Conformational Heterogeneity of the HIV Envelope Glycan Shield

Sci Rep. 2017 Jun 30;7(1):4435. doi: 10.1038/s41598-017-04532-9.

Abstract

To better understand the conformational properties of the glycan shield covering the surface of the HIV gp120/gp41 envelope (Env) trimer, and how the glycan shield impacts the accessibility of the underlying protein surface, we performed enhanced sampling molecular dynamics (MD) simulations of a model glycosylated HIV Env protein and related systems. Our simulation studies revealed a conformationally heterogeneous glycan shield with a network of glycan-glycan interactions more extensive than those observed to date. We found that partial preorganization of the glycans potentially favors binding by established broadly neutralizing antibodies; omission of several specific glycans could increase the accessibility of other glycans or regions of the protein surface to antibody or CD4 receptor binding; the number of glycans that can potentially interact with known antibodies is larger than that observed in experimental studies; and specific glycan conformations can maximize or minimize interactions with individual antibodies. More broadly, the enhanced sampling MD simulations described here provide a valuable tool to guide the engineering of specific Env glycoforms for HIV vaccine design.

Publication types

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

MeSH terms

  • CD4 Antigens / chemistry
  • CD4 Antigens / metabolism
  • Epitopes / chemistry
  • Epitopes / immunology
  • Epitopes / metabolism
  • Glycosylation
  • HIV Antibodies / chemistry
  • HIV Antibodies / immunology
  • HIV Antibodies / metabolism
  • HIV Envelope Protein gp120 / chemistry
  • HIV Envelope Protein gp120 / metabolism
  • Humans
  • Molecular Conformation*
  • Molecular Dynamics Simulation*
  • Polysaccharides / chemistry*
  • Protein Binding
  • Structure-Activity Relationship
  • env Gene Products, Human Immunodeficiency Virus / chemistry*
  • env Gene Products, Human Immunodeficiency Virus / immunology
  • env Gene Products, Human Immunodeficiency Virus / metabolism

Substances

  • CD4 Antigens
  • Epitopes
  • HIV Antibodies
  • HIV Envelope Protein gp120
  • Polysaccharides
  • env Gene Products, Human Immunodeficiency Virus