Effect of Bending Anisotropy on the 3D Conformation of Short DNA Loops

Details Effect of Bending Anisotropy on the 3D Conformation of Short DNA Loops Effect of Bending Anisotropy on the 3D Conformation of Short DNA Loops

2008-11-20

arxiv.org/abs/0811.3315v1

Phys. Rev. Lett. 101, 168103 (2008)

Biology

Quantitative Biology

Biomolecules

Scientific paper

10.1103/PhysRevLett.101.168103

The equilibrium three dimensional shape of relatively short loops of DNA is studied using an elastic model that takes into account anisotropy in bending rigidities. Using a reasonable estimate for the anisotropy, it is found that cyclized DNA with lengths that are not integer multiples of the pitch take on nontrivial shapes that involve bending out of planes and formation of kinks. The effect of sequence inhomogeneity on the shape of DNA is addressed, and shown to enhance the geometrical features. These findings could shed some light on the role of DNA conformation in protein--DNA interactions.

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