HIV-1 nucleocapsid protein bends double-stranded nucleic acids

J Am Chem Soc. 2009 Oct 28;131(42):15534-43. doi: 10.1021/ja9070046.

Abstract

The human immunodeficiency virus type-1 (HIV-1) nucleocapsid (NC) protein is believed to be unique among the nucleic acid (NA) binding proteins encoded by this retrovirus in being highly multifunctional and relatively nonsequence-specific. Underlying many of NC's putative functions, including for example its chaperon-like activity for various steps of HIV-1 reverse transcription, is NC's ability to partially melt short double-stranded regions of structured NAs, which is essentially a consequence of NC's general binding preference for single-stranded bases. Herein we report a different, previously undiscovered, mode of NC/NA interaction, i.e., NC-induced sharp bending of short segments of fully duplexed DNA/DNA and DNA/RNA. We use single-molecule fluorescence resonance energy transfer (SM-FRET) in vitro to probe NC-induced NA bending and associated heterogeneous conformational dynamics for model NC/NA complexes. NC-induced NA bending may have important biological roles in the previously reported NC-mediated condensation of duplex proviral DNA in the HIV-1 life cycle.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • DNA / chemistry*
  • HIV-1 / chemistry*
  • HIV-1 / genetics
  • Molecular Sequence Data
  • Mutation
  • Nucleocapsid Proteins / chemistry*
  • Nucleocapsid Proteins / genetics

Substances

  • Nucleocapsid Proteins
  • DNA