Literature DB >> 20517631

The radial distribution function of worm-like chains.

N B Becker1, A Rosa, R Everaers.   

Abstract

Thermal conformations of semiflexible macromolecules are generically described by the worm-like chain model. The end-to-end distance distribution, a fundamental quantity of the model, is not yet known in closed form. We provide a solution to the practical problem of choosing an appropriate approximation. First, a comprehensive review of existing approximations and exact limiting results is given. We then propose an explicit expression which interpolates between all relevant limiting cases. We show that it accurately reproduces, at no computational cost, high-precision Monte Carlo data, covering a wide range from stiff to flexible chains and from looped to fully stretched configurations. Using this result we quantify the enhancement of short worm-like loop formation by (protein) bridges.

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Year:  2010        PMID: 20517631     DOI: 10.1140/epje/i2010-10596-0

Source DB:  PubMed          Journal:  Eur Phys J E Soft Matter        ISSN: 1292-8941            Impact factor:   1.890


  17 in total

1.  Radial Distribution Function of Semiflexible Polymers.

Authors: 
Journal:  Phys Rev Lett       Date:  1996-09-16       Impact factor: 9.161

Review 2.  Twisting and stretching single DNA molecules.

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4.  Effective medium theory of semiflexible filamentous networks.

Authors:  Moumita Das; F C MacKintosh; Alex J Levine
Journal:  Phys Rev Lett       Date:  2007-07-18       Impact factor: 9.161

5.  Protein-mediated DNA loops: effects of protein bridge size and kinks.

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Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2005-12-02

6.  Geometry of mediating protein affects the probability of loop formation in DNA.

Authors:  Neeraj J Agrawal; Ravi Radhakrishnan; Prashant K Purohit
Journal:  Biophys J       Date:  2008-01-11       Impact factor: 4.033

Review 7.  10 years of tension on chromatin: results from single molecule force spectroscopy.

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Journal:  Curr Pharm Biotechnol       Date:  2009-08       Impact factor: 2.837

Review 8.  Force and function: probing proteins with AFM-based force spectroscopy.

Authors:  Elias M Puchner; Hermann E Gaub
Journal:  Curr Opin Struct Biol       Date:  2009-10-12       Impact factor: 6.809

9.  Elasticity of semiflexible polymers.

Authors:  Joseph Samuel; Supurna Sinha
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2002-11-21

10.  Triple minima in the free energy of semiflexible polymers.

Authors:  Abhishek Dhar; Debasish Chaudhuri
Journal:  Phys Rev Lett       Date:  2002-07-19       Impact factor: 9.161

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  13 in total

1.  Structural distributions from single-molecule measurements as a tool for molecular mechanics.

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2.  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

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4.  Tunable molecular tension sensors reveal extension-based control of vinculin loading.

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5.  Nucleosome positioning and composition modulate in silico chromatin flexibility.

Authors:  N Clauvelin; P Lo; O I Kulaeva; E V Nizovtseva; J Diaz-Montes; J Zola; M Parashar; V M Studitsky; W K Olson
Journal:  J Phys Condens Matter       Date:  2015-01-07       Impact factor: 2.333

6.  Stretching and bending fluctuations of short DNA molecules.

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Journal:  Biophys J       Date:  2013-01-22       Impact factor: 4.033

7.  Probing the elastic limit of DNA bending.

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8.  Single-molecule fluorescence studies on DNA looping.

Authors:  Jiyoun Jeong; Tung T Le; Harold D Kim
Journal:  Methods       Date:  2016-04-07       Impact factor: 3.608

9.  Dynamic interplay between catalytic and lectin domains of GalNAc-transferases modulates protein O-glycosylation.

Authors:  Erandi Lira-Navarrete; Matilde de Las Rivas; Ismael Compañón; María Carmen Pallarés; Yun Kong; Javier Iglesias-Fernández; Gonçalo J L Bernardes; Jesús M Peregrina; Carme Rovira; Pau Bernadó; Pierpaolo Bruscolini; Henrik Clausen; Anabel Lostao; Francisco Corzana; Ramon Hurtado-Guerrero
Journal:  Nat Commun       Date:  2015-05-05       Impact factor: 14.919

10.  Transcription-factor-mediated DNA looping probed by high-resolution, single-molecule imaging in live E. coli cells.

Authors:  Zach Hensel; Xiaoli Weng; Arvin Cesar Lagda; Jie Xiao
Journal:  PLoS Biol       Date:  2013-06-18       Impact factor: 8.029

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