3NTG

Crystal structure of COX-2 with selective compound 23d-(R)

Structural Biology Knowledgebase: 3NTG SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.206

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3NTG

Classification: OXIDOREDUCTASE

Total Structure Weight: 261166.27

Macromolecule Entities
Molecule Chains Length Organism Details
Prostaglandin G/H synthase 2 A, B, C, D 552 Mus musculus EC#: 1.14.99.1 IUBMB
Fragment: mCOX-2 c delta (UNP residues 18 to 604)
Gene Name(s): Ptgs2 Cox-2 Cox2 Pghs-b Tis10

Membrane Protein

Source: inferred by homology | Group: MONOTOPIC MEMBRANE PROTEINS

Subgroup Name: Cyclooxygenases

Protein Name: Cyclooxygenase-2


Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BOG
Query on BOG

A, D B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
Ligand Explorer
 
JSmol
D72
Query on D72

A, B, C, D (2R)-6,8-dichloro-7-(2-methylpropoxy)-2-(trifluoromethyl)- 2H-chromene-3-carboxylic acid
C15 H13 Cl2 F3 O4
FQKMILFVTQADHR-CYBMUJFWSA-N
Ligand Explorer
 
JSmol
HEM
Query on HEM

A, B, C, D PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
JSmol
NAG
Query on NAG

A, B, C, D N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
D72 N/A in BindingDB
IC50: 28 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.206
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 180.27 α = 90.00
b = 134.27 β = 90.00
c = 122.61 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-04
  • Released Date: 2010-10-27
  • Deposition author(s): Wang, J.L., Limburg, D., Graneto, M.J., Carter, J.C., Talley, J.J., Kiefer, J.R.

Revision History

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