Bijvoet Centre for Biomolecular Research, Utrecht University, Utrecht, The Netherlands.
Program in Molecular Medicine, The Hospital for Sick Children, Toronto, Ontario, Canada.
Proteins. 2021 Mar;89(3):330-335. doi: 10.1002/prot.26018. Epub 2020 Nov 7.
The Protein Data Bank (PDB) file format remains a popular format used and supported by many software to represent coordinates of macromolecular structures. It however suffers from drawbacks such as error-prone manual editing. Because of that, various software toolkits have been developed to facilitate its editing and manipulation, but, to date, there is no online tool available for this purpose. Here we present PDB-Tools Web, a flexible online service for manipulating PDB files. It offers a rich and user-friendly graphical user interface that allows users to mix-and-match more than 40 individual tools from the pdb-tools suite. Those can be combined in a few clicks to perform complex pipelines, which can be saved and uploaded. The resulting processed PDB files can be visualized online and downloaded. The web server is freely available at https://wenmr.science.uu.nl/pdbtools.
蛋白质数据库 (PDB) 文件格式仍然是许多软件用于表示大分子结构坐标的流行格式。然而，它存在一些缺点，例如容易出错的手动编辑。因此，已经开发了各种软件工具包来方便其编辑和操作，但迄今为止，还没有为此目的提供在线工具。在这里，我们介绍 PDB-Tools Web，这是一个用于操作 PDB 文件的灵活在线服务。它提供了一个丰富且用户友好的图形用户界面，允许用户混合和匹配来自 pdb-tools 套件的 40 多个单独的工具。这些工具可以在几次点击中组合在一起，以执行复杂的管道，这些管道可以保存和上传。处理后的 PDB 文件可以在线可视化和下载。该网络服务器可在 https://wenmr.science.uu.nl/pdbtools 免费获得。
