Quantitative approach to facilitated diffusion with intersegmental jumping
Statistical Mechanics
2009-05-20 v1 Biomolecules
Abstract
We study the impact of DNA coiling on the search rate of proteins moving along the DNA contour interspersed by three-dimensional (3D) bulk excursions. When the DNA is coiled proteins performing short 3D hops along a DNA segment can be captured by foreign DNA segments that have looped back close to the original segment. These intersegmental jumps are shown to enhance the search rate for a specific site on the DNA by lowering the tendency to resample previously visited sites on the DNA. The model developed here offers a quantitative description of recent single molecule experiments on facilitated diffusion of restriction enzymes EcoRV.
Keywords
Cite
@article{arxiv.0812.3109,
title = {Quantitative approach to facilitated diffusion with intersegmental jumping},
author = {Michael A. Lomholt and Bram van den Broek and Svenja-Marei J. Kalisch and Gijs J. L. Wuite and Ralf Metzler},
journal= {arXiv preprint arXiv:0812.3109},
year = {2009}
}
Comments
4 pages, 2 figures, REVTeX