Conformations of closed DNA

Boris Fain and Joseph Rudnick
Phys. Rev. E 60, 7239 – Published 1 December 1999
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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.

  • Received 24 March 1999

DOI:https://doi.org/10.1103/PhysRevE.60.7239

©1999 American Physical Society

Authors & Affiliations

Boris Fain* and Joseph Rudnick

  • Department of Physics, UCLA, Los Angeles, California 90095-1547

  • *Present address: Department of Structural Biology, Stanford University, Fairchild Building, D-109, Stanford, CA, 94305-5126.

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Vol. 60, Iss. 6 — December 1999

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