Pecularities of DNA binding to two-dimensional crystals of bacterial protein Dps from Escherichia coli based on molecular dynamics data

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In this work, using coarse-grained molecular modeling methods, the interactions of DNA-binding protein from starved cells (Dps) of the bacterium Escherichia coli with DNA sections of various lengths and composition were investigated. The binding features in two-dimensional crystals of the Dps protein were studied. Using free energy search methods – thermodynamic integration and linear interaction energy – the most favorable conditions for the binding of DNA and Dps were determined.

作者简介

E. Tereshkin

Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences

编辑信件的主要联系方式.
Email: ramm@mail.ru
俄罗斯联邦, Moscow

К. Tereshkina

Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences

Email: ramm@mail.ru
俄罗斯联邦, Moscow

N. Loiko

Federal Research Centre “Fundamentals of Biotechnology” of the Russian Academy of Sciences

Email: ramm@mail.ru
俄罗斯联邦, Moscow

V. Kovalenko

Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences

Email: ramm@mail.ru
俄罗斯联邦, Moscow

Y. Krupyanskii

Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences

Email: ramm@mail.ru
俄罗斯联邦, Moscow

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