Literature DB >> 16383410

End-to-end distance vector distribution with fixed end orientations for the wormlike chain model.

Andrew J Spakowitz1, Zhen-Gang Wang.   

Abstract

We find exact expressions for the end-to-end distance vector distribution function with fixed end orientations for the wormlike chain model. This function in Fourier-Laplace space adopts the form of infinite continued fractions, which emerges upon exploiting the hierarchical structure of the moment-based expansion. Our results are used to calculate the root-mean-square end displacement in a given direction for a chain with both end orientations fixed. We find that the crossover from rigid to flexible chains is marked by the root-mean-square end displacement slowly losing its angular dependence as the coupling between chain conformation and end orientation wanes. However, the coupling remains strong even for relatively flexible chains, suggesting that the end orientation strongly influences chain conformation for chains that are several persistence lengths long. We then show the behavior of the distribution function by a density plot of the probability as a function of the end-to-end distance vector for a wormlike chain in two dimensions with one end pointed in a fixed direction and the other end free (in its orientation). As we progress from high to low rigidity, the distribution function shifts from being peaked at a location near the full contour length of the chain in the forward direction, corresponding to a straight configuration, to being peaked near zero end separation, as in the Gaussian limit. The function exhibits double peaks in the crossover between these limiting behaviors.

Entities:  

Year:  2005        PMID: 16383410     DOI: 10.1103/PhysRevE.72.041802

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  14 in total

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Journal:  Eur Phys J E Soft Matter       Date:  2011-11-16       Impact factor: 1.890

2.  Interplay of Protein Binding Interactions, DNA Mechanics, and Entropy in DNA Looping Kinetics.

Authors:  Peter J Mulligan; Yi-Ju Chen; Rob Phillips; Andrew J Spakowitz
Journal:  Biophys J       Date:  2015-08-04       Impact factor: 4.033

3.  Effect of force on mononucleosomal dynamics.

Authors:  Shirley Mihardja; Andrew J Spakowitz; Yongli Zhang; Carlos Bustamante
Journal:  Proc Natl Acad Sci U S A       Date:  2006-10-16       Impact factor: 11.205

4.  Tension-dependent structural deformation alters single-molecule transition kinetics.

Authors:  B Sudhanshu; S Mihardja; E F Koslover; S Mehraeen; C Bustamante; A J Spakowitz
Journal:  Proc Natl Acad Sci U S A       Date:  2011-01-18       Impact factor: 11.205

5.  Chromosome Structural Mechanics Dictates the Local Spreading of Epigenetic Marks.

Authors:  Sarah H Sandholtz; Deepti Kannan; Bruno G Beltran; Andrew J Spakowitz
Journal:  Biophys J       Date:  2020-09-12       Impact factor: 4.033

6.  Hitching a Ride: Mechanics of Transport Initiation through Linker-Mediated Hitchhiking.

Authors:  Saurabh S Mogre; Jenna R Christensen; Cassandra S Niman; Samara L Reck-Peterson; Elena F Koslover
Journal:  Biophys J       Date:  2020-01-29       Impact factor: 4.033

7.  Thermal fracture kinetics of heterogeneous semiflexible polymers.

Authors:  Alexander M Lorenzo; Enrique M De La Cruz; Elena F Koslover
Journal:  Soft Matter       Date:  2020-02-26       Impact factor: 3.679

8.  Elasticity transition and loop formation in vibrated bead chains: a simulation of polymer chains.

Authors:  Y C Chou; E Cho; T-h Chou; T M Hong
Journal:  Eur Phys J E Soft Matter       Date:  2009-06-11       Impact factor: 1.890

9.  First-principles calculation of DNA looping in tethered particle experiments.

Authors:  Kevin B Towles; John F Beausang; Hernan G Garcia; Rob Phillips; Philip C Nelson
Journal:  Phys Biol       Date:  2009-07-01       Impact factor: 2.583

10.  Chain conformations dictate multiscale charge transport phenomena in disordered semiconducting polymers.

Authors:  Rodrigo Noriega; Alberto Salleo; Andrew J Spakowitz
Journal:  Proc Natl Acad Sci U S A       Date:  2013-09-23       Impact factor: 11.205

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