3D5F

Crystal Structure of PPAR-delta complex

  • Classification: TRANSCRIPTION
  • Mutation(s): Yes 

  • Deposited: 2008-05-16 Released: 2008-06-03 
  • Deposition Author(s): Amano, Y.

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.278 
  • R-Value Observed: 0.278 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

PPAR-Delta Activation Contributes to Neuroprotectio Against Thapsigargin-Induced SH-SY5Y Cell Death

Iwashita, A.Mihara, K.Amano, Y.Orita, M.Matsuoka, N.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Peroxisome proliferator-activated receptor deltaAB267N/AMutation(s): 1 
Find proteins for Q03181 (Homo sapiens)
Explore Q03181 
Go to UniProtKB:  Q03181
NIH Common Fund Data Resources
PHAROS  Q03181
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
L41
Query on L41

Download CCD File 
A, B
{4-[3-(4-acetyl-3-hydroxy-2-propylphenoxy)propoxy]phenoxy}acetic acid
C22 H26 O7
HBBVCKCCQCQCTJ-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
L41EC50:  125   nM  BindingDB
L41EC50:  530   nM  BindingDB
L41EC50:  3800   nM  BindingDB
L41Kd:  0.4300000071525574   nM  BindingDB
L41IC50:  13   nM  BindingDB
L41EC50:  20   nM  BindingDB
L41EC50:  39   nM  BindingDB
L41EC50:  640   nM  BindingDB
L41EC50:  21   nM  BindingDB
L41EC50:  650   nM  BindingDB
L41Kd:  76   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.278 
  • R-Value Observed: 0.278 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.456α = 90
b = 92.829β = 98.02
c = 96.454γ = 90
Software Package:
Software NamePurpose
CNSrefinement
PDB_EXTRACTdata extraction
CrystalCleardata reduction
CrystalCleardata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2008-05-16 
  • Released Date: 2008-06-03 
  • Deposition Author(s): Amano, Y.

Revision History 

  • Version 1.0: 2008-06-03
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance