Probing the Physicochemical Boundaries of Cell Permeability and Oral Bioavailability in Lipophilic Macrocycles Inspired by Natural Products

J Med Chem. 2015 Jun 11;58(11):4581-9. doi: 10.1021/acs.jmedchem.5b00128. Epub 2015 May 20.

Abstract

Cyclic peptide natural products contain a variety of conserved, nonproteinogenic structural elements such as d-amino acids and amide N-methylation. In addition, many cyclic peptides incorporate γ-amino acids and other elements derived from polyketide synthases. We hypothesized that the position and orientation of these extended backbone elements impact the ADME properties of these hybrid molecules, especially their ability to cross cell membranes and avoid metabolic degradation. Here we report the synthesis of cyclic hexapeptide diastereomers containing γ-amino acids (e.g., statines) and systematically investigate their structure-permeability relationships. These compounds were much more water-soluble and, in many cases, were both more membrane permeable and more stable to liver microsomes than a similar non-statine-containing derivative. Permeability correlated well with the extent of intramolecular hydrogen bonding observed in the solution structures determined in the low-dielectric solvent CDCl3, and one compound showed an oral bioavailability of 21% in rat. Thus, the incorporation of γ-amino acids offers a route to increase backbone diversity and improve ADME properties in cyclic peptide scaffolds.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Administration, Oral
  • Animals
  • Biological Availability
  • Biological Products / chemistry
  • Biological Products / pharmacology*
  • Cell Membrane Permeability / drug effects*
  • Chemical Phenomena
  • Hydrogen Bonding
  • Macrocyclic Compounds / administration & dosage
  • Macrocyclic Compounds / chemistry
  • Macrocyclic Compounds / pharmacology*
  • Magnetic Resonance Spectroscopy
  • Male
  • Microsomes, Liver / drug effects*
  • Models, Molecular
  • Molecular Structure
  • Peptides, Cyclic / administration & dosage
  • Peptides, Cyclic / chemistry
  • Peptides, Cyclic / pharmacology*
  • Rats
  • Rats, Wistar
  • Solvents / chemistry*
  • Structure-Activity Relationship

Substances

  • Biological Products
  • Macrocyclic Compounds
  • Peptides, Cyclic
  • Solvents