A kinetic model of transcription initiation by RNA polymerase

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	A kinetic model of transcription initiation by RNA polymerase
	Xue, Xiao-chuan; Liu, Fei; Ou-Yang, Zhong-can; Xue, XC , Tsinghua Univ, Ctr Adv Study, Beijing 100084, Peoples R China
刊名	JOURNAL OF MOLECULAR BIOLOGY
	2008
卷号	378 期号:3 页码:520-529
关键词	Single-molecule Analysis Escherichia-coli Abortive Initiation Promoter Clearance In-vitro Elongation Complex Bubble Collapse Dna Escape Mechanism
ISSN号	0022-2836
英文摘要	We establish a sequence-dependent kinetic model for the later stage of transcription initiation by RNA polymerase. We suggest that there are three reaction pathways, the abortive pathway, the scrunching pathway and the escape pathway, competitive with each other at, each site during the transcription initiation. Using this three-pathway model, we mainly calculate the maximum sizes of the abortive transcripts, the abortive probabilities and the abortive/productive ratios for different promoters by Monte Carlo simulation and analytical methods. These results are quantitatively comparable with the experimental observations. In particular, our model can account for the unproductive initial transcribing complex and the nucleoside triphosphate concentration dependence of the transcription initiation, which have been found in the experiments and were hardly understood by the previous two-pathway kinetic competition model. (C) 2008 Elsevier Ltd. All rights reserved.
学科主题	Physics
URL标识	查看原文
WOS记录号	WOS:000255965600004
公开日期	2012-08-02
内容类型	期刊论文
源URL	[http://ir.itp.ac.cn/handle/311006/5535]
专题	理论物理研究所_理论物理所1978-2010年知识产出
通讯作者	Xue, XC , Tsinghua Univ, Ctr Adv Study, Beijing 100084, Peoples R China
推荐引用方式 GB/T 7714	Xue, Xiao-chuan,Liu, Fei,Ou-Yang, Zhong-can,et al. A kinetic model of transcription initiation by RNA polymerase[J]. JOURNAL OF MOLECULAR BIOLOGY,2008,378(3):520-529.
APA	Xue, Xiao-chuan,Liu, Fei,Ou-Yang, Zhong-can,&Xue, XC , Tsinghua Univ, Ctr Adv Study, Beijing 100084, Peoples R China.(2008).A kinetic model of transcription initiation by RNA polymerase.JOURNAL OF MOLECULAR BIOLOGY,378(3),520-529.
MLA	Xue, Xiao-chuan,et al."A kinetic model of transcription initiation by RNA polymerase".JOURNAL OF MOLECULAR BIOLOGY 378.3(2008):520-529.