6C57

Crystal structure of mutant human geranylgeranyl pyrophosphate synthase (Y246D) in complex with bisphosphonate inhibitor FV0109


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Unraveling the Prenylation-Cancer Paradox in Multiple Myeloma with Novel Geranylgeranyl Pyrophosphate Synthase (GGPPS) Inhibitors.

Lacbay, C.M.Waller, D.D.Park, J.Gomez Palou, M.Vincent, F.Huang, X.F.Ta, V.Berghuis, A.M.Sebag, M.Tsantrizos, Y.S.

(2018) J. Med. Chem. 61: 6904-6917


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Geranylgeranyl pyrophosphate synthase
A, B
322Homo sapiensMutation(s): 1 
Gene Names: GGPS1
EC: 2.5.1.-
Find proteins for O95749 (Homo sapiens)
Go to Gene View: GGPS1
Go to UniProtKB:  O95749
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FV9
Query on FV9

Download SDF File 
Download CCD File 
B
{[(2-{3-[(4-fluorobenzene-1-carbonyl)amino]phenyl}thieno[2,3-d]pyrimidin-4-yl)amino]methylene}bis(phosphonic acid)
C20 H17 F N4 O7 P2 S
LIRGVHIAOLGZJX-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.198 
  • Space Group: I 4 2 2
Unit Cell:
Length (Å)Angle (°)
a = 185.450α = 90.00
b = 185.450β = 90.00
c = 114.200γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
PHASERphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-09-05
    Type: Initial release