膜蛋白跨膜区段的预测分析

高等学校化学学报 ›› 2004, Vol. 25 ›› Issue (5): 831.

膜蛋白跨膜区段的预测分析

邱建丁^1,2, 梁汝萍^1,2, 谭学才¹, 邹小勇¹

1. 中山大学化学与化学工程学院, 广州 510275;
2. 萍乡高等专科学校化工系, 萍乡 337055;
3. 湖南大学化学生物传感与计量学国家重点实验室, 长沙 410082

收稿日期:2003-06-13 出版日期:2004-05-24 发布日期:2004-05-24
通讯作者: 邹小勇(1964年出生),男,博士,副教授,从事化学计量学和电分析化学研究.E-mail:ceszxy@zsu.edu.cn E-mail:ceszxy@zsu.edu.cn
基金资助:
国家自然科学基金(批准号:29975033);广东省自然科学基金(批准号:001237和031577)资助

Analysis and Prediction of Protein Transmembrane Helical Regions

QIU Jian-Ding^1,2, LIANG Ru-Ping^1,2, TAN Xue-Cai¹, ZOU Xiao-Yong¹

1. School of Chemistry and Chemical Engineering, Sun Yat-sen University, Guangzhou 510275, China;
2. Department of Chemical Engineering, Pingxiang College, Pingxiang 337055, China;
3. State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha 410082, China

Received:2003-06-13 Online:2004-05-24 Published:2004-05-24

摘要/Abstract

摘要： 将连续小波变换技术的时频局部化特点和氨基酸的疏水特性相结合,提出了一种用于预测膜蛋白跨膜区段数目和位置的新方法,以代码为1YST的膜蛋白为例,对小波尺度和疏水值的种类进行了选择,同时描述了该法对跨膜螺旋区数目和位置的预测分析过程.从膜蛋白数据库中随机抽取36个蛋白质(含跨膜螺旋区232)作为测试集,采用该方法对其跨膜螺旋区进行预测,其中222个跨膜螺旋区能被准确预测,准确率为96.1%.结果表明,该法具有较高的预测准确性.

关键词: 连续小波变换, 跨膜螺旋区, 疏水性, 预测

Abstract: Membrane protein is a kind of especial protein in its structure, which is of vital importance for living cells and play a role in communication and in the transport of the cells with the outside world. Due to difficulties of experimental techniques, only a handful of membrane proteins have been characterized. Therefore, theoretical prediction methods are important for structure determination of this class of proteins. In this paper, a new method based on the combining of the continuous wavelet transform(CWT) with the hydrophobicity of amino acids is introduced to predict the number and locations of helices in membrane proteins. 1YST is chosen from the protein database as an example to describe the prediction of the number and locations of helices in membrane proteins by using this method. The performance and factors influencing the predicted results are studied in detail. To further investigate the feasibility of this method, we randomly choose 36 proteins from protein database asthe test objects, there are 232 transmembrane helices(HTM), 222 of them can be predicted accurately, the average predicted accuracy is 96.1%, which indicates that this method is an efficient tool to predict the HTM of proteins.

Key words: Continuous wavelet transform, Transmembrane helices rigion, Hydrophobicity, Prediction

中图分类号:

O657

TrendMD:

邱建丁, 梁汝萍, 谭学才, 邹小勇, 莫金垣. 膜蛋白跨膜区段的预测分析. 高等学校化学学报, 2004, 25(5): 831.

QIU Jian-Ding, LIANG Ru-Ping, TAN Xue-Cai, ZOU Xiao-Yong, MO Jin-Yuan . Analysis and Prediction of Protein Transmembrane Helical Regions. Chem. J. Chinese Universities, 2004, 25(5): 831.

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