Real-time multidimensional NMR follows RNA folding with second resolution
Open Access
- 3 May 2010
- journal article
- research article
- Published by Proceedings of the National Academy of Sciences in Proceedings of the National Academy of Sciences of the United States of America
- Vol. 107 (20), 9192-9197
- https://doi.org/10.1073/pnas.1001195107
Abstract
Conformational transitions and structural rearrangements are central to the function of many RNAs yet remain poorly understood. We have used ultrafast multidimensional NMR techniques to monitor the adenine-induced folding of an adenine-sensing riboswitch in real time, with nucleotide-resolved resolution. By following changes in 2D spectra at rates of approximately 0.5 Hz, we identify distinct steps associated with the ligand-induced folding of the riboswitch. Following recognition of the ligand, long range loop-loop interactions form and are then progressively stabilized before the formation of a fully stable complex over approximately 2–3 minutes. The application of these ultrafast multidimensional NMR methods provides the opportunity to determine the structure of RNA folding intermediates and conformational trajectories.This publication has 26 references indexed in Scilit:
- Direct Observation of Hierarchical Folding in Single Riboswitch AptamersScience, 2008
- Time-resolved NMR methods resolving ligand-induced RNA folding at atomic resolutionProceedings of the National Academy of Sciences of the United States of America, 2007
- Metal-ion binding and metal-ion induced folding of the adenine-sensing riboswitch aptamer domainNucleic Acids Research, 2007
- Ligand‐Induced Folding of the Adenosine Deaminase A‐Riboswitch and Implications on Riboswitch Translational ControlChemBioChem, 2007
- Folding of the Adenine RiboswitchCell Chemical Biology, 2006
- Thermodynamic and Kinetic Characterization of Ligand Binding to the Purine Riboswitch Aptamer DomainJournal of Molecular Biology, 2006
- The Kinetics of Ligand Binding by an Adenine-Sensing RiboswitchBiochemistry, 2005
- The Speed of RNA Transcription and Metabolite Binding Kinetics Operate an FMN RiboswitchMolecular Cell, 2005
- Structural Basis for Discriminative Regulation of Gene Expression by Adenine- and Guanine-Sensing mRNAsCell Chemical Biology, 2004
- Allele-Specific Suppression as a Tool to Study Protein–Protein Interactions in BacteriaMethods, 2000