Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China.
School of Medicine, Guizhou University, Guiyang 550025, China.
Database (Oxford). 2019 Jan 1;2019. doi: 10.1093/database/baz093.
Clustered regularly interspaced short palindromic repeats (CRISPR) and associated proteins (Cas) constitute CRISPR-Cas systems, which are antiphage immune systems present in numerous bacterial and most archaeal species. In recent years, CRISPR-Cas systems have been developed into reliable and powerful genome editing tools. Nevertheless, finding similar or better tools from bacteria or archaea remains crucial. This requires the exploration of different CRISPR systems, identification and characterization new Cas proteins. Archives tailored for Cas proteins are urgently needed and necessitate the prediction and grouping of Cas proteins into an information center with all available experimental evidence. Here, we constructed Cas Protein Data Bank (CasPDB), an integrated and annotated online database for Cas proteins from bacteria and archaea. The CasPDB database contains 287 reviewed Cas proteins, 257 745 putative Cas proteins and 3593 Cas operons from 32 023 bacteria species and 1802 archaea species. The database can be freely browsed and searched. The CasPDB web interface also represents all the 3593 putative Cas operons and its components. Among these operons, 328 are members of the type II CRISPR-Cas system.
成簇规律间隔短回文重复序列（CRISPR）及其相关蛋白（Cas）构成 CRISPR-Cas 系统，该系统是存在于许多细菌和大多数古菌中的抗噬菌体免疫防御系统。近年来，CRISPR-Cas 系统已发展成为可靠且强大的基因组编辑工具。然而，从细菌或古菌中寻找类似或更好的工具仍然至关重要。这需要探索不同的 CRISPR 系统，鉴定和表征新的 Cas 蛋白。Cas 蛋白专用档案库亟待建立，这需要基于所有现有实验证据，对 Cas 蛋白进行预测和分组，建立一个信息中心。在这里，我们构建了 Cas 蛋白数据库（CasPDB），这是一个整合的、注释的细菌和古菌 Cas 蛋白在线数据库。CasPDB 数据库包含 287 个经过审查的 Cas 蛋白、257745 个假定的 Cas 蛋白和 3593 个 Cas 操纵子，分别来自 32023 个细菌物种和 1802 个古菌物种。该数据库可自由浏览和搜索。CasPDB 网页界面还展示了所有 3593 个假定的 Cas 操纵子及其组件。在这些操纵子中，有 328 个是 II 型 CRISPR-Cas 系统的成员。
