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PDB-Tools Web: A user-friendly interface for the manipulation of PDB files
  • +2
  • Brian Jimenez-Garcia,
  • João Teixeira,
  • Mikael Trellet,
  • João Rodrigues,
  • Alexandre M.J.J. Bonvin
Brian Jimenez-Garcia
Utrecht University Faculty of Science

Corresponding Author:[email protected]

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João Teixeira
The Hospital for Sick Children
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Mikael Trellet
Utrecht University Faculty of Science
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João Rodrigues
Stanford University School of Medicine
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Alexandre M.J.J. Bonvin
Utrecht University Faculty of Science
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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.
03 Aug 2020Submitted to PROTEINS: Structure, Function, and Bioinformatics
05 Aug 2020Submission Checks Completed
05 Aug 2020Assigned to Editor
13 Sep 2020Reviewer(s) Assigned
17 Oct 2020Review(s) Completed, Editorial Evaluation Pending
17 Oct 2020Editorial Decision: Revise Minor
20 Oct 20201st Revision Received
26 Oct 2020Submission Checks Completed
26 Oct 2020Assigned to Editor
26 Oct 2020Editorial Decision: Accept