› 2r46

X-ray diffraction
2.1Å resolution

Crystal structure of Escherichia coli Glycerol-3-phosphate Dehydrogenase in complex with 2-phosphopyruvic acid.

Released:
DOI: 10.2210/pdb2r46/pdb
PDB entry 2r46 coloured by chain, front view.
PDB entry 2r46 coloured by chain, side view.
PDB entry 2r46 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structure of glycerol-3-phosphate dehydrogenase, an essential monotopic membrane enzyme involved in respiration and metabolism.
Yeh JI, Chinte U, Du S
Proc Natl Acad Sci U S A 105 3280-5 (2008)
PMID: 18296637

Function and Biology Details

Reaction catalysed: 
sn-glycerol 3-phosphate + a quinone = glycerone phosphate + a quinol
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-146441 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Aerobic glycerol-3-phosphate dehydrogenase Chains: A, B
Molecule details ›
Chains: A, B
Length: 501 amino acids
Theoretical weight: 56.83 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P13035 (Residues: 1-501; Coverage: 100%)
Gene names: JW3389, b3426, glpD, glyD
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand FAD 2 x FAD
5 bound ligands:
Ligand BOG 5 x BOG
Ligand EDO 22 x EDO
Ligand T3A 2 x T3A
Ligand PEP 2 x PEP
Ligand IMD 1 x IMD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: I222
Unit cell:
a: 113.823Å b: 113.937Å c: 192.74Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.191 0.23
Expression system: Escherichia coli

Quick links

Citations

11 review citations

The sites and topology of mitochondrial superoxide production.
Brand MD. (2010)
10 more

4 mentions without citation

Structure of glycerol-3-phosphate dehydrogenase, an essential monotopic membrane enzyme involved in respiration and metabolism.
Yeh et al. (2008)
3 more