3N8Y

Structure of Aspirin Acetylated Cyclooxygenase-1 in Complex with Diclofenac

  • Classification: OXIDOREDUCTASE
  • Deposited: 2010-05-28 Released: 2010-07-28
  • Deposition author(s): Sidhu, R.S.
  • Organism: Ovis aries
  • Expression System: Spodoptera frugiperda, Spodoptera frugiperda
  • Mutation(s): 3

Structural Biology Knowledgebase: 3N8Y SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.184

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3N8Y

Classification: OXIDOREDUCTASE

Total Structure Weight: 134205.81

Macromolecule Entities
Molecule Chains Length Organism Details
Prostaglandin G/H synthase 1 A 553 Ovis aries EC#: 1.14.99.1 IUBMB
Mutation: M92L
Gene Name(s): PTGS1 Gene View COX1
Prostaglandin G/H synthase 1 B 553 Ovis aries EC#: 1.14.99.1 IUBMB
Mutation: M92L, S530X
Gene Name(s): PTGS1 Gene View COX1

Membrane Protein

Source: mpstruc | Group: MONOTOPIC MEMBRANE PROTEINS

Subgroup Name: Cyclooxygenases

Protein Name: Ram Prostaglandin H2 synthase-1 (cyclooxygenase-1 or COX-1)


Small Molecules
Ligands 8 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HEM
Query on HEM

A, B PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DIF
Query on DIF

A, B 2-[2,6-DICHLOROPHENYL)AMINO]BENZENEACETIC ACID
DICLOFENAC (Synonym)
C14 H11 Cl2 N O2
DCOPUUMXTXDBNB-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BOG
Query on BOG

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

A, B 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

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

A, B BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SAL
Query on SAL

B 2-HYDROXYBENZOIC ACID
SALICYLIC ACID (Synonym)
C7 H6 O3
YGSDEFSMJLZEOE-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DIF IC50: 3 - 6250 nM (93 - 99) BindingDB

N/A in BindingMoad
N/A in PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
OAS
Query on OAS
B L-PEPTIDE LINKING C5 H9 N O4 SER

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.184
  • Space Group: P 65
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 182.33 α = 90.00
b = 182.33 β = 90.00
c = 103.11 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-05-28
  • Released Date: 2010-07-28
  • Deposition author(s): Sidhu, R.S.

Revision History

  • 2013-09-18
    Type: Refinement description | Details: Correct TLS as possible
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4