INB/ELIXIR Spain upgrades 3DBionotes tool COVID-19 edition

3DBionotes-Covid19 application logo

After a couple of months from the 3DBIONOTES-COVID19 tool first release, there has been made a new update to the dedicated website to collect all available SARS-CoV-2 virus structural data: https://3dbionotes.cnb.csic.es/ws/covid19

The Spanish National Centre for Biotechnology (CNB-CSIC), part of the INB/ELIXIR-ES, is now presenting an upgrade with very interesting new features. They have made a huge effort to improve performance, consolidate data and refactor code, although not all changes are visually evident from the outside.

3DBionotes' new features snapshoot
Fig.1: 3DBionotes includes a new way to move around by clicking directly on the label of the protein of interest in the new hyper realistic infographics. Also, the Ligands Interactions panel features new filters for the type of screening/repurposing experiment and binding pocket.

 

New Features

  • New hyper realistic infographics representing a virus used as a map index. Users can click on a protein label and will be directed to the corresponding section.
  • Added computational models from various sources: SwissModel, AlphaFold & BSM-Arc. These are especially useful for those proteins with missing experimental models.
  • New Ligand interactions section including results from experimental and computational drug screening & repurposing, one of them from our group to be published in short.
  • New filters for Ligand interactions enabling selection by experiment and interaction pocket.

Updates

  • Improved loading for validated models from PDB-Redo and Isolde.
  • Updated help and documentation.

 

The 3DBIONOTES Application Programming Interface (API) is an ELIXIR Recommended Interoperability Resource. This reusable platform-independent is key to gene metadata alignment, annotation, and integration across major bioinformatics data resources.

The Biocomputing Unit of the CNB-CSIC in Madrid hosts the 3DBIONOTES-COVID19 under the leadership of Prof José María Carazo and Dr Carlos Óscar Sánchez Sorzano, and in cooperation with INB/ELIXIR-ES and Instruct-ERIC (Instruct Image Processing Centre).

 

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