4EE0

Crystal structure of hH-PGDS with water displacing inhibitor

Structural Biology Knowledgebase: 4EE0 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.196

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4EE0

Classification: Isomerase / Isomerase inhibitor

Total Structure Weight: 48181.83

Macromolecule Entities
Molecule Chains Length Organism Details
Hematopoietic prostaglandin D synthase A, B 199 Homo sapiens EC#: 5.3.99.2 IUBMB
Gene Name(s): HPGDS Gene View GSTS PGDS PTGDS2

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0O4
Query on 0O4

A, B 4-(isoquinolin-1-yl)-N-[2-(morpholin-4-yl)ethyl]benzamide
C22 H23 N3 O2
JZHDIGBWZULPFR-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GSF
Query on GSF

A, B L-GAMMA-GLUTAMYL-3-SULFINO-L-ALANYLGLYCINE
GLUTATHIONE SULFINATE (Synonym)
C10 H17 N3 O8 S
DMAPAHUEYHXRFI-WDSKDSINSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0O4 IC50: 2.34 nM (100) BindingDB

N/A in BindingMoad
IC50: 2.34 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.196
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 48.61 α = 90.00
b = 77.88 β = 91.39
c = 52.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-03-28
  • Released Date: 2012-07-18
  • Deposition author(s): Day, J.E., Thorarensen, A., Trujillo, J.I.

Revision History

No revisions since initial release