5JW1

Crystal structure of Celecoxib bound to S121P murine COX-2 mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.822 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.189 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Fatty Acid Binding to the Allosteric Subunit of Cyclooxygenase-2 Relieves a Tonic Inhibition of the Catalytic Subunit.

Dong, L.Yuan, C.Orlando, B.J.Malkowski, M.G.Smith, W.L.

(2016) J.Biol.Chem. 291: 25641-25655

  • DOI: 10.1074/jbc.M116.757310
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Prostaglandin endoperoxide H synthase-2 (PGHS-2), also called cyclooxygenase-2 (COX-2), converts arachidonic acid to PGH <sub>2 </sub> PGHS-2 is a conformational heterodimer composed of allosteric (E <sub>allo </sub>) and catalytic (E <sub>cat </sub> ...

    Prostaglandin endoperoxide H synthase-2 (PGHS-2), also called cyclooxygenase-2 (COX-2), converts arachidonic acid to PGH 2 PGHS-2 is a conformational heterodimer composed of allosteric (E allo ) and catalytic (E cat ) subunits. Fatty acids (FAs) bind to Arg-120 of E allo increasing to different degrees, depending on the FA, the V max of its E cat partner. We report here that movement of helical residues 120-122 and loop residues 123-129 of E allo underlies the allosteric effects of FAs and allosteric COX-2 inhibitors, including naproxen and flurbiprofen. An S121P substitution in both PGHS-2 monomers yields a variant (S121P/S121P PGHS-2) that has 1.7-1.8 times the V max of native PGHS-2 and is relatively insensitive to activation by FAs or inhibition by allosteric inhibitors. The S121P substitution in E allo is primarily responsible for these effects. In X-ray crystal structures, the Cα atoms of helical residues 119-122 of S121P/S121P PGHS-2 are displaced from their normal positions. Additionally, the S121P/S121P PGHS-2 variants in which Pro-127 and Ser-541 are replaced by cysteines spontaneously forms Cys-127 to Cys-541 cross-links between monomers. This is unlike the corresponding native PGHS-2 variant and suggests that S121P substitutions also unhinge the loop involving residues 123-129. We conclude the following: (a) the region involving residues 120-129 of unoccupied E allo tonically inhibits E cat ; (b) binding of an activating FA (e.g. arachidonic, palmitic, or oleic acid) to E allo or an S121P substitution in E allo repositions this region to increase E cat activity; and (c) allosteric COX inhibitors act by preventing FA binding to E allo and additionally by relocating E allo residues to inhibit E cat .


    Organizational Affiliation

    the Department of Structural Biology, University at Buffalo, The State University of New York, and the Hauptman-Woodward Medical Research Institute, Buffalo, New York 14203.,From the Department of Biological Chemistry, University of Michigan Medical School, Ann Arbor, Michigan 48109 and.,From the Department of Biological Chemistry, University of Michigan Medical School, Ann Arbor, Michigan 48109 and smithww@umich.edu.,the Department of Structural Biology, University at Buffalo, The State University of New York, and the Hauptman-Woodward Medical Research Institute, Buffalo, New York 14203 malkowski@hwi.buffalo.edu.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Prostaglandin G/H synthase 2
A, B
552Mus musculusMutation(s): 1 
Gene Names: Ptgs2 (Cox-2, Cox2, Pghs-b, Tis10)
EC: 1.14.99.1
Find proteins for Q05769 (Mus musculus)
Go to UniProtKB:  Q05769
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
COH
Query on COH

Download SDF File 
Download CCD File 
A, B
PROTOPORPHYRIN IX CONTAINING CO
C34 H32 Co N4 O4
AQTFKGDWFRRIHR-CTESUSPADG
 Ligand Interaction
CEL
Query on CEL

Download SDF File 
Download CCD File 
A, B
4-[5-(4-METHYLPHENYL)-3-(TRIFLUOROMETHYL)-1H-PYRAZOL-1-YL]BENZENESULFONAMIDE
CELECOXIB
C17 H14 F3 N3 O2 S
RZEKVGVHFLEQIL-UHFFFAOYSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
BOG
Query on BOG

Download SDF File 
Download CCD File 
A
B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.822 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.189 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 120.362α = 90.00
b = 132.198β = 90.00
c = 180.392γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
HKL-2000data reduction
PHENIXrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-10-26
    Type: Initial release
  • Version 1.1: 2019-09-11
    Type: Data collection, Database references, Derived calculations