Berlin 2012 – scientific programme

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BP: Fachverband Biologische Physik

BP 13: DNA/RNA and Related Enzymes

BP 13.6: Talk

Wednesday, March 28, 2012, 11:00–11:15, H 1058

RNA folding dynamics studied with a structure-based model — •Michael Faber and Stefan Klumpp — Max Planck Institute of Colloids and Interfaces Potsdam

RNA molecules form three-dimensional structures as complementary bases form bonds and the molecule coils. These structures determine the function and biochemical activity of the molecule. For example, the presence or absence of a specific RNA structure can invoke transcriptional pauses or terminate the transcription altogether. We have developed a structure-based model for studying the folding dynamics of RNA secondary structures. To simulate the dynamics, we use a Monte-Carlo method with Metropolis rates, where the basic steps are the closing or opening of one native contact. We apply this model to the folding and unfolding of simple RNA structures in the presence and absence of an external force.