3NTB

Structure of 6-methylthio naproxen analog bound to mCOX-2.

Structural Biology Knowledgebase: 3NTB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.27 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.231

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3NTB

Classification: OXIDOREDUCTASE

Total Structure Weight: 278819.18

Macromolecule Entities
Molecule Chains Length Organism Details
Prostaglandin-endoperoxide synthase 2 A, B, C, D 587 Mus musculus EC#: 1.14.99.1 IUBMB
Fragment: UNP residues 18-604, catalytic domain
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, B, C, D B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-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
T1N
Query on T1N

A, B, C, D (2S)-2-[6-(methylsulfanyl)naphthalen-2-yl]propanoic acid
C14 H14 O2 S
DZFJDDMBLJXLJL-VIFPVBQESA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
T1N N/A in BindingDB
IC50: 670 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.27 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.231
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 181.20 α = 90.00
b = 134.23 β = 90.00
c = 121.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-03
  • Released Date: 2010-09-01
  • Deposition author(s): Duggan, K.C., Musee, J., Walters, M.J., Harp, J.M., Kiefer, J.R., Oates, J.A., Marnett, L.J.

Revision History

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