3D-Beacons: decreasing the gap between protein sequences and structures through a federated network of protein structure data resources

Varadi, Mihaly and Nair, Sreenath and Sillitoe, Ian and Tauriello, Gerardo and Anyango, Stephen and Bienert, Stefan and Borges, Clemente and Deshpande, Mandar and Green, Tim and Hassabis, Demis and Hatos, Andras and Hegedus, Tamas and Hekkelman, Maarten L. and Joosten, Robbie and Jumper, John and Laydon, Agata and Molodenskiy, Dmitry and Piovesan, Damiano and Salladini, Edoardo and Salzberg, Steven L. and Sommer, Markus J. and Steinegger, Martin and Suhajda, Erzsebet and Svergun, Dmitri and Tenorio-Ku, Luiggi and Tosatto, Silvio and Tunyasuvunakool, Kathryn and Waterhouse, Andrew Mark and Schwede, Torsten and Orengo, Christine and Velankar, Sameer. (2022) 3D-Beacons: decreasing the gap between protein sequences and structures through a federated network of protein structure data resources. GigaScience, 11. giac118.

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Official URL: https://edoc.unibas.ch/93047/

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While scientists can often infer the biological function of proteins from their 3-dimensional quaternary structures, the gap between the number of known protein sequences and their experimentally determined structures keeps increasing. A potential solution to this problem is presented by ever more sophisticated computational protein modeling approaches. While often powerful on their own, most methods have strengths and weaknesses. Therefore, it benefits researchers to examine models from various model providers and perform comparative analysis to identify what models can best address their specific use cases. To make data from a large array of model providers more easily accessible to the broader scientific community, we established 3D-Beacons, a collaborative initiative to create a federated network with unified data access mechanisms. The 3D-Beacons Network allows researchers to collate coordinate files and metadata for experimentally determined and theoretical protein models from state-of-the-art and specialist model providers and also from the Protein Data Bank.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Computational & Systems Biology > Bioinformatics (Schwede)
UniBasel Contributors:Schwede, Torsten and Tauriello, Gerardo and Bienert, Stefan and Waterhouse, Andrew
Item Type:Article, refereed
Article Subtype:Research Article
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:25 Jan 2023 10:23
Deposited On:25 Jan 2023 10:23

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