Statistics of reversible bond dynamics observed in force-clamp spectroscopy

Details Statistics of reversible bond dynamics observed in force-clamp spectroscopy Statistics of reversible bond dynamics observed in force-clamp spectroscopy

2010-05-10

arxiv.org/abs/1005.1590v2

Physics

Condensed Matter

Soft Condensed Matter

25 pages, 10 figures, Phys. Rev. E, in press

Scientific paper

We present a detailed analysis of two-state trajectories obtained from force-clamp spectroscopy (FCS) of reversibly bonded systems. FCS offers the unique possibility to vary the equilibrium constant in two-state kinetics, for instance the unfolding and refolding of biomolecules, over many orders of magnitude due to the force dependency of the respective rates. We discuss two different kinds of counting statistics, the event-counting usually employed in the statistical analysis of two-state kinetics and additionally the so-called cycle-counting. While in the former case all transitions are counted, cycle-counting means that we focus on one type of transitions. This might be advantageous in particular if the equilibrium constant is much larger or much smaller than unity because in these situations the temporal resolution of the experimental setup might not allow to capture all transitions of an event-counting analysis. We discuss how an analysis of FCS data for complex systems exhibiting dynamic disorder might be performed yielding information about the detailed force-dependence of the transition rates and about the time scale of the dynamic disorder. In addition, the question as to which extent the kinetic scheme can be viewed as a Markovian two-state model is discussed.

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