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Research Journal of Computer-Aided Molecular Design - 25/06/2011 Structural insights for the design of new PPARgamma partial agonists with high binding affinity and low transactivation activity.

Laura Guasch, Esther Sala, Cristina Valls, Mayte Blay, Miquel Mulero, Lluís Arola, Gerard Pujadas and Santiago Garcia-Vallvé

Abstract

Peroxisome Proliferator-Activated Receptor ? (PPAR?) full agonists are molecules with powerful insulin-sensitizing action that are used as antidiabetic drugs. Unfortunately, these compounds also present various side effects. Recent results suggest that effective PPAR? agonists should show a low transactivation activity but a high binding affinity to inhibit phosphorylation at Ser273. We use several structure activity relationship studies of synthetic PPAR? agonists to explore the different binding features of full and partial PPAR? agonists with the aim of differentiating the features needed for binding and those needed for the transactivation activity of PPAR?. Our results suggest that effective partial agonists should have a hydrophobic moiety and an acceptor site with an appropriate conformation to interact with arm II and establish a hydrogen bond with Ser342 or an equivalent residue at arm III. Despite the fact that interactions with arm I increase the binding affinity, this region should be avoided in order to not increase the transactivation activity of potential PPAR? partial agonists.

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