1ZW5

X-ray structure of Farnesyl diphosphate synthase protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.172

Literature

Macromolecules
Sequence Display for 1ZW5

Classification: TRANSFERASE

Total Structure Weight: 41361.55

Macromolecule Entities
Molecule Chains Length Organism Details
farnesyl diphosphate synthase A 355 Homo sapiens EC#: 2.5.1.10 IUBMB
Gene Name(s): FDPS Gene View FPS KIAA1293
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ZOL
Query on ZOL

A ZOLEDRONIC ACID
(1-HYDROXY-2-IMIDAZOL-1-YLETHYLIDENE)DIPHOSPHONIC ACID (Synonym)
C5 H10 N2 O7 P2
XRASPMIURGNCCH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IPE
Query on IPE

A 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE
ISOPENTENYL PYROPHOSPHATE (Synonym)
C5 H12 O7 P2
NUHSROFQTUXZQQ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
ZOL IC50: 0.24 - 475.3 nM (99) BindingDB
Ki: 0.07 - 85.9 nM (99) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.172
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 112.25 α = 90.00
b = 112.25 β = 90.00
c = 63.24 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-06-03
  • Released Date: 2005-06-28
  • Deposition author(s): Kavanagh, K.L., Guo, K., Wu, X., Von Delft, F., Arrowsmith, C., Sundstrom, M., Edwards, A., Oppermann, U., Structural Genomics Consortium (SGC)

Revision History

  • 2008-04-30
    Type: Version format compliance
  • 2011-07-13
    Type: Advisory, Derived calculations, Version format compliance
  • 2013-05-22
    Type: Non-polymer description