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A computationally designed binding mode flip leads to a novel class of potent tri-vector cyclophilin inhibitors

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http://xlink.rsc.org/?DOI=C8SC03831G
Original languageEnglish
JournalChemical Science
Early online date23 Oct 2018
DOIs
Publication statusE-pub ahead of print - 23 Oct 2018

Abstract

Cyclophilins (Cyps) are a major family of drug targets that are challenging to prosecute with small molecules because the shallow nature and high degree of conservation of the active site across human isoforms offers limited opportunities for potent and selective inhibition. Herein a computational approach based on molecular dynamics simulations and free energy calculations was combined with biophysical assays and X-ray crystallography to explore a flip in the binding mode of a reported urea-based Cyp inhibitor. This approach enabled access to a distal pocket that is poorly conserved among key Cyp isoforms, and led to the discovery of a new family of sub-micromolar cellactive inhibitors that offer unprecedented opportunities for the development of next-generation drug therapies based on Cyp inhibition. The computational approach is applicable to a broad range of organic functional groups and could prove widely enabling in molecular design.

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