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Related Experiment Videos

Mg2+-induced tRNA folding.

V Serebrov1, R J Clarke, H J Gross

  • 1Engelhardt Institute of Molecular Biology, Moscow 119991, Russia, Max Planck Institute für Biophysik, D-60596 Frankfurt am Main, Germany.

Biochemistry
|June 9, 2001
PubMed
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Magnesium ions (Mg2+) induce yeast transfer RNA (tRNA) folding through distinct binding sites, revealing complex conformational changes and parallel folding pathways with potential for kinetically trapped intermediates.

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Structural Biology

Background:

  • Transfer RNA (tRNA) folding is crucial for its biological functions.
  • Magnesium ions (Mg2+) are known to play a significant role in RNA structure and stability.

Purpose of the Study:

  • To investigate the Mg2+-induced folding of yeast tRNA(Phe) at low ionic strength.
  • To characterize the distinct Mg2+ binding sites and their influence on tRNA conformation.

Main Methods:

  • Steady-state and kinetic experiments using fluorescently labeled yeast tRNA(Phe).
  • Monitoring of conformational transitions and Mg2+ binding over a range of Mg2+ concentrations.
  • Probing with ribonucleases T1 and V1 to assess structural changes.

Main Results:

Related Experiment Videos

  • Four distinct conformational transitions were observed upon increasing Mg2+ concentration, attributed to Mg2+ binding at four types of sites.
  • Two strong Mg2+ binding sites (K(diss) 4 and 16 µM) and two weak sites (K(diss) 2 and 20 mM) were identified.
  • Conformational changes, including enhanced base stacking, were observed at specific Mg2+ concentrations.
  • Both fast and slow kinetic phases of tRNA refolding were detected, suggesting the formation of misfolded intermediates.

Conclusions:

  • Mg2+ binding sites on tRNA can be further subdivided into strong and weak subtypes.
  • Mg2+-induced tRNA folding involves parallel pathways and kinetically trapped intermediates, similar to larger RNAs.
  • A multistep folding scheme for Mg2+-induced tRNA folding is proposed.