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Xue, Xiao-chuan; Liu, Fei; Ou-Yang, Zhong-can; Xue, XC , Tsinghua Univ, Ctr Adv Study, Beijing 100084, Peoples R China
A kinetic model of transcription initiation by RNA polymerase
Source PublicationJOURNAL OF MOLECULAR BIOLOGY
KeywordSingle-molecule Analysis Escherichia-coli Abortive Initiation Promoter Clearance In-vitro Elongation Complex Bubble Collapse Dna Escape Mechanism
AbstractWe 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.
2008
ISSN0022-2836
Volume378Issue:3Pages:520-529
Subject AreaPhysics
Indexed BySCI
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Cited Times:7[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.itp.ac.cn/handle/311006/5535
Collection理论物理所科研产出_SCI论文
Corresponding AuthorXue, XC , Tsinghua Univ, Ctr Adv Study, Beijing 100084, Peoples R China
Recommended Citation
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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