Abstract
From the distribution of the low-lying states on the energy landscape, we recently developed a new computational method for the prediction of RNA folding kinetics [1]. The method can treat long sequences because it is based on a small ensemble of seed states. Additionally, the method is based on an analytic formalism and thus enables predictions for long-time folding kinetics. Applications of the new kinetic model to mechanical folding of RNA hairpins reveal distinct kinetic behaviors for a wide range of different force regimes, from zero force to forces much stronger than the critical force for the folding-unfolding transition.
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