Splitting probabilities as a test of reaction coordinate choice in single-molecule experiments
Identifieur interne : 000424 ( Pmc/Curation ); précédent : 000423; suivant : 000425Splitting probabilities as a test of reaction coordinate choice in single-molecule experiments
Auteurs : John D. Chodera [États-Unis] ; Vijay S. Pande [États-Unis]Source :
- Physical review letters [ 0031-9007 ] ; 2011.
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.
Url:
DOI: 10.1103/PhysRevLett.107.098102
PubMed: 21929272
PubMed Central: 4731355
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PMC:4731355Le document en format XML
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<front><div type="abstract" xml:lang="en"><p id="P1">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.</p>
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California Institute of Quantitative Biosciences (QB3), University of California, Berkeley, CA 94720</aff>
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Corresponding author; <email>pande@stanford.edu</email>
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<abstract><p id="P1">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.</p>
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