Protein/DNA interactions in complex DNA topologies: expect the unexpected

被引：8
|
作者：
Noy A. [1 ]
Sutthibutpong T. [2 ]
A. Harris S. [3 ,4 ]
机构：
[1] Department of Physics, Biological Physical Sciences Institute, University of York, York
[2] Theoretical and Computational Physics Group, Department of Physics, King Mongkut University of Technology Thonburi, 126 Pracha Uthit Road, Bang Mod, Thung Khru, Bangkok
[3] School of Physics and Astronomy, University of Leeds, 192 Woodhouse Lane, Leeds
[4] Astbury Centre for Structural and Molecular Biology, University of Leeds, 192 Woodhouse Lane, Leeds
来源：
Biophysical Reviews | 2016年 / 8卷 / Suppl 1期
基金：
英国生物技术与生命科学研究理事会; 英国工程与自然科学研究理事会;
关键词：
Computer simulations; DNA structural organisation; DNA supercoiling; DNA topology; DNA-binding proteins; Thermodynamics;
D O I：
10.1007/s12551-016-0241-7
中图分类号：
学科分类号：
摘要：
DNA supercoiling results in compacted DNA structures that can bring distal sites into close proximity. It also changes the local structure of the DNA, which can in turn influence the way it is recognised by drugs, other nucleic acids and proteins. Here, we discuss how DNA supercoiling and the formation of complex DNA topologies can affect the thermodynamics of DNA recognition. We then speculate on the implications for transcriptional control and the three-dimensional organisation of the genetic material, using examples from our own simulations and from the literature. We introduce and discuss the concept of coupling between the multiple length-scales associated with hierarchical nuclear structural organisation through DNA supercoiling and topology. © 2016, The Author(s).
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页码：145 / 155
页数：10
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