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Updated: Jul 11, 2026

Practical Aspects of Sample Preparation and Setup of 1H R1&#961; Relaxation Dispersion Experiments of RNA
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Time-resolved NMR methods resolving ligand-induced RNA folding at atomic resolution.

Janina Buck1, Boris Fürtig, Jonas Noeske

  • 1Institute for Organic Chemistry and Chemical Biology, Center for Biomolecular Magnetic Resonance, Johann Wolfgang Goethe-University, Max von Laue-Strasse 7, 60438 Frankfurt am Main, Germany.

Proceedings of the National Academy of Sciences of the United States of America
|September 27, 2007
PubMed
Summary

This study reveals RNA structural dynamics using time-resolved NMR, detailing the hypoxanthine-induced folding of a specific riboswitch. The findings offer atomic-level insights into RNA conformational transitions and gene regulation.

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Area of Science:

  • Molecular Biology
  • Biophysics
  • Structural Biology

Background:

  • RNA structural transitions are crucial for cellular functions.
  • Monitoring these dynamics at atomic resolution is challenging.
  • Riboswitches regulate gene expression via ligand-induced structural changes.

Purpose of the Study:

  • To monitor RNA conformational transitions at atomic resolution.
  • To investigate the hypoxanthine-induced folding of a guanine-sensing riboswitch.
  • To elucidate the kinetics and mechanisms of RNA structural dynamics.

Main Methods:

  • Time-resolved Nuclear Magnetic Resonance (NMR) spectroscopy.
  • Laser-triggered release of photocaged ligands.
  • Selective isotope labeling and NMR filter techniques.
  • NMR-restrained molecular dynamics simulations.

Main Results:

  • Atomic-resolution kinetic analysis of RNA folding in real time.
  • Identification of three distinct kinetic steps in ligand-induced folding.
  • Characterization of ligand-binding pocket formation and remote loop-loop interaction stabilization.
  • Insight into RNA structural ensembles during conformational transitions.

Conclusions:

  • The study establishes a novel time-resolved NMR strategy for monitoring RNA dynamics.
  • Detailed kinetic and structural insights into riboswitch folding were obtained.
  • The findings advance understanding of RNA conformational transitions and their cellular roles.