2VCQ

COMPLEX STRUCTURE OF PROSTAGLANDIN D2 SYNTHASE AT 1.95A.

Structural Biology Knowledgebase: 2VCQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.195

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2VCQ

Classification: ISOMERASE

Total Structure Weight: 95346.95

Macromolecule Entities
Molecule Chains Length Organism Details
GLUTATHIONE-REQUIRING PROSTAGLANDIN D SYNTHASE A, B, C, D 199 Homo sapiens EC#: 5.3.99.2 IUBMB
Details: THE PROTEIN CONTAIN A GLUTATHIONE CO-FACTOR.
Gene Name(s): HPGDS Gene View GSTS PGDS PTGDS2

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
D25
Query on D25

A, B, C 3-phenyl-5-(1H-pyrazol-3-yl)isoxazole
C12 H9 N3 O
SRSSTOPJERVMRZ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
GSH
Query on GSH

A, B, C, D GLUTATHIONE
C10 H17 N3 O6 S
RWSXRVCMGQZWBV-WDSKDSINSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
D25 IC50: 920 nM (100) BindingDB

IC50: 920 nM  BindingMOAD
IC50: 920 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.195
  • Space Group: I 41
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 121.72 α = 90.00
b = 121.72 β = 90.00
c = 105.57 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-09-26
  • Released Date: 2008-04-15
  • Deposition author(s): Hohwy, M., Spadola, L., Lundquist, B., Von Wachenfeldt, K., Persdotter, S., Hawtin, P., Dahmen, J., Groth-Clausen, I., Folmer, R.H.A., Edman, K.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4