1JDJ

CRYSTAL STRUCTURE OF LEISHMANIA MEXICANA GLYCEROL-3-PHOSPHATE DEHYDROGENASE IN COMPLEX WITH 2-FLUORO-6-CHLOROPURINE

Structural Biology Knowledgebase: 1JDJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.208

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1JDJ

Classification: OXIDOREDUCTASE

Total Structure Weight: 39703.11

Macromolecule Entities
Molecule Chains Length Organism Details
GLYCEROL-3-PHOSPHATE DEHYDROGENASE A 366 Leishmania mexicana EC#: 1.1.1.8 IUBMB
Gene Name(s): GPD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A PENTADECANE
C15 H32
YCOZIPAWZNQLMR-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CFP
Query on CFP

A 6-CHLORO-2-FLUOROPURINE
C5 H2 Cl F N4
UNRIYCIDCQDGQE-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
CFP N/A in BindingDB
N/A in BindingMoad
IC50: 5000000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.208
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 70.30 α = 90.00
b = 70.30 β = 90.00
c = 210.90 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-06-14
  • Released Date: 2002-06-14
  • Deposition author(s): Suresh, S., Wisedchaisri, G., Kennedy, K.J., Verlinde, C.L.M.J., Gelb, M.H., Hol, W.G.J.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4