Interaction of deoxyribonucleic acid with deoxyribonucleic acid-binding protein from starved cells: cluster formation and crystal growing as a model of initial stages of nucleoid biocrystallization

Tereshkin, E.; Tereshkina, K.; Loiko, N.; Chulichkov, A.; Kovalenko, V.; Krupyanskii, Y.

Авторы: Eduard Tereshkin, Ksenia Tereshkina, Natalia Loiko, Alexei Chulichkov, Vladislav Kovalenko, Yurii Krupyanskii
Журнал: Journal of Biomolecular Structure and Dynamics
Том: 37
Номер: 10
Год издания: 2019
Издательство: Adenine Press
Местоположение издательства: United States
Первая страница: 2600
Последняя страница: 2607
DOI: 10.1080/07391102.2018.1492458
Аннотация: Paper represents the study of DNA-DPS (DNA binding protein from starved cells – это правильное название белка на английском языке, просьба не изменять) cluster formation and crystal growing within a cell. This study is a part of a project that includes ESRF synchrotron investigations of in vivo and in vitro nanocrystallization processes of E. coli nucleoid under stress condition combined with theoretical molecular dynamics approaches. Nucleoid bio-crystallization is adaptive mechanism of bacterial cells under stress and poorly understood at present time. Understanding of the process of crystal formation is a very important for molecular biology, pharmaceuticals and other areas. In the simulation part the coarse-grained modeling of various combinations of the fol-lowing molecules was used: DPS proteins (from 1 to 108 DPS dodecamers on simulation box), 24 b.p. short DNA fragments (from 1 to 100 on simulation box) and 161 b.p. part of pBluescript SK + plasmide in the presents of ions. We defined structural, energetic and dynamic properties of DPS-DPS and DPS-DNA complexes in clusters and crystals that allow us to predict crystal formation and the structure of these crystals in experimental systems.
Добавил в систему: Крупянский Юрий Федорович

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