› 2w2l

X-ray diffraction
2.5Å resolution

Crystal structure of the holo forms of Rhodotorula graminis D- mandelate dehydrogenase at 2.5A.

Released:
DOI: 10.2210/pdb2w2l/pdb
Model geometry
Fit model/data
PDB entry 2w2l coloured by chain, front view.
PDB entry 2w2l coloured by chain, side view.
PDB entry 2w2l coloured by chain, top view.
Source organism: Rhodotorula graminis
Entry authors: Vachieri SG, Cole AR, Bagneris C, Baker DP, Fewson CA, Basak AK

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-181656 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
D-mandelate dehydrogenase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 348 amino acids
Theoretical weight: 38 KDa
Source organism: Rhodotorula graminis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q7LLW9 (Residues: 1-348; Coverage: 100%)
Gene name: dmdh
Sequence domains:
Structure domains: NAD(P)-binding Rossmann-like Domain
D-mandelate dehydrogenase Chain: D
Molecule details ›
Chain: D
Length: 348 amino acids
Theoretical weight: 38 KDa
Source organism: Rhodotorula graminis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q7LLW9 (Residues: 1-348; Coverage: 100%)
Gene name: dmdh
Sequence domains:
Structure domains: NAD(P)-binding Rossmann-like Domain

Ligands and Environments

2 bound ligands:
Ligand NAD 4 x NAD
Ligand SO4 4 x SO4
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: P21
Unit cell:
a: 100.098Å b: 110.154Å c: 79.836Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.186 0.182 0.265
Expression system: Escherichia coli BL21(DE3)

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