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Calculation of conformation-dependent biomolecular forces
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10.1063/1.2784557
/content/aip/journal/jcp/127/17/10.1063/1.2784557
http://aip.metastore.ingenta.com/content/aip/journal/jcp/127/17/10.1063/1.2784557
View: Figures

Figures

Image of FIG. 1.
FIG. 1.

(Color) 1D random walk on a Gaussian potential barrier, . Solid lines in (a)–(c): from analytic expressions. Filled green circles in (b): finite differences of for in (a). (d) Peak-normalized positional distribution in the case , with , 10, and 50. There are two peaks when .

Image of FIG. 2.
FIG. 2.

Profile of along the line for a 2D asymmetric Gaussian barrier. Data marked by “Eq. (3)” are evaluated without the correction term in Eq. (5), as in the 1D case.

Image of FIG. 3.
FIG. 3.

(Color) Force-extension relation of FJC. (a) Example snapshots of the two ensembles overlaid at two extensions. [(b)–(d)] vs . Thick solid: Eqs. (13) and (14). In (c) and (d), black dotted: , for (Ref. 11). In (c), thick orange dashed: analytic result for with [Eqs. (42) and (43) in Ref. 22]. Open circle: [Eq. (3)]. Blue up and green down triangles: with and without the correction term in Eq. (5), which nearly coincide due to the radial symmetry (cf. Fig. 2). Unless otherwise noted on the graph, , , and . Insets: magnification for small (b) and near 1 [(c) and (d)].

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/content/aip/journal/jcp/127/17/10.1063/1.2784557
2007-11-05
2014-04-25
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752b84549af89a08dbdd7fdb8b9568b5 journal.articlezxybnytfddd
Scitation: Calculation of conformation-dependent biomolecular forces
http://aip.metastore.ingenta.com/content/aip/journal/jcp/127/17/10.1063/1.2784557
10.1063/1.2784557
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