› 4ijr

X-ray diffraction
2Å resolution

Crystal structure of Saccharomyces cerevisiae arabinose dehydrogenase Ara1 complexed with NADPH

Released:
DOI: 10.2210/pdb4ijr/pdb
Model geometry
Fit model/data
PDB entry 4ijr coloured by chain, front view.
PDB entry 4ijr coloured by chain, side view.
PDB entry 4ijr coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Structures of Saccharomyces cerevisiae D-arabinose dehydrogenase Ara1 and its complex with NADPH: implications for cofactor-assisted substrate recognition.
Hu XQ, Guo PC, Ma JD, Li WF
OpenAccess logo Acta Crystallogr Sect F Struct Biol Cryst Commun 69 1190-5 (2013)
PMID: 24192347

Function and Biology Details

Reaction catalysed: 
D-arabinose + NAD(P)(+) = D-arabinono-1,4-lactone + 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-153549 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-arabinose dehydrogenase [NAD(P)+] heavy chain Chains: A, C
Molecule details ›
Chains: A, C
Length: 344 amino acids
Theoretical weight: 38.93 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P38115 (Residues: 1-344; Coverage: 100%)
Gene names: ARA1, YBR1127, YBR149W
Sequence domains: Aldo/keto reductase family
Structure domains: NADP-dependent oxidoreductase domain

Ligands and Environments


Cofactor: Ligand NDP 2 x NDP
No bound ligands
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P21
Unit cell:
a: 54.369Å b: 90.568Å c: 69.823Å
α: 90° β: 90.08° γ: 90°
R-values:
R R work R free
0.208 0.206 0.247
Expression system: Escherichia coli

Quick links

Citations

2 citation in other articles

Comparative proteomic analysis of engineered Saccharomyces cerevisiae with enhanced free fatty acid accumulation.
Chen et al. (2016)
1 more

1 mention without citation

Structures of Saccharomyces cerevisiae D-arabinose dehydrogenase Ara1 and its complex with NADPH: implications for cofactor-assisted substrate recognition.
Hu et al. (2013)

PDB-REDO

The sliders below show the change in model quality between original PDB entry and the PDB-REDO entry

Model Geometry
 
 
Data not available
DNA/RNA Geometry
 
 
Data not available
Fit model/data
 
 
Data not available
PDB-REDO