Activity of the human immunodeficiency virus type 1 cell cycle-dependent internal ribosomal entry site is modulated by IRES trans-acting factors

Nucleic Acids Res. 2011 Aug;39(14):6186-200. doi: 10.1093/nar/gkr189. Epub 2011 Apr 10.

Abstract

The 5' leader of the human immunodeficiency virus type 1 (HIV-1) genomic RNA harbors an internal ribosome entry site (IRES) that is functional during the G2/M phase of the cell cycle. Here we show that translation initiation mediated by the HIV-1 IRES requires the participation of trans-acting cellular factors other than the canonical translational machinery. We used 'standard' chemical and enzymatic probes and an 'RNA SHAPE' analysis to model the structure of the HIV-1 5' leader and we show, by means of a footprinting assay, that G2/M extracts provide protections to regions previously identified as crucial for HIV-1 IRES activity. We also assessed the impact of mutations on IRES function. Strikingly, mutations did not significantly affect IRES activity suggesting that the requirement for pre-formed stable secondary or tertiary structure within the HIV-1 IRES may not be as strict as has been described for other viral IRESes. Finally, we used a proteomic approach to identify cellular proteins within the G2/M extracts that interact with the HIV-1 5' leader. Together, data show that HIV-1 IRES-mediated translation initiation is modulated by cellular proteins.

Publication types

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

MeSH terms

  • 5' Untranslated Regions*
  • Base Sequence
  • Cell Cycle / genetics
  • Cytoplasm / metabolism
  • HIV-1 / genetics*
  • HeLa Cells
  • Humans
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Peptide Chain Initiation, Translational*
  • Point Mutation
  • RNA, Viral / chemistry*
  • RNA, Viral / metabolism
  • RNA-Binding Proteins / metabolism*
  • Regulatory Sequences, Ribonucleic Acid*

Substances

  • 5' Untranslated Regions
  • RNA, Viral
  • RNA-Binding Proteins
  • Regulatory Sequences, Ribonucleic Acid