› 4p0w

X-ray diffraction
2.41Å resolution

Human farnesyl diphosphate synthase in complex with Arenarone and zoledronate

Released:
DOI: 10.2210/pdb4p0w/pdb
PDB entry 4p0w coloured by chain, front view.
PDB entry 4p0w coloured by chain, side view.
PDB entry 4p0w coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Taxodione and arenarone inhibit farnesyl diphosphate synthase by binding to the isopentenyl diphosphate site.
Liu YL, Lindert S, Zhu W, Wang K, McCammon JA, Oldfield E
Proc Natl Acad Sci U S A 111 E2530-9 (2014)
PMID: 24927548

Function and Biology Details

Reactions catalysed: 
Prenyl diphosphate + isopentenyl diphosphate = diphosphate + geranyl diphosphate
Geranyl diphosphate + isopentenyl diphosphate = diphosphate + (2E,6E)-farnesyl diphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-146902 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Farnesyl pyrophosphate synthase Chain: A
Molecule details ›
Chain: A
Length: 348 amino acids
Theoretical weight: 40.03 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P14324 (Residues: 72-419; Coverage: 83%)
Gene names: FDPS, FPS, KIAA1293
Sequence domains: Polyprenyl synthetase
Structure domains: Farnesyl Diphosphate Synthase

Ligands and Environments

3 bound ligands:
Ligand 1XH 1 x 1XH
Ligand ZOL 1 x ZOL
Ligand MG 3 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P41212
Unit cell:
a: 111.239Å b: 111.239Å c: 67.292Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.204 0.289
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Computational methods in drug discovery.
Leelananda et al. (2016)
3 more

2 mentions without citation

Linear ubiquitin chains: enzymes, mechanisms and biology.
Rittinger et al. (2017)
1 more