Literature DB >> 10984407

The distribution of end-to-end distances of the weakly bending rod model.

J M Schurr1, B S Fujimoto.   

Abstract

The weakly bending rod model is an approximation to a worm-like chain in the limit where the ratio L(0)/P of the contour length L(0) to the persistence length P is not too large. The range of validity of the weakly bending rod model is investigated by deriving analytical expressions for its distribution of end-to-end distances P(L) and its moments <L(m) > and numerically comparing the results with corresponding values for the worm-like chain model. No general, closed form analytical expression for either P(L) or the average length <L> of a worm-like chain exists, so those quantities are obtained by Monte Carlo simulations. Exact analytical expressions for <L(2)> and <L(4)> for the worm-like chain are employed in the comparison of the computed moments. Moments calculated for the approximate distributions of Daniels and Yamakawa and Stockmayer are also compared with the others. In addition, P(L) and its moments for the alternative model of Winkler et al. are compared with the others. The weakly bending rod model gives a reasonably good account of both P(L) and <L(m) >, m = 1,2,4, over the range L(0)/P </= 0.6, but deviates significantly for L(0)/P >/= 1.0. In contrast, the alternative model of Winkler et al. yields rather poor results in the rodlike domain. Copyright 2000 John Wiley & Sons, Inc.

Mesh:

Substances:

Year:  2000        PMID: 10984407     DOI: 10.1002/1097-0282(200012)54:7<561::AID-BIP80>3.0.CO;2-M

Source DB:  PubMed          Journal:  Biopolymers        ISSN: 0006-3525            Impact factor:   2.505


  4 in total

1.  Sequence-dependent dynamics of duplex DNA: the applicability of a dinucleotide model.

Authors:  T M Okonogi; S C Alley; A W Reese; P B Hopkins; B H Robinson
Journal:  Biophys J       Date:  2002-12       Impact factor: 4.033

2.  Free energy considerations for nucleic acids with dangling ends near a surface: a coarse grained approach.

Authors:  J Ambia-Garrido; Arnold Vainrub; B Montgomery Pettitt
Journal:  J Phys Condens Matter       Date:  2011-07-11       Impact factor: 2.333

3.  A model for Structure and Thermodynamics of ssDNA and dsDNA Near a Surface: a Coarse Grained Approach.

Authors:  J Ambia-Garrido; Arnold Vainrub; B Montgomery Pettitt
Journal:  Comput Phys Commun       Date:  2010-12-01       Impact factor: 4.390

4.  Remeasuring the double helix.

Authors:  Rebecca S Mathew-Fenn; Rhiju Das; Pehr A B Harbury
Journal:  Science       Date:  2008-10-17       Impact factor: 47.728

  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.