Investigation of the effect of a single-strand break on the mechanical parameters of DNA by molecular dynamics method
Abstract
Early detection and repair of damaged DNA is important for cell functioning and survival. The recently proposed mechanism of intra-nucleosome loop formation suggests relaxation of DNA supercoiling accumulated during transcription through damaged chromatin. The degree of DNA relaxation is affected by the mechanical properties and structure of the double helix. In this paper we investigated the consequences of the introduction of a single-stranded break on the mechanical properties of a DNA fragment by molecular dynamics. It was concluded that the introduction of a single-stranded break leads to decreased stiffness and higher elasticity of the damaged DNA molecule as compared to the intact one. This, in turn, may lead to relief of the supercoiling of the defective DNA and arrest of the enzyme.
About the Authors
O. I. Volokh
Lomonosov Moscow State University
Russian Federation
Russian Federation
Department of Bioengineering, Faculty of Biology
Leninskiye Gory 1–12, Moscow, 119234
G. A. Armeev
Lomonosov Moscow State University
Russian Federation
Russian Federation
Department of Bioengineering, Faculty of Biology
Leninskiye Gory 1–12, Moscow, 119234
E. S. Trifonova
Lomonosov Moscow State University
Russian Federation
Russian Federation
Department of Bioengineering, Faculty of Biology
Leninskiye Gory 1–12, Moscow, 119234
O. S. Sokolova
Lomonosov Moscow State University
Russian Federation
Russian Federation
Department of Bioengineering, Faculty of Biology
Leninskiye Gory 1–12, Moscow, 119234
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Review
For citations:
Volokh O.I., Armeev G.A., Trifonova E.S., Sokolova O.S. Investigation of the effect of a single-strand break on the mechanical parameters of DNA by molecular dynamics method. Vestnik Moskovskogo universiteta. Seriya 16. Biologiya. 2020;75(3):164-169. (In Russ.)
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