Literature DB >> 11970668

Conformations of closed DNA.

B Fain1, J Rudnick.   

Abstract

We examine the conformations of a model for a short segment of closed DNA. The molecule is represented as a cylindrically symmetric elastic rod with a constraint corresponding to a specification of the linking number. We obtain analytic expressions leading to the spatial configuration of a family of solutions representing distortions that interpolate between the circular form of DNA and a figure-eight form that represents the onset of interwinding. We are also able to generate knotted loops. We suggest ways to use our approach to produce other configurations relevant to studies of DNA structure. The stability of the distorted configurations is assessed, along with the effects of fluctuations on the free energy of the various configurations.

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Year:  1999        PMID: 11970668     DOI: 10.1103/physreve.60.7239

Source DB:  PubMed          Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics        ISSN: 1063-651X


  7 in total

1.  Monte Carlo simulations of supercoiled DNAs confined to a plane.

Authors:  Bryant S Fujimoto; J Michael Schurr
Journal:  Biophys J       Date:  2002-02       Impact factor: 4.033

2.  Nucleosome repositioning via loop formation.

Authors:  I M Kulić; H Schiessel
Journal:  Biophys J       Date:  2003-05       Impact factor: 4.033

3.  Automatic classification of protein structure by using Gauss integrals.

Authors:  Peter Rogen; Boris Fain
Journal:  Proc Natl Acad Sci U S A       Date:  2002-12-27       Impact factor: 11.205

4.  Knot soliton in DNA and geometric structure of its free-energy density.

Authors:  Ying Wang; Xuguang Shi
Journal:  J Biol Phys       Date:  2017-11-13       Impact factor: 1.365

5.  The Stochastic Elastica and Excluded-Volume Perturbations of DNA Conformational Ensembles.

Authors:  Gregory S Chirikjian
Journal:  Int J Non Linear Mech       Date:  2008-12-01       Impact factor: 2.985

6.  Conformational Analysis of Stiff Chiral Polymers with End-Constraints.

Authors:  Jin Seob Kim; Gregory S Chirikjian
Journal:  Mol Simul       Date:  2006       Impact factor: 2.178

Review 7.  Group theory and biomolecular conformation: I. Mathematical and computational models.

Authors:  Gregory S Chirikjian
Journal:  J Phys Condens Matter       Date:  2010-08-18       Impact factor: 2.333

  7 in total

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