› 5dt9

X-ray diffraction
2.66Å resolution

Crystal structure of a putative D-Erythronate-4-Phosphate Dehydrogenase from Vibrio cholerae

Released:
DOI: 10.2210/pdb5dt9/pdb
PDB entry 5dt9 coloured by chain, front view.
PDB entry 5dt9 coloured by chain, side view.
PDB entry 5dt9 coloured by chain, top view.
Source organism: Vibrio cholerae O1 biovar El Tor str. N16961
Entry authors: Stogios PJ, Skarina T, Savchenko A, Anderson WF, Center for Structural Genomics of Infectious Diseases (CSGID)

Function and Biology Details

Reaction catalysed: 
4-phospho-D-erythronate + NAD(+) = (3R)-3-hydroxy-2-oxo-4-phosphonooxybutanoate + NADH
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192025 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Erythronate-4-phosphate dehydrogenase Chain: A
Molecule details ›
Chain: A
Length: 387 amino acids
Theoretical weight: 42.58 KDa
Source organism: Vibrio cholerae O1 biovar El Tor str. N16961
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9KQ92 (Residues: 1-381; Coverage: 100%)
Gene names: VC_2108, pdxB
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand NAD 1 x NAD
2 bound ligands:
Ligand SO4 10 x SO4
Ligand CL 2 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P43212
Unit cell:
a: 145.775Å b: 145.775Å c: 62.031Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.195 0.193 0.24
Expression system: Escherichia coli BL21(DE3)

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