BRENDA in 2019: a European ELIXIR core data resource
By Lisa Jeske, S. Placzek, I. Schomburg, Antje Chang, Dietmar Schomburg. Nucleic Acids Res., 2018
354 citations recorded by the source corpus.
Abstract The BRENDA enzyme database (www.brenda-enzymes.org), recently appointed ELIXIR Core Data Resource, is the main enzyme and enzyme-ligand information system. The core database provides a comprehensive overview on enzymes. A collection of 4.3 million data for ∼84 000 enzymes manually evaluated and extracted from ∼140 000 primary literature references is combined with information obtained by text and data mining, data integration and prediction algorithms. Supplements comprise disease-related data, protein sequences, 3D structures, predicted enzyme locations and genome annotations. Major developments are a revised ligand summary page and the structure search now including a similarity and isomer search. BKMS-react, an integrated database containing known enzyme-catalyzed reactions, is supplemented with further reactions and improved access to pathway connections. In addition to existing enzyme word maps with graphical information of enzyme specific terms, plant word maps have been developed. They show a graphical overview of terms, e.g. enzyme or plant pathogen information, connected to specific plants. An organism summary page showing all relevant information, e.g. taxonomy and synonyms linked to enzyme data, was implemented. Based on a decision by the IUBMB enzyme task force the enzyme class EC 7 has been established for ‘translocases’, enzymes that catalyze a transport of ions or metabolites across cellular membranes.
Subfields: Molecular Biology, Pharmacology
View Paper: https://www.semanticscholar.org/paper/c1f40918851e899fbdc0cdffea9f162acab67210
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In Molecular Biology
- Maryam Bagherian
- Zaneta Nikolovska-Coleska
- Maria Sorokina
- Maureen A. Sartor
- Kayvan Najarian
- Christoph Steinbeck
- Dietmar Schomburg
- Kai Wang
In Pharmacology
Citations in the corpus
- Review on natural products databases: where to find data in 2020 (2020, background): “The BRENDA database [51] focuses on enzyme activities, but also contains the compounds involved in enzyme-catalyzed reactions, and this, covering most of all known domains of life.”
- BRENDA, the ELIXIR core data resource in 2021: new developments and updates (2020, background): “org/platforms/data/ core-data-resources) due to the fundamental importance to biological and biomedical research and long-term preservation of biological data (21).”
- Machine learning approaches and databases for prediction of drug–target interaction: a survey paper (2020, background): “They are BRENDA [283], PubChem [279], SuperDRUG2 [284], DrugCentral [285, 286], PDID [287], Pharos [288] and ECOdrug [289].”