› 3u9q

X-ray diffraction
1.52Å resolution

Ligand binding domain of PPARgamma complexed with Decanoic Acid and PGC-1a peptide

Released:
DOI: 10.2210/pdb3u9q/pdb
PDB entry 3u9q coloured by chain, front view.
PDB entry 3u9q coloured by chain, side view.
PDB entry 3u9q coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Identification and mechanism of 10-carbon fatty acid as modulating ligand of peroxisome proliferator-activated receptors.
Malapaka RRV, Khoo S, Zhang J, Choi JH, Zhou XE, Xu Y, Gong Y, Li J, Yong EL, Chalmers MJ, Chang L, Resau JH, Griffin PR, Chen YE, Xu HE
J Biol Chem 287 183-195 (2012)
PMID: 22039047

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153377 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Peroxisome proliferator-activated receptor gamma Chain: A
Molecule details ›
Chain: A
Length: 269 amino acids
Theoretical weight: 30.7 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P37231 (Residues: 236-504; Coverage: 53%)
Gene names: NR1C3, PPARG
Sequence domains: Ligand-binding domain of nuclear hormone receptor
Structure domains: Retinoid X Receptor
Peroxisome proliferator-activated receptor gamma coactivator 1-alpha Chain: B
Molecule details ›
Chain: B
Length: 9 amino acids
Theoretical weight: 1 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q9UBK2 (Residues: 142-150; Coverage: 1%)
Gene names: LEM6, PGC1, PGC1A, PPARGC1, PPARGC1A

Ligands and Environments

1 bound ligand:
Ligand DKA 1 x DKA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-D
Spacegroup: P21
Unit cell:
a: 43.726Å b: 54.346Å c: 66.809Å
α: 90° β: 107.52° γ: 90°
R-values:
R R work R free
0.221 0.183 0.222
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

14 review citations

Mechanisms of gene regulation by fatty acids.
Georgiadi et al. (2012)
13 more

20 mentions without citation

Short-chain fatty acids stimulate angiopoietin-like 4 synthesis in human colon adenocarcinoma cells by activating peroxisome proliferator-activated receptor γ.
Alex et al. (2013)
19 more