SARS-CoV-2, the etiologic agent behind COVID-19, exemplifies the general threat to global health posed by coronaviruses. The urgent need for effective vaccines and therapies is leading to a rapid rise in the number of high resolution structures of SARS-CoV-2 proteins that collectively reveal a map of virus vulnerabilities. To assist structure-based design of vaccines and therapeutics against SARS-CoV-2 and other coronaviruses, we have developed CoV3D, a database and resource for coronavirus protein structures, which is updated on a weekly basis. CoV3D provides users with comprehensive sets of structures of coronavirus proteins and their complexes with antibodies, receptors, and small molecules. Integrated molecular viewers allow users to visualize structures of the spike glycoprotein, which is the major target of neutralizing antibodies and vaccine design efforts, as well as sets of spike-antibody complexes, spike sequence variability, and known polymorphisms. In order to aid structure-based design and analysis of the spike glycoprotein, CoV3D permits visualization and download of spike structures with modeled N-glycosylation at known glycan sites, and contains structure-based classification of spike conformations, generated by unsupervised clustering. CoV3D can serve the research community as a centralized reference and resource for spike and other coronavirus protein structures, and is available at: https://cov3d.ibbr.umd.edu.

中文翻译：

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CoV3D：高分辨率冠状病毒蛋白质结构数据库。

SARS-CoV-2 是 COVID-19 背后的病原体，它体现了冠状病毒对全球健康构成的普遍威胁。对有效疫苗和疗法的迫切需求导致 SARS-CoV-2 蛋白的高分辨率结构数量迅速增加，这些结构共同揭示了病毒脆弱性的地图。为了协助针对 SARS-CoV-2 和其他冠状病毒的疫苗和治疗剂的基于结构的设计，我们开发了 CoV3D，这是一个冠状病毒蛋白质结构的数据库和资源，每周更新一次。CoV3D 为用户提供全面的冠状病毒蛋白结构集及其与抗体、受体和小分子的复合物。集成的分子查看器允许用户可视化刺突糖蛋白的结构，这是中和抗体和疫苗设计工作的主要目标，以及刺突抗体复合物、刺突序列变异性和已知多态性的主要目标。为了帮助对刺突糖蛋白进行基于结构的设计和分析，CoV3D 允许在已知聚糖位点通过建模的 N-糖基化来可视化和下载刺突结构，并包含由无监督聚类生成的刺突构象基于结构的分类。CoV3D 可以作为刺突和其他冠状病毒蛋白结构的集中参考和资源服务于研究界，可在以下网址获得：https://cov3d.ibbr.umd.edu。CoV3D 允许可视化和下载已知聚糖位点具有建模 N-糖基化的尖峰结构，并包含由无监督聚类生成的基于结构的尖峰构象分类。CoV3D 可以作为刺突和其他冠状病毒蛋白结构的集中参考和资源服务于研究界，可在以下网址获得：https://cov3d.ibbr.umd.edu。CoV3D 允许可视化和下载已知聚糖位点具有建模 N-糖基化的尖峰结构，并包含由无监督聚类生成的基于结构的尖峰构象分类。CoV3D 可以作为刺突和其他冠状病毒蛋白结构的集中参考和资源服务于研究界，可在以下网址获得：https://cov3d.ibbr.umd.edu。