Sequence heterogeneity accelerates protein search for targets on DNA

Journal Title
Journal ISSN
Volume Title
AIP Publishing LLC

The process of protein search for specific binding sites on DNA is fundamentally important since it marks the beginning of all major biological processes. We present a theoretical investigation that probes the role of DNA sequence symmetry, heterogeneity, and chemical composition in the protein search dynamics. Using a discrete-state stochastic approach with a first-passage events analysis, which takes into account the most relevant physical-chemical processes, a full analytical description of the search dynamics is obtained. It is found that, contrary to existing views, the protein search is generally faster on DNA with more heterogeneous sequences. In addition, the search dynamics might be affected by the chemical composition near the target site. The physical origins of these phenomena are discussed. Our results suggest that biological processes might be effectively regulated by modifying chemical composition, symmetry, and heterogeneity of a genome.

Journal article

Shvets, Alexey A. and Kolomeisky, Anatoly B.. "Sequence heterogeneity accelerates protein search for targets on DNA." The Journal of Chemical Physics, 143, no. 24 (2016) AIP Publishing LLC:

Forms part of
Article is made available in accordance with the publisher's policy and may be subject to US copyright law. Please refer to the publisher's site for terms of use.
Link to license
Citable link to this page