Prediction of protein structural classes by a new measure of information discrepancy

doi:10.1016/S1476-9271(02)00087-7

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	Prediction of protein structural classes by a new measure of information discrepancy
	Jin, LX ; Fang, WW ; Tanga, HW
	2003-07-01
发表期刊	COMPUTATIONAL BIOLOGY AND CHEMISTRY
ISSN	1476-9271
卷号	27 期号:3 页码:373-380
摘要	Since it was observed that the structural class of a protein is related to its amino acid composition, various methods based on amino acid composition have been proposed to predict protein structural classes. Though those methods are effective to some degree, their predictive quality is confined because amino acid composition cannot sufficiently include the information of protein sequences. In this paper, a measure of information discrepancy is applied to the prediction of protein structural classes; different from the previous methods, this new approach is based on the comparisons of subsequence distributions; therefore, the effect of residue order on protein structure is taken into account. The predictive results of the new approach on the same data set are better than those of the previous methods. As to a data set of 1401 sequences with no more than 30% redundancy, the overall correctness rates of resubstitution test and Jackknife test are 99.4 and 75.02%, respectively, and to other data sets the similar results are also obtained. All tests demonstrate that the residue order along protein sequences plays an important role on recognition of protein structural classes, especially for alpha/beta proteins and alpha+beta proteins. In addition, the tests also show that the new method is simple and efficient. (C) 2002 Elsevier Science Ltd. All rights reserved.
关键词	protein structural class FDOD measure amino acid composition subsequence distribution
DOI	10.1016/S1476-9271(02)00087-7
语种	英语
WOS研究方向	Life Sciences & Biomedicine - Other Topics ; Computer Science
WOS类目	Biology ; Computer Science, Interdisciplinary Applications
WOS记录号	WOS:000185633200020
出版者	ELSEVIER SCI LTD
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/18858
专题	中国科学院数学与系统科学研究院
通讯作者	Fang, WW
作者单位	1.Chinese Acad Sci, Inst Appl Math, Beijing 100080, Peoples R China 2.Dalian Univ Technol, Inst Computat Biol & Bioinformat, Dalian 116025, Peoples R China
推荐引用方式 GB/T 7714	Jin, LX,Fang, WW,Tanga, HW. Prediction of protein structural classes by a new measure of information discrepancy[J]. COMPUTATIONAL BIOLOGY AND CHEMISTRY,2003,27(3):373-380.
APA	Jin, LX,Fang, WW,&Tanga, HW.(2003).Prediction of protein structural classes by a new measure of information discrepancy.COMPUTATIONAL BIOLOGY AND CHEMISTRY,27(3),373-380.
MLA	Jin, LX,et al."Prediction of protein structural classes by a new measure of information discrepancy".COMPUTATIONAL BIOLOGY AND CHEMISTRY 27.3(2003):373-380.