› 3v9t

X-ray diffraction
1.65Å resolution

Crystal structure of the PPARgamma-LBD complexed with a cercosporamide derivative modulator

Released:
DOI: 10.2210/pdb3v9t/pdb
PDB entry 3v9t coloured by chain, front view.
PDB entry 3v9t coloured by chain, side view.
PDB entry 3v9t coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Substituents at the naphthalene C3 position of (-)-Cercosporamide derivatives significantly affect the maximal efficacy as PPARγ partial agonists.
Furukawa A, Arita T, Fukuzaki T, Satoh S, Mori M, Honda T, Matsui Y, Wakabayashi K, Hayashi S, Araki K, Ohsumi J
Bioorg Med Chem Lett 22 1348-51 (2012)
PMID: 22225641

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: 283 amino acids
Theoretical weight: 32.41 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P37231 (Residues: 234-505; Coverage: 54%)
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: C
Molecule details ›
Chain: C
Length: 19 amino acids
Theoretical weight: 2.07 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q9UBK2 (Residues: 136-154; Coverage: 2%)
Gene names: LEM6, PGC1, PGC1A, PPARGC1, PPARGC1A

Ligands and Environments

1 bound ligand:
Ligand 17L 1 x 17L
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E DW
Spacegroup: P21
Unit cell:
a: 38.889Å b: 54.614Å c: 66.797Å
α: 90° β: 92.35° γ: 90°
R-values:
R R work R free
0.204 0.202 0.219
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 citation in other articles

The peroxisomal enzyme L-PBE is required to prevent the dietary toxicity of medium-chain fatty acids.
Ding et al. (2013)
1 more

2 mentions without citation

Review of the Structural and Dynamic Mechanisms of PPARγ Partial Agonism.
Kroker et al. (2015)
1 more