› 6ktk

X-ray diffraction
1.65Å resolution

Crystal structure of scyllo-inositol dehydrogenase R178A mutant, complexed with NADH and L-glucono-1,5-lactone, from Paracoccus laeviglucosivorans

Released:
DOI: 10.2210/pdb6ktk/pdb
PDB entry 6ktk coloured by chain, front view.
PDB entry 6ktk coloured by chain, side view.
PDB entry 6ktk coloured by chain, top view.
Source organism: Paracoccus laeviglucosivorans
Primary publication:
Single amino acid mutation altered substrate specificity for L-glucose and inositol in scyllo-inositol dehydrogenase isolated from Paracoccus laeviglucosivorans.
Suzuki M, Koubara K, Takenoya M, Fukano K, Ito S, Sasaki Y, Nakamura A, Yajima S
Biosci Biotechnol Biochem 84 734-742 (2020)
PMID: 31842701

Function and Biology Details

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-516595 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 380 amino acids
Theoretical weight: 41.32 KDa
Source organism: Paracoccus laeviglucosivorans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: K7ZP76 (Residues: 1-372; Coverage: 100%)
Gene names: SAMN06265221_102142, lgdA
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand NAI 4 x NAI
Ligand PG4 2 x PG4
Ligand 8S0 4 x 8S0
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P212121
Unit cell:
a: 90.61Å b: 127.56Å c: 137.57Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.16 0.16 0.171
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 mentions without citation

Automated Protein Secondary Structure Assignment from Cα Positions Using Neural Networks.
Saqib et al. (2022)
1 more