Literature DB >> 18643291

End-to-end distribution for a wormlike chain in arbitrary dimensions.

Shafigh Mehraeen1, Bariz Sudhanshu, Elena F Koslover, Andrew J Spakowitz.   

Abstract

We construct an efficient methodology for calculating wormlike chain statistics in arbitrary D dimensions over all chain rigidities, from fully rigid to completely flexible. The structure of our exact analytical solution for the end-to-end distribution function for a wormlike chain in arbitrary D dimensions in Fourier-Laplace space (i.e., Fourier-transformed end position and Laplace-transformed chain length) adopts the form of an infinite continued fraction, which is advantageous for its compact structure and stability for numerical implementation. We then proceed to present a step-by-step methodology for performing the Fourier-Laplace inversion in order to make full use of our results in general applications. Asymptotic methods for evaluating the Laplace inversion (power-law expansion and Rayleigh-Schrödinger perturbation theory) are employed in order to improve the accuracy of the numerical inversions of the end-to-end distribution function in real space. We adapt our results to the evaluation of the single-chain structure factor, rendering simple, closed-form expressions that facilitate comparison with scattering experiments. Using our techniques, the accuracy of the end-to-end distribution function is enhanced up to the limit of the machine precision. We demonstrate the utility of our methodology with realizations of the chain statistics, giving a general methodology that can be applied to a wide range of biophysical problems.

Entities:  

Year:  2008        PMID: 18643291     DOI: 10.1103/PhysRevE.77.061803

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


  17 in total

1.  Systematic control of protein interaction using a modular ER/K α-helix linker.

Authors:  Sivaraj Sivaramakrishnan; James A Spudich
Journal:  Proc Natl Acad Sci U S A       Date:  2011-11-28       Impact factor: 11.205

2.  Detection of populations of amyloid-like protofibrils with different physical properties.

Authors:  Annalisa Relini; Silvia Torrassa; Riccardo Ferrando; Ranieri Rolandi; Silvia Campioni; Fabrizio Chiti; Alessandra Gliozzi
Journal:  Biophys J       Date:  2010-04-07       Impact factor: 4.033

3.  The radial distribution function of worm-like chains.

Authors:  N B Becker; A Rosa; R Everaers
Journal:  Eur Phys J E Soft Matter       Date:  2010-06-02       Impact factor: 1.890

4.  Looping probabilities in model interphase chromosomes.

Authors:  Angelo Rosa; Nils B Becker; Ralf Everaers
Journal:  Biophys J       Date:  2010-06-02       Impact factor: 4.033

5.  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

6.  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

7.  Unimodal and bimodal random motions of independent exponential steps.

Authors:  F Detcheverry
Journal:  Eur Phys J E Soft Matter       Date:  2014-11-24       Impact factor: 1.890

8.  Nematic ordering of worm-like polymers near an interface.

Authors:  Russell K W Spencer; Nima Saeidi; Bae-Yeun Ha
Journal:  J Chem Phys       Date:  2020-05-29       Impact factor: 3.488

9.  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

10.  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

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