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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
2008
发表期刊JOURNAL OF MOLECULAR BIOLOGY
ISSN0022-2836
卷号378期号:3页码:520-529
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.
部门归属[Xue, XC; Liu, F; Ou-Yang, ZC] Tsinghua Univ, Ctr Adv Study, Beijing 100084, Peoples R China; [Ou-Yang, ZC] Chinese Acad Sci, Inst Theoret Phys, Beijing 100080, Peoples R China
关键词Single-molecule Analysis Escherichia-coli Abortive Initiation Promoter Clearance In-vitro Elongation Complex Bubble Collapse Dna Escape Mechanism
学科领域Physics
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收录类别SCI
WOS记录号WOS:000255965600004
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被引频次:6[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.itp.ac.cn/handle/311006/5535
专题1978-2010年知识产出
通讯作者Xue, XC , Tsinghua Univ, Ctr Adv Study, Beijing 100084, Peoples R China
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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.
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