Nucleic Acids Res. 2020 Jan 8;48(D1):D344-D353. doi: 10.1093/nar/gkz853.
The Protein Data Bank in Europe-Knowledge Base (PDBe-KB, https://pdbe-kb.org) is a community-driven, collaborative resource for literature-derived, manually curated and computationally predicted structural and functional annotations of macromolecular structure data, contained in the Protein Data Bank (PDB). The goal of PDBe-KB is two-fold: (i) to increase the visibility and reduce the fragmentation of annotations contributed by specialist data resources, and to make these data more findable, accessible, interoperable and reusable (FAIR) and (ii) to place macromolecular structure data in their biological context, thus facilitating their use by the broader scientific community in fundamental and applied research. Here, we describe the guidelines of this collaborative effort, the current status of contributed data, and the PDBe-KB infrastructure, which includes the data exchange format, the deposition system for added value annotations, the distributable database containing the assembled data, and programmatic access endpoints. We also describe a series of novel web-pages-the PDBe-KB aggregated views of structure data-which combine information on macromolecular structures from many PDB entries. We have recently released the first set of pages in this series, which provide an overview of available structural and functional information for a protein of interest, referenced by a UniProtKB accession.
欧洲蛋白质数据库知识库（PDBe-KB，https://pdbe-kb.org）是一个社区驱动的、协作的资源，用于存储文献衍生的、手动注释和计算预测的大分子结构数据的结构和功能注释，这些数据包含在蛋白质数据库（PDB）中。PDBe-KB 的目标有两个：(i) 提高注释的可见度，减少专门数据资源的碎片化，并使这些数据更易于查找、访问、互操作和重用（FAIR）；(ii) 将大分子结构数据置于其生物学背景下，从而促进更广泛的科学界在基础和应用研究中使用这些数据。在这里，我们描述了这种协作努力的指导方针、目前贡献的数据状态以及 PDBe-KB 的基础设施，其中包括数据交换格式、添加价值注释的存储系统、包含组装数据的可分发数据库以及编程访问端点。我们还描述了一系列新的网页——PDBe-KB 结构数据聚合视图，这些网页结合了来自许多 PDB 条目关于大分子结构的信息。我们最近发布了这个系列的第一批网页，这些网页为特定 UniProtKB 访问号引用的感兴趣蛋白质提供了可用结构和功能信息的概述。
