1IYI

Crystal structure of hematopoietic prostaglandin D synthase

  • Classification: ISOMERASE
  • Deposited: 2002-08-26 Released: 2003-04-08
  • Deposition author(s): Inoue, T.
  • Organism: Homo sapiens
  • Expression System: Escherichia coli
  • Mutation(s): 1

Structural Biology Knowledgebase: 1IYI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.188

Literature

Macromolecules
Sequence Display for 1IYI

Classification: ISOMERASE

Total Structure Weight: 94337.06

Macromolecule Entities
Molecule Chains Length Organism Details
HEMATOPOIETIC PROSTAGLANDIN D SYNTHASE A, B, C, D 198 Homo sapiens EC#: 5.3.99.2 IUBMB
Mutation: N144M
Gene Name(s): HPGDS Gene View GSTS PGDS PTGDS2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D GLUTATHIONE
C10 H17 N3 O6 S
RWSXRVCMGQZWBV-WDSKDSINSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

C, D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.188
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 48.78 α = 90.00
b = 47.26 β = 97.83
c = 183.81 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-08-26
  • Released Date: 2003-04-08
  • Deposition author(s): Inoue, T.

Revision History

  • 2014-04-16
    Type: Experimental method | Details: update crystallization condition
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4