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

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State: Public
Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_8AF1FE2C8116
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
3D-Beacons: decreasing the gap between protein sequences and structures through a federated network of protein structure data resources.
Journal
GigaScience
Author(s)
Varadi M., Nair S., Sillitoe I., Tauriello G., Anyango S., Bienert S., Borges C., Deshpande M., Green T., Hassabis D., Hatos A., Hegedus T., Hekkelman M.L., Joosten R., Jumper J., Laydon A., Molodenskiy D., Piovesan D., Salladini E., Salzberg S.L., Sommer M.J., Steinegger M., Suhajda E., Svergun D., Tenorio-Ku L., Tosatto S., Tunyasuvunakool K., Waterhouse A.M., Žídek A., Schwede T., Orengo C., Velankar S.
ISSN
2047-217X (Electronic)
ISSN-L
2047-217X
Publication state
Published
Issued date
30/11/2022
Peer-reviewed
Oui
Volume
11
Pages
giac118
Language
english
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't
Publication Status: ppublish
Abstract
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.
Keywords
Amino Acid Sequence, Databases, Protein, Computer Simulation, Metadata, Records, bioinformatics, experimentally determined structures computationally predicted structures, federated data network, structural biology
Pubmed
Open Access
Yes
Create date
13/12/2022 9:50
Last modification date
23/01/2024 8:29
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