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DBCOVP: A database of coronavirus virulent glycoproteins
Computers in Biology and Medicine ( IF 7.7 ) Pub Date : 2020-11-21 , DOI: 10.1016/j.compbiomed.2020.104131
Susrita Sahoo 1 , Soumya Ranjan Mahapatra 1 , Bikram Kumar Parida 2 , Satyajit Rath 2 , Budheswar Dehury 1 , Vishakha Raina 1 , Nirmal Kumar Mohakud 3 , Namrata Misra 4 , Mrutyunjay Suar 4
Affiliation  

Since the emergence of SARS‐CoV-1 (2002), novel coronaviruses have emerged periodically like the MERS‐ CoV (2012) and now, the SARS‐CoV-2 outbreak which has posed a global threat to public health. Although, this is the third zoonotic coronavirus breakout within the last two decades, there are only a few platforms that provide information about coronavirus genomes. None of them is specific for the virulence glycoproteins and complete sequence-structural features of these virulence factors across the betacoronavirus family including SARS-CoV-2 strains are lacking. Against this backdrop, we present DBCOVP (http://covp.immt.res.in/), the first manually-curated, web-based resource to provide extensive information on the complete repertoire of structural virulent glycoproteins from coronavirus genomes belonging to betacoronavirus genera. The database provides various sequence-structural properties in which users can browse and analyze information in different ways. Furthermore, many conserved T-cell and B-cell epitopes predicted for each protein are present that may perform a significant role in eliciting the humoral and cellular immune response. The tertiary structure of the epitopes together with the docked epitope-HLA binding-complex is made available to facilitate further analysis. DBCOVP presents an easy-to-use interface with in-built tools for similarity search, cross-genome comparison, phylogenetic, and multiple sequence alignment. DBCOVP will certainly be an important resource for experimental biologists engaged in coronavirus research studies and will aid in vaccine development.



中文翻译:

DBCOVP:冠状病毒毒力糖蛋白数据库

自 SARS-CoV-1(2002 年)出现以来,新型冠状病毒像 MERS-CoV(2012 年)一样定期出现,现在 SARS-CoV-2 的爆发对全球公共卫生构成了威胁。尽管这是过去二十年来第三次人畜共患冠状病毒爆发,但只有少数平台提供有关冠状病毒基因组的信息。它们都不是毒力糖蛋白的特异性,并且缺乏包括 SARS-CoV-2 毒株在内的 β 冠状病毒家族中这些毒力因子的完整序列结构特征。在此背景下,我们推出了 DBCOVP (http://covp.immt.res.in/),这是第一个手动策划的基于网络的资源,提供有关来自属于 β 冠状病毒的冠状病毒基因组的结构毒力糖蛋白的完整信息属。该数据库提供了各种序列结构属性,用户可以通过不同的方式浏览和分析信息。此外,每种蛋白质预测的许多保守的 T 细胞和 B 细胞表位都存在,它们可能在引发体液和细胞免疫反应中发挥重要作用。表位的三级结构以及对接的表位-HLA 结合复合物可用于进一步分析。DBCOVP 提供了一个易于使用的界面,带有用于相似性搜索、跨基因组比较、系统发育和多序列比对的内置工具。DBCOVP 无疑将成为从事冠状病毒研究的实验生物学家的重要资源,并将有助于疫苗的开发。

更新日期:2020-12-02
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