1DDX

CRYSTAL STRUCTURE OF A MIXTURE OF ARACHIDONIC ACID AND PROSTAGLANDIN BOUND TO THE CYCLOOXYGENASE ACTIVE SITE OF COX-2: PROSTAGLANDIN STRUCTURE

Structural Biology Knowledgebase: 1DDX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.324
  • R-Value Work: 0.267

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1DDX

Classification: OXIDOREDUCTASE

Total Structure Weight: 260102.94

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (PROSTAGLANDIN H2 SYNTHASE-2) A, B, C, D 552 Mus musculus EC#: 1.14.99.1 IUBMB
Gene Name(s): Ptgs2 Cox-2 Cox2 Pghs-b Tis10
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: inferred by homology | Group: MONOTOPIC MEMBRANE PROTEINS

Subgroup Name: Cyclooxygenases

Protein Name: Cyclooxygenase-2


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

A, B, C, D 7-[6-(3-HYDROPEROXY-OCT-1-ENYL)-2,3-DIOXA- BICYCLO[2.2.1]HEPT-5-YL]-HEPT-5-ENOIC ACID
PROSTAGLANDIN G2 (Synonym)
C20 H32 O6
SGUKUZOVHSFKPH-YNNPMVKQSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BOG
Query on BOG

A, B, C, D B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A, B, C, D N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.324
  • R-Value Work: 0.267
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 180.24 α = 90.00
b = 134.80 β = 90.00
c = 122.51 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-11
  • Released Date: 2000-05-16
  • Deposition author(s): Kiefer, J.R., Pawlitz, J.L., Moreland, K.T., Stegeman, R.A., Gierse, J.K., Stevens, A.M., Goodwin, D.C., Rowlinson, S.W., Marnett, L.J., Stallings, W.C., Kurumbail, R.G.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4