The identification and quantification of highly stable 'common hairpin' in the dynamic process of co-transcriptional mRNA folding

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	The identification and quantification of highly stable 'common hairpin' in the dynamic process of co-transcriptional mRNA folding
	Zhou WW 1; Chen XF 1; Zhang KL 2; Liu CQ[*]1,2,3,4
刊名	JOURNAL OF MOLECULAR STRUCTURE:THEOCHEM
	2005
卷号	722 期号:1-3 页码:41-50
关键词	human mRNA dynamic folding common hairpin topologically stable structures
ISSN号	0166-1280
通讯作者	liucq@ynu.edu.cn
合作状况	其它
英文摘要	In our studies, 88 human mRNA samples were collected from the Integrated Sequence-Structure database and then the dynamic process in co-transcriptional mRNA folding was simulated using the RNAstructure version 4.1 program. Through statistical analyses of the frequencies of occurrence of hairpins, a group of special folding structures-the 'common hairpins'-were identified. These 'common hairpins' have lower energies and occur in all the subsequent folding units that formed in the dynamic folding process. By applying the formulas (1)-(4) of the 'common hairpins' statistical model, 163 'common hairpins' were found, to make up about 7% of the total of 2286 hairpins. Classified studies further show that the 'common hairpins' that were studied may oscillate in the dynamic folding process. However, the hairpin loops of the 'common hairpins' and stems proximal to those 'common hairpins' loops maintain topologically stable structures, while other loops and stems distal to the 'common hairpins' loops are shown to be alterable structures. Strikingly, further studies indicate that the stable structures of these 'common hairpins' may have unbeknown effects on controlling the formation of protein structures in the translation process (unpublished results).
资助信息	This work is supported by NSFC (Nature Science Fund of China, No. 90303018, and No. 90208018). We appreciate personnel of Modern Biological Research Center, Yunnan University for their previous works and help in experiments and literatures.
原文出处	200572241.pdf
公开日期	2010-08-24
内容类型	期刊论文
源URL	[http://159.226.149.42:8088/handle/152453/5343]
专题	昆明动物研究所_其他
作者单位	1.Department of Life Science, Modern Theoretical Biology Research Center, Yunnan University, Kunming 650091, People’s Republic of China 2.Center of Theoretical Biology, Peking University, Beijing 100871, People’s Republic of China 3.Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, People’s Republic of China 4.High-technological Academy, Dalian University of Technology, Dalian 116024, People’s Republic of China
推荐引用方式 GB/T 7714	Zhou WW,Chen XF,Zhang KL,et al. The identification and quantification of highly stable 'common hairpin' in the dynamic process of co-transcriptional mRNA folding[J]. JOURNAL OF MOLECULAR STRUCTURE:THEOCHEM,2005,722(1-3):41-50.
APA	Zhou WW,Chen XF,Zhang KL,&Liu CQ[*].(2005).The identification and quantification of highly stable 'common hairpin' in the dynamic process of co-transcriptional mRNA folding.JOURNAL OF MOLECULAR STRUCTURE:THEOCHEM,722(1-3),41-50.
MLA	Zhou WW,et al."The identification and quantification of highly stable 'common hairpin' in the dynamic process of co-transcriptional mRNA folding".JOURNAL OF MOLECULAR STRUCTURE:THEOCHEM 722.1-3(2005):41-50.