济南市1例输入性奥密克戎毒株刺突糖蛋白结构和功能的生物信息学分析

Bioinformatics analysis of the structure and function of spike glycoprotein in an imported Omicron variant in Jinan city

目的分析新冠病毒奥密克戎变异株刺突糖蛋白的结构和功能,为疫苗研发提供数据。方法对济南市1例输入性新冠病毒奥密克戎毒株,采用二代测序技术进行全基因组测序,分析刺突糖蛋白基因序列;用生物信息学方法分析刺突糖蛋白氨基酸组成、理化性质、跨膜结构、磷酸化修饰、糖基化修饰、结构域和B细胞抗原表位等生物学特性。结果测序获得1株输入性新冠病毒全基因组序列,基因组全长29847 nt,毒株基因型为XBB.1.16.1;其刺突糖蛋白由1269个氨基酸组成,存在1个跨膜螺旋区,主要分布于宿主细胞的内质网和细胞质膜中;有134个磷酸化位点、23个糖基化位点,3个蛋白结构域和11个可能的B细胞抗原表位,蛋白二级结构主要由无规则卷曲组成。结论采用生物信息学方法分析奥密克戎变异株刺突糖蛋白结构与功能,为了解刺突糖蛋白生物学信息提供数据。

Objective To analyze the structure and function of the spike glycoprotein of an SARS-CoV-2 Omicron variant,to provide data for vaccine development.Methods The whole genome was sequenced by the next-generation sequencing of 1 case imported Omicron variant in Jinan city,the sequence of spike glycoprotein gene was analyzed.The amino acid composition,physicochemical properties,transmembrane structure,phosphorylation modification,glycosylation modification,domain and B cell epitope were analyzed by the bioinformatics methods.Results The whole genome sequence with 29847 nt was obtained,the strain was Omicron XBB.1.16.1 variant.The spike glycoprotein was composed of 1269 amino acids,with one transmembrane helix region,was distributed mainly in the endoplasmic reticulum membrance and plasma membrane of host cell.This protein had 134 potential phosphorylation sites,23 possible glycosylation sites,3 conserved domains and 11 copies of B cell antigen epitope.The secondary structure of the spike glycoprotein was mainly consisted random coils.Conclusion The structure and function of the spike glycoprotein of Omicron variant were analyzed by the bioinformatics methods,which provided an important data for understanding the biological functions of the spike glycoprotein.