› 5zcm

X-ray diffraction
1.7Å resolution

Crystal structure of Xylose reductase from Debaryomyces nepalensis in complex with NADP-DTT adduct

Released:
DOI: 10.2210/pdb5zcm/pdb
PDB entry 5zcm coloured by chain, front view.
PDB entry 5zcm coloured by chain, side view.
PDB entry 5zcm coloured by chain, top view.
Source organism: Debaryomyces nepalensis
Primary publication:
Crystal structure of yeast xylose reductase in complex with a novel NADP-DTT adduct provides insights into substrate recognition and catalysis.
Paidimuddala B, Mohapatra SB, Gummadi SN, Manoj N
FEBS J 285 4445-4464 (2018)
PMID: 30269423

Function and Biology Details

Reaction catalysed: 
Xylitol + NAD(P)(+) = D-xylose + NAD(P)H
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-102519 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-xylose reductase [NAD(P)H] Chain: A
Molecule details ›
Chain: A
Length: 341 amino acids
Theoretical weight: 38.92 KDa
Source organism: Debaryomyces nepalensis
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0M4HL56 (Residues: 1-320; Coverage: 100%)
Gene name: XR
Sequence domains: Aldo/keto reductase family
Structure domains: NADP-dependent oxidoreductase domain

Ligands and Environments


Cofactor: Ligand NDP 1 x NDP
1 bound ligand:
Ligand DTT 1 x DTT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER AXS MICROSTAR
Spacegroup: C2221
Unit cell:
a: 99.59Å b: 108.22Å c: 71.82Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.164 0.162 0.185
Expression system: Escherichia coli

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Citations

2 mentions without citation

Structure-function characterization of an aldo-keto reductase involved in detoxification of the mycotoxin, deoxynivalenol.
Abraham et al. (2022)
1 more