› 1x0x

X-ray diffraction
2.75Å resolution

Co-Structure of Homo Sapiens Glycerol-3-Phosphate Dehydrogenase 1 complex with NAD

Released:
DOI: 10.2210/pdb1x0x/pdb
PDB entry 1x0x coloured by chain, front view.
PDB entry 1x0x coloured by chain, side view.
PDB entry 1x0x coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structures of human glycerol 3-phosphate dehydrogenase 1 (GPD1).
Ou X, Ji C, Han X, Zhao X, Li X, Mao Y, Wong LL, Bartlam M, Rao Z
J Mol Biol 357 858-69 (2006)
PMID: 16460752

Function and Biology Details

Reaction catalysed: 
sn-glycerol 3-phosphate + NAD(+) = glycerone phosphate + NADH
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-149367 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycerol-3-phosphate dehydrogenase [NAD(+)], cytoplasmic Chain: A
Molecule details ›
Chain: A
Length: 354 amino acids
Theoretical weight: 38.02 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P21695 (Residues: 1-349; Coverage: 100%)
Gene name: GPD1
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand NAD 1 x NAD
1 bound ligand:
Ligand SO4 5 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: I4122
Unit cell:
a: 116.599Å b: 116.599Å c: 153.742Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.178 0.239
Expression system: Escherichia coli

Quick links

Citations

8 review citations

A role for flexible loops in enzyme catalysis.
Malabanan et al. (2010)
7 more

2 mentions without citation

Human Glycerol 3-Phosphate Dehydrogenase: X-ray Crystal Structures That Guide the Interpretation of Mutagenesis Studies.
Mydy et al. (2019)
1 more