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Splitting probabilities as a test of reaction coordinate choice in single-molecule experiments.

ABSTRACT: To explain the observed dynamics in equilibrium single-molecule measurements of biomolecules, the experimental observable is often chosen as a putative reaction coordinate along which kinetic behavior is presumed to be governed by diffusive dynamics. Here, we invoke the splitting probability as a test of the suitability of such a proposed reaction coordinate. Comparison of the observed splitting probability with that computed from the kinetic model provides a simple test to reject poor reaction coordinates. We demonstrate this test for a force spectroscopy measurement of a DNA hairpin.

SUBMITTER: Chodera JD

PROVIDER: S-EPMC4731355 | biostudies-literature | 2011 Aug

REPOSITORIES: biostudies-literature

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Splitting probabilities as a test of reaction coordinate choice in single-molecule experiments.

Chodera John D JD Pande Vijay S VS

Physical review letters 20110823 9

To explain the observed dynamics in equilibrium single-molecule measurements of biomolecules, the experimental observable is often chosen as a putative reaction coordinate along which kinetic behavior is presumed to be governed by diffusive dynamics. Here, we invoke the splitting probability as a test of the suitability of such a proposed reaction coordinate. Comparison of the observed splitting probability with that computed from the kinetic model provides a simple test to reject poor reaction ...[more]

PMID: 21929272

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