猪水疱病病毒外壳蛋白的二级结构和抗原表位预测

Prediction of Secondary Structure and B Cell Epitope for Capsid Protein of SVDV

以SVDV外壳蛋白基因序列为基础,采用Chou-Fasman法、Garnier-Robson法和KarplusSchulz法预测蛋白质的二级结构。按KyteDoolittle方案、Emini方案和JamesonWolf方案预测SVDV外壳蛋白的B细胞表位。预测结果表明,SVDV外壳蛋白的二级结构较为复杂,含有较多的转角和无规则卷曲等柔性区域以及α螺旋和β折叠区段;SVDV外壳蛋白的VP1、VP2和VP3上均有多个区域为B细胞优势表位,其中VP1蛋白的B细胞表位优势区域比VP2和VP3蛋白的多,与已鉴定的B细胞表位相比较,该方法预测的结果有较高的准确度。为实验确定SVDV外壳蛋白的B细胞表位和反向疫苗学设计提供了理论基础。

The secondary structure of Capsid protein was predicted by the methods of Chou-Fasman, Garnier-Robson and Karplus-Schuhz based on the sepuence of capsid protein gene of Swine Vesicular Disease Virus （SVDV） and hydrophilicity. Surface probility plot and antigenic index for capsid protein were obtained by the methods of Kyte-Doolittle, Emini and Jameson-wolf, respectively, Combining the results according to these methods, the B cell epitopes for capsid protein of SVDV were predicted. The results showed that there are much flexible region such as coil region and turn region in capsid protein of SVDV, there are more predominant B cell epitopes in VP1 than in VP2 and VP3. This study would be helpful for identification of B cell epitopes for capsid protein using experimental methods and research of reverse vaccine of SVDV.