UNIT 11.12 RNA Intramolecular Dynamics by Single-Molecule FRET

  1. Martin Hengesbach1,
  2. Andrei Kobitski2,
  3. Felix Voigts-Hoffmann1,
  4. Carina Frauer1,
  5. G. Ulrich Nienhaus2,3,
  6. Mark Helm1

Published Online: 1 SEP 2008

DOI: 10.1002/0471142700.nc1112s34

Current Protocols in Nucleic Acid Chemistry

Current Protocols in Nucleic Acid Chemistry

How to Cite

Hengesbach, M., Kobitski, A., Voigts-Hoffmann, F., Frauer, C., Nienhaus, G. U. and Helm, M. 2008. RNA Intramolecular Dynamics by Single-Molecule FRET. Current Protocols in Nucleic Acid Chemistry. 34:11.12:11.12.1–11.12.22.

Author Information

  1. 1

    Institute of Pharmacy and Molecular Biotechnology, University of Heidelberg, Heidelberg, Germany

  2. 2

    Institute of Biophysics, University of Ulm, Ulm, Germany

  3. 3

    Department of Physics, University of Illinois at Urbana-Champaign, Urbana, Illinois

Publication History

  1. Published Online: 1 SEP 2008
  2. Published Print: SEP 2008


Investigation of single RNA molecules using fluorescence resonance energy transfer (FRET) is a powerful approach to investigate dynamic and thermodynamic aspects of the folding process of a given RNA. Its application requires interdisciplinary work from the fields of chemistry, biochemistry, and physics. The present work gives detailed instructions on the synthesis of RNA molecules labeled with two fluorescent dyes interacting by FRET, as well as on their investigation by single-molecule fluorescence spectroscopy. Curr. Protoc. Nucleic Acid Chem. 34:11.12.1-11.12.22. © 2008 by John Wiley & Sons, Inc.


  • fluorescence resonance energy transfer (FRET);
  • single molecule;
  • splint ligation;
  • dynamics;
  • fluorescent dyes;
  • nucleotide modifications;
  • RNA folding