Dynamics of DNA polymerase I (Klenow fragment) under external force

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	Dynamics of DNA polymerase I (Klenow fragment) under external force
	Xie, P
刊名	JOURNAL OF MOLECULAR MODELING
	2013
卷号	19 期号:3 页码:1379
关键词	DNA replication Chemomechanical coupling Dynamics
ISSN号	1610-2940
通讯作者	Xie, P (reprint author), Chinese Acad Sci, Inst Phys, Key Lab Soft Matter Phys, Beijing 100190, Peoples R China.
中文摘要	During DNA synthesis, high-fidelity DNA polymerase (DNAP) translocates processively along the template by utilizing the chemical energy from nucleotide incorporation. Thus, understanding the chemomechanical coupling mechanism and the effect of external mechanical force on replication velocity are the most fundamental issues for high-fidelity DNAP. Here, based on our proposed model, we take Klenow fragment as an example to study theoretically the dynamics of high-fidelity DNAPs such as the replication velocity versus different types of external force, i.e., a stretching force on the template, a backward force on the enzyme and a forward force on the enzyme. Replication velocity as a function of the template tension with only one adjustable parameter is in good agreement with the available experimental data. The replication velocity is nearly independent of the forward force, even at very low dNTP concentration. By contrast, the backward force has a large effect on the replication velocity, especially at high dNTP concentration. A small backward force can increase the replication velocity and an optimal backward force exists at which the replication velocity has maximum value; with any further increase in the backward force the velocity decreases rapidly. These results can be tested easily by future experiments and are aid our understanding of the chemomechanical coupling mechanism and polymerization dynamics of high-fidelity DNAP.
资助信息	National Natural Science Foundation of China [10974248]
语种	英语
公开日期	2014-01-16
内容类型	期刊论文
源URL	[http://ir.iphy.ac.cn/handle/311004/56910]
专题	物理研究所_物理所公开发表论文_物理所公开发表论文_期刊论文
推荐引用方式 GB/T 7714	Xie, P. Dynamics of DNA polymerase I (Klenow fragment) under external force[J]. JOURNAL OF MOLECULAR MODELING,2013,19(3):1379.
APA	Xie, P.(2013).Dynamics of DNA polymerase I (Klenow fragment) under external force.JOURNAL OF MOLECULAR MODELING,19(3),1379.
MLA	Xie, P."Dynamics of DNA polymerase I (Klenow fragment) under external force".JOURNAL OF MOLECULAR MODELING 19.3(2013):1379.