› 1x06

X-ray diffraction
1.9Å resolution

Crystal structure of undecaprenyl pyrophosphate synthase in complex with Mg, IPP and Fspp

Released:
DOI: 10.2210/pdb1x06/pdb
PDB entry 1x06 coloured by chain, front view.
PDB entry 1x06 coloured by chain, side view.
PDB entry 1x06 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Crystal structures of undecaprenyl pyrophosphate synthase in complex with magnesium, isopentenyl pyrophosphate, and farnesyl thiopyrophosphate: roles of the metal ion and conserved residues in catalysis.
Guo RT, Ko TP, Chen AP, Kuo CJ, Wang AH, Liang PH
J Biol Chem 280 20762-74 (2005)
PMID: 15788389

Function and Biology Details

Reaction catalysed: 
(2E,6E)-farnesyl diphosphate + 8 isopentenyl diphosphate = 8 diphosphate + di-trans,octa-cis-undecaprenyl diphosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158013 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) Chain: A
Molecule details ›
Chain: A
Length: 253 amino acids
Theoretical weight: 28.48 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P60472 (Residues: 1-253; Coverage: 100%)
Gene names: JW0169, b0174, ispU, rth, uppS, yaeS
Sequence domains: Putative undecaprenyl diphosphate synthase
Structure domains: Decaprenyl diphosphate synthase-like

Ligands and Environments

3 bound ligands:
Ligand PO4 1 x PO4
Ligand MG 1 x MG
Ligand FPS 2 x FPS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL17B2
Spacegroup: P3221
Unit cell:
a: 58.122Å b: 58.122Å c: 118.936Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.186 0.182 0.234
Expression system: Escherichia coli BL21

Quick links

Citations

13 review citations

The biosynthesis of peptidoglycan lipid-linked intermediates.
Bouhss et al. (2008)
12 more

15 mentions without citation

Antibacterial drug leads targeting isoprenoid biosynthesis.
Zhu et al. (2013)
14 more