› 5cqb

X-ray diffraction
2.2Å resolution

Crystal structure of E. coli undecaprenyl pyrophosphate synthase

Released:
DOI: 10.2210/pdb5cqb/pdb
PDB entry 5cqb coloured by chain, front view.
PDB entry 5cqb coloured by chain, side view.
PDB entry 5cqb coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Antagonism screen for inhibitors of bacterial cell wall biogenesis uncovers an inhibitor of undecaprenyl diphosphate synthase.
Farha MA, Czarny TL, Myers CL, Worrall LJ, French S, Conrady DG, Wang Y, Oldfield E, Strynadka NC, Brown ED
Proc Natl Acad Sci U S A 112 11048-53 (2015)
PMID: 26283394

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 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) Chains: A, B
Molecule details ›
Chains: A, B
Length: 252 amino acids
Theoretical weight: 28.35 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P60472 (Residues: 2-253; 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

1 bound ligand:
Ligand PGE 1 x PGE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P212121
Unit cell:
a: 62.981Å b: 68.229Å c: 111.412Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.194 0.192 0.244
Expression system: Escherichia coli

Quick links

Citations

19 review citations

Antibacterial drug discovery in the resistance era.
Brown et al. (2016)
18 more

1 mention without citation

Antagonism screen for inhibitors of bacterial cell wall biogenesis uncovers an inhibitor of undecaprenyl diphosphate synthase.
Farha et al. (2015)