6AN1 image
Deposition Date 2017-08-11
Release Date 2018-02-14
Last Version Date 2024-03-13
Entry Detail
PDB ID:
6AN1
Keywords:
Title:
Crystal structure of the complex between PPARgamma LBD and the ligand AM-879
Biological Source:
Source Organism(s):
Homo sapiens (Taxon ID: 9606)
Expression System(s):
Method Details:
Experimental Method:
Resolution:
2.69 Å
R-Value Free:
0.27
R-Value Work:
0.21
R-Value Observed:
0.22
Space Group:
C 1 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Peroxisome proliferator-activ
Gene (Uniprot):PPARG
Chain IDs:A, B
Chain Length:286
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Screening for PPAR Non-Agonist Ligands Followed by Characterization of a Hit, AM-879, with Additional No-Adipogenic and cdk5-Mediated Phosphorylation Inhibition Properties.
Front Endocrinol (Lausanne) 9 11 11 (2018)
PMID: 29449830 DOI: 10.3389/fendo.2018.00011

Abstact

Peroxisome proliferator-activated receptor gamma (PPARgamma) is a member of a nuclear receptor superfamily and acts as a ligand-dependent transcription factor, playing key roles in maintenance of adipose tissue and in regulation of glucose and lipid homeostasis. This receptor is the target of thiazolidinediones, a class of antidiabetic drugs, which improve insulin sensitization and regulate glycemia in type 2 diabetes. Despite the beneficial effects of drugs, such as rosiglitazone and pioglitazone, their use is associated with several side effects, including weight gain, heart failure, and liver disease, since these drugs induce full activation of the receptor. By contrast, a promising activation-independent mechanism that involves the inhibition of cyclin-dependent kinase 5 (CDK5)-mediated PPARgamma phosphorylation has been related to the insulin-sensitizing effects induced by these drugs. Thus, we aimed to identify novel PPARgamma ligands that do not possess agonist properties by conducting a mini-trial with 80 compounds using the sequential steps of thermal shift assay, 8-anilino-1-naphthalenesulfonic acid fluorescence quenching, and a cell-based transactivation assay. We identified two non-agonist PPARgamma ligands, AM-879 and P11, and one partial-agonist, R32. Using fluorescence anisotropy, we show that AM-879 does not dissociate the NCOR corepressor in vitro, and it has only a small effect on TRAP coactivator recruitment. In cells, AM-879 could not induce adipocyte differentiation or positively regulate the expression of genes associated with adipogenesis. In addition, AM-879 inhibited CDK5-mediated phosphorylation of PPARgamma in vitro. Taken together, these findings supported an interaction between AM-879 and PPARgamma; this interaction was identified by the analysis of the crystal structure of the PPARgamma:AM-879 complex and evidenced by AM-879's mechanism of action as a putative PPARgamma non-agonist with antidiabetic properties. Moreover, we present an optimized assay pipeline capable of detecting ligands that physically bind to PPARgamma but do not cause its activation as a new strategy to identify ligands for this nuclear receptor.

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