4OJ4 | pdb_00004oj4

Crystal structure of V290M PPARgamma mutant in complex with diclofenac

• PDB DOI: https://doi.org/10.2210/pdb4OJ4/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2014-01-20 Released: 2015-02-04 
• Deposition Author(s): Puhl, A.C., Webb, P., Polikarpov, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.284 (Depositor), 0.303 (DCC) 
• R-Value Work: 
  0.219 (Depositor), 0.234 (DCC) 
• R-Value Observed: 
  0.222 (Depositor) 

Literature

Crystal structure of a PPAR ligand-resistance syndrome mutant

Puhl, A.C., Bernardes, A., Polikarpov, I., Webb, P.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 32.14 kDa 
• Atom Count: 2,105 
• Modeled Residue Count: 260 
• Deposited Residue Count: 278 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxisome proliferator-activated receptor gamma	A	278	Homo sapiens	Mutation(s): 1  Gene Names: PPARG, NR1C3
UniProt & NIH Common Fund Data Resources
Find proteins for P37231 (Homo sapiens) Explore P37231  Go to UniProtKB:  P37231
PHAROS:  P37231 GTEx:  ENSG00000132170

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DIF	B [auth A]	2-[2,6-DICHLOROPHENYL)AMINO]BENZENEACETIC ACID C14 H11 Cl2 N O2 DCOPUUMXTXDBNB-UHFFFAOYSA-N
CA	C [auth A], D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.284 (Depositor), 0.303 (DCC) 
• R-Value Work:  0.219 (Depositor), 0.234 (DCC) 
• R-Value Observed: 0.222 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.04	α = 90
b = 60.04	β = 90
c = 161.19	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-02-04 
Deposition Author(s): Puhl, A.C., Webb, P., Polikarpov, I.

Revision History  

• Version 1.0: 2015-02-04
  Type: Initial release
  
• Version 1.1: 2019-07-17
  Changes: Data collection, Refinement description
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations