Force dependent fragility in RNA hairpins
arXiv:cond-mat/0606254 · doi:10.1103/PhysRevLett.96.218301
Abstract
We apply Kramers theory to investigate the dissociation of multiple bonds under mechanical force and interpret experimental results for the unfolding/refolding force distributions of an RNA hairpin pulled at different loading rates using laser tweezers. We identify two different kinetic regimes depending on the range of forces explored during the unfolding and refolding process. The present approach extends the range of validity of the two-states approximation by providing a theoretical framework to reconstruct free-energy landscapes and identify force-induced structural changes in molecular transition states using single molecule pulling experiments. The method should be applicable to RNA hairpins with multiple kinetic barriers.
Latex file, 4 pages+3 figures
Cited by in corpus (17)
- Experimental Free Energy Surface Reconstruction From Single-Molecule Force Spectroscopy Using Jarzynski's Equality
- A nucleotide-level coarse-grained model of RNA
- Mechanical unfolding of RNA: From hairpins to structures with internal multiloops
- Measuring the energy landscape roughness and the transition state location of biomolecules using single molecule mechanical unfolding experiments
- Force Dependent Hopping Rates of RNA Hairpins can be Estimated from Accurate Measurement of the Folding Landscapes
- Dynamic force spectroscopy of DNA hairpins. I. Force kinetics and free energy landscapes
- Dynamic force spectroscopy: analysis of reversible bond-breaking dynamics
- Dynamic force spectroscopy of DNA hairpins. II. Irreversibility and dissipation
- Measurement of work in single-molecule experiments
- Reconstructing a Random Potential from its Random Walks
- Folding and unfolding of a triple-branch DNA molecule with four conformational states
- Force-Dependent Folding Kinetics of Single Molecules with Multiple Intermediates and Pathways
- Force-induced misfolding in RNA
- Nonequilibrium fluctuations in small systems: From physics to biology
- Force-clamp spectroscopy of reversible bond breakage
- Force Dependence of Proteins' Transition State Position and the Bell-Evans Model
- Extracting folding landscape characteristics of biomolecules using mechanical forces