› 2o1s

X-ray diffraction
2.4Å resolution

1-deoxy-D-xylulose 5-phosphate synthase (DXS) from Escherichia coli

Released:
DOI: 10.2210/pdb2o1s/pdb
PDB entry 2o1s coloured by chain, front view.
PDB entry 2o1s coloured by chain, side view.
PDB entry 2o1s coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Crystal structure of 1-deoxy-D-xylulose 5-phosphate synthase, a crucial enzyme for isoprenoids biosynthesis.
Xiang S, Usunow G, Lange G, Busch M, Tong L
J Biol Chem 282 2676-82 (2007)
PMID: 17135236

Function and Biology Details

Reaction catalysed: 
Pyruvate + D-glyceraldehyde 3-phosphate = 1-deoxy-D-xylulose 5-phosphate + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160172 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
1-deoxy-D-xylulose-5-phosphate synthase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 621 amino acids
Theoretical weight: 68.8 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P77488 (Residues: 1-620; Coverage: 100%)
Gene names: JW0410, b0420, dxs, yajP
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand TPP 2 x TPP
3 bound ligands:
Ligand MG 4 x MG
Ligand K 4 x K
Ligand DPO 2 x DPO
1 modified residue:
Ligand MSE 84 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P21
Unit cell:
a: 86.787Å b: 171.154Å c: 94.799Å
α: 90° β: 107.25° γ: 90°
R-values:
R R work R free
0.191 0.191 0.234
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

16 review citations

Methylerythritol phosphate pathway of isoprenoid biosynthesis.
Zhao et al. (2013)
15 more

16 mentions without citation

The structural and biochemical foundations of thiamin biosynthesis.
Jurgenson et al. (2009)
15 more