ArticleProtein engineering, design & selection : PEDS2017
An update on the Enzyme Portal: an integrative approach for exploring enzyme knowledge.
Article in Protein engineering, design & selection : PEDS, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- Review
- Rhea, the reaction knowledgebase in 2022.Nucleic acids research · 2022Article
- Pathogenic variation types in human genes relate to diseases through Pfam and InterPro mapping.Frontiers in molecular biosciences · 2022Article
- BENZ WS: the Bologna ENZyme Web Server for four-level EC number annotation.Nucleic acids research · 2021Article
- BRENDA, the ELIXIR core data resource in 2021: new developments and updates.Nucleic acids research · 2021Article
- Updates in Rhea: SPARQLing biochemical reaction data.Nucleic acids research · 2019Article
- Plant Enzymes Decrease Prostate Cancer Cell Numbers and Increase TNF-International journal of food science · 2019Article
- Programmatic access to bioinformatics tools from EMBL-EBI update: 2017.Nucleic acids research · 2017Article
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Authors and funding
9 authors.
Funding
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Abstract
14: Enzymes are a key part of life processes and are increasingly important for various areas of research such as medicine, biotechnology, bioprocessing and drug research. The goal of the Enzyme Portal is to provide an interface to all European Bioinformatics Institute (EMBL-EBI) data about enzymes (de Matos, P., et al. , (2013), BMC Bioinformatics , (1), 103). These data include enzyme function, sequence features and family classification, protein structure, reactions, pathways, small molecules, diseases and the associated literature. The sources of enzyme data are: the UniProt Knowledgebase (UniProtKB) (UniProt Consortium, 2015), the Protein Data Bank in Europe (PDBe), (Valenkar, S., et al ., Nucleic Acids Res. 2016; , D385-D395) Rhea-a database of enzyme-catalysed reactions (Morgat, A., et al ., Nucleic Acids Res. 2015; , D459-D464), Reactome-a database of biochemical pathways (Fabregat, A., et al ., Nucleic Acids Res. 2016; , D481-D487), IntEnz-a resource with enzyme nomenclature information (Fleischmann, A., et al ., Nucleic Acids Res. 2004 , D434-D437) and ChEBI (Hastings, J., et al ., Nucleic Acids Res. 2013) and ChEMBL (Bento, A. P., et al ., Nucleic Acids Res. 2014 , 1083-1090)-resources which contain information about small-molecule chemistry and bioactivity. This article describes the redesign of Enzyme Portal and the increased functionality added to maximise integration and interpretation of these data. Use case examples of the Enzyme Portal and the versatile workflows its supports are illustrated. We welcome the suggestion of new resources for integration.
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