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    Sequence heterogeneity accelerates protein search for targets on DNA

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    Author
    Shvets, Alexey A.; Kolomeisky, Anatoly B.
    Date
    2016
    Abstract
    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.
    Citation
    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: http://dx.doi.org/10.1063/1.4937938.
    Published Version
    http://dx.doi.org/10.1063/1.4937938
    Type
    Journal article
    Publisher
    AIP Publishing LLC
    Citable link to this page
    https://hdl.handle.net/1911/94209
    Rights
    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.
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    • Chemistry Publications [636]
    • Faculty Publications [4988]

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    Home | FAQ | Contact Us | Privacy Notice | Accessibility Statement
    Managed by the Digital Scholarship Services at Fondren Library, Rice University
    Physical Address: 6100 Main Street, Houston, Texas 77005
    Mailing Address: MS-44, P.O.BOX 1892, Houston, Texas 77251-1892
    Site Map