8ZFR

Crystal Structure of Human PPARgamma Ligand Binding Domain in Complex with T0070907 and nTZDpa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.73 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.248 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Unanticipated mechanisms of covalent inhibitor and synthetic ligand cobinding to PPAR gamma.

Shang, J.Kojetin, D.J.

(2024) Elife 


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Peroxisome proliferator-activated receptor gamma
A, B
275Homo sapiensMutation(s): 0 
Gene Names: PPARGNR1C3
UniProt & NIH Common Fund Data Resources
Find proteins for P37231 (Homo sapiens)
Explore P37231 
Go to UniProtKB:  P37231
PHAROS:  P37231
GTEx:  ENSG00000132170 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP37231
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NZA (Subject of Investigation/LOI)
Query on NZA

Download Ideal Coordinates CCD File 
D [auth B]5-CHLORO-1-(4-CHLOROBENZYL)-3-(PHENYLTHIO)-1H-INDOLE-2-CARBOXYLIC ACID
C22 H15 Cl2 N O2 S
VUPOTURDKDMIGQ-UHFFFAOYSA-N
EEY (Subject of Investigation/LOI)
Query on EEY

Download Ideal Coordinates CCD File 
C [auth B]2-chloro-5-nitro-N-(pyridin-4-yl)benzamide
C12 H8 Cl N3 O3
FRPJSHKMZHWJBE-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.73 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.248 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.022α = 90
b = 62.161β = 102.14
c = 119.461γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
DIALSdata reduction
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United StatesR01DK124870

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-07
    Type: Initial release