Structural and biological mimicry of protein surface recognition by alpha/beta-peptide foldamers

Proc Natl Acad Sci U S A. 2009 Sep 1;106(35):14751-6. doi: 10.1073/pnas.0902663106. Epub 2009 Aug 17.

Abstract

Unnatural oligomers that can mimic protein surfaces offer a potentially useful strategy for blocking biomedically important protein-protein interactions. Here we evaluate an approach based on combining alpha- and beta-amino acid residues in the context of a polypeptide sequence from the HIV protein gp41, which represents an excellent testbed because of the wealth of available structural and biological information. We show that alpha/beta-peptides can mimic structural and functional properties of a critical gp41 subunit. Physical studies in solution, crystallographic data, and results from cell-fusion and virus-infectivity assays collectively indicate that the gp41-mimetic alpha/beta-peptides effectively block HIV-cell fusion via a mechanism comparable to that of gp41-derived alpha-peptides. An optimized alpha/beta-peptide is far less susceptible to proteolytic degradation than is an analogous alpha-peptide. Our findings show how a two-stage design approach, in which sequence-based alpha-->beta replacements are followed by site-specific backbone rigidification, can lead to physical and biological mimicry of a natural biorecognition process.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Amino Acid Sequence
  • Antiviral Agents / chemistry*
  • Antiviral Agents / metabolism
  • Antiviral Agents / pharmacology
  • Circular Dichroism
  • Crystallography, X-Ray
  • HIV Envelope Protein gp41 / chemistry*
  • HIV Envelope Protein gp41 / metabolism
  • HIV-1 / chemistry*
  • HIV-1 / drug effects
  • HIV-1 / metabolism
  • Models, Molecular
  • Molecular Mimicry*
  • Molecular Sequence Data
  • Peptides / chemistry*
  • Peptides / metabolism*
  • Peptides / pharmacology
  • Protein Binding
  • Protein Folding*
  • Protein Structure, Quaternary
  • Protein Structure, Secondary
  • Protein Structure, Tertiary

Substances

  • Antiviral Agents
  • HIV Envelope Protein gp41
  • Peptides
  • gp41 protein, Human immunodeficiency virus 1

Associated data

  • PDB/3F4Y
  • PDB/3F4Z
  • PDB/3F50
  • PDB/3G7A