Digital coding of amino acids based on hydrophobic index

被引：107

作者：

Xiao, Xuan ^{[1
]}

Chou, Kuo-Chen ^{[2
]}

机构：

[1] Jing De Zhen Ceram Inst, Dept Comp, Jing De Zhen 33300, Peoples R China

[2] Gordon Life Sci Inst, San Diego, CA 92130 USA

来源：

PROTEIN AND PEPTIDE LETTERS | 2007年 / 14卷 / 09期

关键词：

amino acid digital coding; hydrophobic index; sequence analysis; signal process; pseudo amino acid composition;

D O I：

10.2174/092986607782110293

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Analysis of amino acid sequences can provide useful insights into the tertiary structures of proteins and their biological functions. One of the critical problems in amino acid analysis is how to establish a digital coding system to better reflect the properties of amino acids and their degeneracy. Based on the hydrophobic index, a one-to-one relationship has been established between the amino acid sequence and the digital signal process. Such a "bridge" will make it possible to apply all the existing powerful methods in the signal processing area to analysis of the amino acid sequences.

引用

页码：871 / 875

页数：5

共 56 条

[1] SECONDARY STRUCTURE PREDICTION - COMBINATION OF 3 DIFFERENT METHODS [J].

BIOU, V ;

GIBRAT, JF ;

LEVIN, JM ;

ROBSON, B ;

GARNIER, J .

PROTEIN ENGINEERING, 1988, 2 (03) :185-191

[2] Prediction of protein (domain) structural classes based on amino-acid index [J].

Bu, WS ;

Feng, ZP ;

Zhang, ZD ;

Zhang, CT .

EUROPEAN JOURNAL OF BIOCHEMISTRY, 1999, 266 (03) :1043-1049

[3] Using pseudo-amino acid composition and support vector machine to predict protein structural class [J].

Chen, Chao ;

Tian, Yuan-Xin ;

Zou, Xiao-Yong ;

Cai, Pei-Xiang ;

Mo, Jin-Yuan .

JOURNAL OF THEORETICAL BIOLOGY, 2006, 243 (03) :444-448

[4] Prediction of the subcellular location of apoptosis proteins [J].

Chen, Ying-Li ;

Li, Qian-Zhong .

JOURNAL OF THEORETICAL BIOLOGY, 2007, 245 (04) :775-783

[5] Prediction of protease types in a hybridization space [J].

Chou, KC ;

Cai, YD .

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 2006, 339 (03) :1015-1020

[6] Prediction of G-protein-coupled receptor classes [J].

Chou, KC .

JOURNAL OF PROTEOME RESEARCH, 2005, 4 (04) :1413-1418

[7] Prediction of membrane protein types by incorporating amphipathic effects [J].

Chou, KC ;

Cai, YD .

JOURNAL OF CHEMICAL INFORMATION AND MODELING, 2005, 45 (02) :407-413

[8] Using amphiphilic pseudo amino acid composition to predict enzyme subfamily classes [J].

Chou, KC .

BIOINFORMATICS, 2005, 21 (01) :10-19

[9] Predicting enzyme family class in a hybridization space [J].

Chou, KC ;

Cai, YD .

PROTEIN SCIENCE, 2004, 13 (11) :2857-2863

[10] Structural bioinformatics and its impact to biomedical science [J].

Chou, KC .

CURRENT MEDICINAL CHEMISTRY, 2004, 11 (16) :2105-2134

← 1 2 3 4 5 6 →