3
Primary publication:
Identification, functional characterization, and crystal structure determination of bacterial levoglucosan dehydrogenase.
Sugiura M, Nakahara M, Yamada C, Arakawa T, Kitaoka M, Fushinobu S
J Biol Chem 293 17375-17386 (2018)
PMID: 30224354

Function and Biology Details

Reaction catalysed: 
Levoglucosan + NAD(+) = 3-dehydrolevoglucosan + NADH
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123243 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Levoglucosan dehydrogenase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 410 amino acids
Theoretical weight: 44.33 KDa
Source organism: Pseudarthrobacter phenanthrenivorans Sphe3
Expression system: Escherichia coli
UniProt:
  • Canonical: F0M433 (Residues: 1-390; Coverage: 100%)
Gene names: Asphe3_10730, lgdh
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand MES 2 x MES
Ligand SOE 4 x SOE
Ligand NAI 4 x NAI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-1A
Spacegroup: P21
Unit cell:
a: 80.186Å b: 93.448Å c: 100.882Å
α: 90° β: 101.42° γ: 90°
R-values:
R R work R free
0.168 0.166 0.207
Expression system: Escherichia coli

Quick links

Citations

7 citation in other articles

Conversion of levoglucosan into glucose by the coordination of four enzymes through oxidation, elimination, hydration, and reduction.
Kuritani et al. (2020)
6 more

2 mentions without citation

Identification, functional characterization, and crystal structure determination of bacterial levoglucosan dehydrogenase.
Sugiura et al. (2018)
1 more