Contribution of nonlocal interactions to DNA elasticity

A nonlocal harmonic elastic rod model is proposed to describe the elastic behavior of short DNA molecules. We show that the nonlocal interactions contribute to effective bending energy of the molecule and affect its apparent persistence length. It is also shown that the anomalous behavior which has...

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Bibliographic Details
Published inThe Journal of chemical physics Vol. 134; no. 12; p. 125106
Main Authors Eslami-Mossallam, B, Ejtehadi, M R
Format Journal Article
LanguageEnglish
Published United States 28.03.2011
Subjects
Base Pairing
Computer Simulation
DNA - chemistry
Elasticity
Models, Chemical
Monte Carlo Method
Nucleic Acid Conformation
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Summary:A nonlocal harmonic elastic rod model is proposed to describe the elastic behavior of short DNA molecules. We show that the nonlocal interactions contribute to effective bending energy of the molecule and affect its apparent persistence length. It is also shown that the anomalous behavior which has been observed in all-atom molecular dynamic simulations [A. K. Mazur, Biophys. J. 134, 4507 (2006)] can be a consequence of both nonlocal interactions between DNA base pairs and the intrinsic curvature of DNA.
ISSN:1089-7690
DOI:10.1063/1.3567185