Simulating activity of the bacterial ribosome.
Simulating activity of the bacterial ribosome.
复制标题
模拟细菌核糖体的活性。
DOI：
10.1017/s0033583510000028
复制
发表时间：
2009
影响因子：
6.1
通讯作者：
Trylska,Joanna
中科院分区：
文献类型：
--
作者：
Trylska,Joanna
本文综述了近年来研究细菌核糖体活性的计算机模拟研究。随着核糖体亚基的三维原子分辨率结构的可用性，计算方法成为可能。然而，由于系统的巨大尺寸，研究核糖体的理论努力很少且具有挑战性。例如，为了将模拟时间尺度扩展到生物相关的时间尺度，通常需要应用需要繁琐参数化的简化模型。为此，核糖体的建模集中在其内部动力学，静电特性，抗生素的抑制，核糖体隧道中的多肽折叠和驱动小核糖体亚基形成的组装机制。
Computational modeling studies that investigate activity of the bacterial ribosome were reviewed. Computational approaches became possible with the availability of three-dimensional atomic resolution structures of the ribosomal subunits. However, due to the enormous size of the system, theoretical efforts to study the ribosome are few and challenging. For example, to extend the simulation timescales to biologically relevant ones, often, reduced models that require tedious parameterizations need to be applied. To that end, modeling of the ribosome focused on its internal dynamics, electrostatic properties, inhibition by antibiotics, polypeptide folding in the ribosome tunnel and assembly mechanisms driving the formation of the small ribosomal subunit.