3OZ0

PPAR Delta in complex with azppard02

• PDB DOI: https://doi.org/10.2210/pdb3OZ0/pdb

• Classification: TRANSCRIPTION/TRANSCRIPTION REGULATOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-09-24 Released: 2011-01-19 
• Deposition Author(s): Ogg, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.270 
• R-Value Work: 0.215 
• R-Value Observed: 0.220 

Starting Model: experimental

Literature

Discovery of isoindoline and tetrahydroisoquinoline derivatives as potent, selective PPARδ agonists

Luckhurst, C.A., Stein, L.A., Furber, M., Webb, N., Ratcliffe, M.J., Allenby, G., Botterell, S., Tomlinson, W., Martin, B., Walding, A.

(2011) Bioorg Med Chem Lett 21: 492-496

• PubMed: 21094606 
• DOI: https://doi.org/10.1016/j.bmcl.2010.10.117
• Primary Citation of Related Structures:  
  3OZ0


• PubMed Abstract: 
  

  Small molecule isoindoline and tetrahydroisoquinoline derivatives have been identified as selective agonists of human peroxisome proliferator-activated receptor δ (PPARδ. Compound 18 demonstrated efficacy in a biomarker for increased fatty acid oxidation, with upregulation of pyruvate dehydrogenase kinase, isozyme 4 (PDK4) in human primary myotubes.

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Organizational Affiliation: 

Medicinal Chemistry, AstraZeneca R&D Charnwood, Loughborough, Leicestershire LE11 5RH, UK. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 33.17 kDa 
• Atom Count: 2,134 
• Modelled Residue Count: 260 
• Deposited Residue Count: 285 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxisome proliferator-activated receptor delta	A	285	Homo sapiens	Mutation(s): 0  Gene Names: PPARD, NR1C2, PPARB
UniProt & NIH Common Fund Data Resources
Find proteins for Q03181 (Homo sapiens) Explore Q03181  Go to UniProtKB:  Q03181
PHAROS:  Q03181 GTEx:  ENSG00000112033

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
3OZ	B [auth A]	[4-({(1S)-1-[(2,4-dichlorophenyl)carbamoyl]-1,3-dihydro-2H-isoindol-2-yl}methyl)-2-methylphenoxy]acetic acid C25 H22 Cl2 N2 O4 MRCUMHGGUAFXSG-DEOSSOPVSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
3OZ	BindingDB:  3OZ0	EC50: 25 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.270 
• R-Value Work: 0.215 
• R-Value Observed: 0.220 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.258	α = 90
b = 49.134	β = 105.34
c = 58.574	γ = 90

Software Package:

Software Name	Purpose
RemDAq	data collection
MOLREP	phasing
REFMAC	refinement
XDS	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-01-19 
Deposition Author(s): Ogg, D.

Revision History  

• Version 1.0: 2011-01-19
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-02-29
  Changes: Structure summary
• Version 1.3: 2017-11-08
  Changes: Advisory, Refinement description
• Version 1.4: 2023-09-06
  Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description