Dynamic refolding of IFN-gamma mRNA enables it to function as PKR activator and translation template

Nat Chem Biol. 2009 Dec;5(12):896-903. doi: 10.1038/nchembio.234. Epub 2009 Oct 4.

Abstract

Interferon-gamma mRNA activates the RNA-dependent protein kinase PKR, which in turn strongly attenuates translation of interferon-gamma mRNA. Unlike riboswitches restricted to noncoding regions, the interferon-gamma RNA domain that activates PKR comprises the 5' UTR and 26 translated codons. Extensive interferon-gamma coding sequence is thus dedicated to activating PKR and blocking interferon-gamma synthesis. This implies that the PKR activator is disrupted by ribosomes during translation initiation and must refold promptly to restore PKR activation. The activator structure harbors an essential kink-turn, probably to allow formation of a pseudoknot that is critical for PKR activation. Three indispensable short helices, bordered by orientation-sensitive base pairs, align with the pseudoknot stem, generating RNA helix of sufficient length to activate PKR. Through gain-of-function mutations, we show that the RNA activator can adopt alternative conformations that activate PKR. This flexibility promotes efficient refolding of interferon-gamma mRNA, which is necessary for its dual function as translation template and activator of PKR, and which thus prevents overexpression of this inflammatory cytokine.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • 5' Untranslated Regions
  • Animals
  • Base Sequence
  • Enzyme Activation
  • Humans
  • Interferon-gamma / biosynthesis
  • Interferon-gamma / genetics
  • Interferon-gamma / metabolism*
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Protein Biosynthesis*
  • Protein Folding
  • RNA, Messenger / genetics
  • RNA, Messenger / metabolism*
  • Templates, Genetic*
  • eIF-2 Kinase / genetics
  • eIF-2 Kinase / metabolism*

Substances

  • 5' Untranslated Regions
  • RNA, Messenger
  • Interferon-gamma
  • eIF-2 Kinase