NMR detection of structures in the HIV-1 5'-leader RNA that regulate genome packaging

Science. 2011 Oct 14;334(6053):242-5. doi: 10.1126/science.1210460.

Abstract

The 5'-leader of the HIV-1 genome regulates multiple functions during viral replication via mechanisms that have yet to be established. We developed a nuclear magnetic resonance approach that enabled direct detection of structural elements within the intact leader (712-nucleotide dimer) that are critical for genome packaging. Residues spanning the gag start codon (AUG) form a hairpin in the monomeric leader and base pair with residues of the unique-5' region (U5) in the dimer. U5:AUG formation promotes dimerization by displacing and exposing a dimer-promoting hairpin and enhances binding by the nucleocapsid (NC) protein, which is the cognate domain of the viral Gag polyprotein that directs packaging. Our findings support a packaging mechanism in which translation, dimerization, NC binding, and packaging are regulated by a common RNA structural switch.

Publication types

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

MeSH terms

  • 5' Untranslated Regions
  • Base Pairing
  • Binding Sites
  • Codon, Initiator
  • Dimerization
  • Genes, gag
  • Genome, Viral*
  • HIV-1 / genetics*
  • HIV-1 / physiology*
  • Human Immunodeficiency Virus Proteins / metabolism
  • Mutagenesis, Site-Directed
  • Nuclear Magnetic Resonance, Biomolecular
  • Nucleic Acid Conformation
  • Nucleocapsid Proteins / metabolism
  • Protein Binding
  • Protein Biosynthesis
  • RNA, Viral / chemistry*
  • RNA, Viral / genetics*
  • Virus Assembly*
  • gag Gene Products, Human Immunodeficiency Virus / metabolism

Substances

  • 5' Untranslated Regions
  • Codon, Initiator
  • Human Immunodeficiency Virus Proteins
  • Nucleocapsid Proteins
  • RNA, Viral
  • gag Gene Products, Human Immunodeficiency Virus