基于特征片段信息的PH domain-like barrel 蛋白质折叠类型分类方法  

A method of PH domain-like barrel protein fold classification based on characteristic fragments

作　　者：孔令强[1] 李晓琴[1] 

机构地区：[1]北京工业大学生命科学与生物工程学院,北京100124

出　　处：《生物信息学》2012年第2期125-129,共5页Chinese Journal of Bioinformatics

基　　金：北京市自然科学基金(4112010;KM201110005027)资助项目

摘　　要：蛋白质折叠类型分类是蛋白质分类研究的重要内容。以SCOP数据库中的 PH domain-like barrel 折叠类型为研究对象,选择序列相似度小于25%的61个样本为检验集,通过结构特征分析,确定了该折叠类型的模板及其对应的特征参数,利用模板与待测蛋白的空间结构比对信息,提出了一个新的折叠类型打分函数Fscore,建立了基于Fscore的蛋白质折叠类型分类方法并用于该折叠类型的分类。用此方法对Astral1.75中序列相似度小于95%的16711个样本进行检验,分类结果的特异性为99.97%。结果表明:特征参数抓住了折叠类型的本质,打分函数Fscore及基于Fscore建立的分类方法可用于 PH domain-like barrel 蛋白质折叠类型自动分类。Folding is an important issue for protein classification. Based on the classification of SCOP1.75, 61 proteins （ 〈25% sequence identity） of PH domain-like barrel are selected, we get the template of folding types and the corresponding characteristic parameters by analysing the structure. Using the contrast information between the template and the spatial structure of the test proteins, this paper presents a new scoring function Fscore. Establishes a protein folding type classification method based on Fscore and applies it to this folding type classification. In Astrall. 75 database, we select 16712 proteins （ 〈95% sequence identity） as the testing sample, the sensitivity is 99.97%. The result indicates that characteristic parameters describe the nature of the folding type, the scoring function Fscore and the classification method based on Fscore can be used for automatic classification of PH domain -like barrel protein folding type.

关 键 词：折叠类型 标准模板 打分函数 折叠类型分类 

分 类 号：O641[理学—物理化学]