Quantitative approach to facilitated diffusion with intersegmental jumping

Details Quantitative approach to facilitated diffusion with intersegmental jumping Quantitative approach to facilitated diffusion with intersegmental jumping

2008-12-16

arxiv.org/abs/0812.3109v1

Proc. Natl. Acad. Sci. USA 106, 8204 (2009)

Physics

Condensed Matter

Statistical Mechanics

4 pages, 2 figures, REVTeX

Scientific paper

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.

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