Conformations of closed DNA

Details Conformations of closed DNA Conformations of closed DNA

1999-03-24

arxiv.org/abs/cond-mat/9903364v1

Physics

Condensed Matter

Soft Condensed Matter

39 pages in REVTEX with 14 eps figures. Submitted to Phys. Rev. E. This manuscript updates, expands and revises, to a consider

Scientific paper

10.1103/PhysRevE.60.7239

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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