Probing SARS-CoV-2 membrane binding peptide via single-molecule AFM-based force spectroscopy

Nat Commun. 2025 Jan 2;16(1):6. doi: 10.1038/s41467-024-55358-9.

Abstract

The SARS-CoV-2 spike protein's membrane-binding domain bridges the viral and host cell membrane, a critical step in triggering membrane fusion. Here, we investigate how the SARS-CoV-2 spike protein interacts with host cell membranes, focusing on a membrane-binding peptide (MBP) located near the TMPRSS2 cleavage site. Through in vitro and computational studies, we examine both primed (TMPRSS2-cleaved) and unprimed versions of the MBP, as well as the influence of its conserved disulfide bridge on membrane binding. Our results show that the MBP preferentially associates with cholesterol-rich membranes, and we find that cholesterol depletion significantly reduces viral infectivity. Furthermore, we observe that the disulfide bridge stabilizes the MBP's interaction with the membrane, suggesting a structural role in viral entry. Together, these findings highlight the importance of membrane composition and peptide structure in SARS-CoV-2 infectivity and suggest that targeting the disulfide bridge could provide a therapeutic strategy against infection.

MeSH terms

  • COVID-19 / metabolism
  • COVID-19 / virology
  • Cell Membrane* / metabolism
  • Cholesterol* / chemistry
  • Cholesterol* / metabolism
  • Disulfides / chemistry
  • Disulfides / metabolism
  • Humans
  • Microscopy, Atomic Force* / methods
  • Peptides / chemistry
  • Peptides / metabolism
  • Protein Binding*
  • SARS-CoV-2* / chemistry
  • SARS-CoV-2* / metabolism
  • Serine Endopeptidases / chemistry
  • Serine Endopeptidases / metabolism
  • Single Molecule Imaging / methods
  • Spike Glycoprotein, Coronavirus* / chemistry
  • Spike Glycoprotein, Coronavirus* / metabolism
  • Virus Internalization

Substances

  • Spike Glycoprotein, Coronavirus
  • spike protein, SARS-CoV-2
  • Cholesterol
  • TMPRSS2 protein, human
  • Serine Endopeptidases
  • Disulfides
  • Peptides