Predicting the quaternary structure attribute of a protein by hybridizing functional domain composition and pseudo amino acid composition

被引:79
作者
Xiao, Xuan [1 ]
Wang, Pu [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
关键词
SUBCELLULAR LOCATION PREDICTION; COMPLEXITY MEASURE FACTOR; ENZYME SUBFAMILY CLASSES; SUPPORT VECTOR MACHINE; INFLUENZA-A VIRUS; ENSEMBLE CLASSIFIER; APOPTOSIS PROTEINS; MEMBRANE-PROTEIN; PHOSPHOLAMBAN PENTAMER; FUSION CLASSIFIER;
D O I
10.1107/S0021889809002751
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
In vivo, some proteins exist as monomers (single polypeptide chains) and others as oligomers. The latter are composed of two or more chains (subunits) that are associated with each other through noncovalent interactions and, occasionally, disulfide bonds. Oligomers can be further classified into homo-oligomers (formed by identical subunits) and hetero-oligomers (formed by different subunits), and they form the structural basis of various biological functions such as cooperative effects, the allosteric mechanism and ion-channel gating. Therefore, it would be of less interest or of low priority for crystallographic scientists to crystallize a single protein chain and determine its three-dimensional structure if it is already known as part of an oligomer. However, it is both time-consuming and laborious to acquire such information on the quaternary structure attribute purely by experiment. In particular, with the avalanche of protein sequences generated in the post-genomic age, it is highly desirable to develop an automated method by which crystallographic scientists can rapidly and effectively identify which quaternary attribute a particular protein chain has according to its sequence information. In view of this, a computational method has been developed by hybridizing the approaches of functional domain composition and pseudo amino acid composition. For the convenience of crystallographic scientists, a user-friendly web server, PQSA-Pred, has been established at http://218.65.61.89:8080/bioinfo/pqsa-pred, by which the desired information can be easily obtained.
引用
收藏
页码:169 / 173
页数:5
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