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原子级别的细胞环境拥挤现象的计算机模拟。

Crowding in Cellular Environments at an Atomistic Level from Computer Simulations.

机构信息

Department of Biochemistry and Molecular Biology, Michigan State University , East Lansing, Michigan, United States.

Quantitative Biology Center, RIKEN , Kobe, Japan.

出版信息

J Phys Chem B. 2017 Aug 31;121(34):8009-8025. doi: 10.1021/acs.jpcb.7b03570. Epub 2017 Jul 12.

Abstract

The effects of crowding in biological environments on biomolecular structure, dynamics, and function remain not well understood. Computer simulations of atomistic models of concentrated peptide and protein systems at different levels of complexity are beginning to provide new insights. Crowding, weak interactions with other macromolecules and metabolites, and altered solvent properties within cellular environments appear to remodel the energy landscape of peptides and proteins in significant ways including the possibility of native state destabilization. Crowding is also seen to affect dynamic properties, both conformational dynamics and diffusional properties of macromolecules. Recent simulations that address these questions are reviewed here and discussed in the context of relevant experiments.

摘要

生物环境中拥挤效应对生物分子结构、动力学和功能的影响仍未得到很好的理解。对不同复杂程度的浓缩肽和蛋白质体系的原子模型进行计算机模拟,开始提供新的认识。拥挤现象、与其他大分子和代谢物的弱相互作用以及细胞环境中溶剂性质的改变,似乎以包括使天然状态失稳的可能性在内的重要方式重塑肽和蛋白质的能量景观。拥挤现象也被认为会影响大分子的动态特性,包括构象动力学和扩散性质。本文综述了最近解决这些问题的模拟研究,并结合相关实验进行了讨论。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fb4a/5582368/60cc0cbb03db/jp-2017-03570f_0001.jpg

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