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BRENDA


NAR Molecular Biology Database Collection entry number 421
Chang, A., Scheer, M., Grote, A., Schomburg, I., and Schomburg, D.
Technical University Braunschweig, Institute for Bioinformatics and Biochemistry, Langer Kamp 19 B, 38106 Braunschweig, Germany.

Database Description

The BRENDA enzyme information system, (http://www.brenda-enzymes.org) is an encyclopedia and a tool collection covering biochemical and molecular properties on all classified enzymes. The data are linked to the original organism and, where available, to the sequence of the protein. The data are manually curated from primary literature covering the occurrence, preparation, structure, function and application of enzymes as well as properties of mutants and engineered variants.
Intuitive query forms offer a quick direct search in one of the ~50 datafields and thus a fast and straightforward access to the data. Furthermore, the advanced search option allows the combination of up to 20 query parameters and a search via the EC number classification tree or the NCBI taxonomy tree is possible. The Genome Explorer enables access to the data highlighting the genetic environment of enzyme genes. Finally, the enzyme-ligand section of the database provides a chemical substructure search and a thesaurus for ligand names.
AMENDA (Automatic Mining of ENzyme DAta) and FRENDA (Full Reference ENzyme DAta) are supplements to BRENDA. Both databases contain a large amount of enzyme data which are automatically extracted from ~18 million PubMed abstracts (U.S. National Library of Medicine) using modern text-mining procedures based on co-occurrence approaches. FRENDA aims at providing an exhaustive collection of literature references containing organism-specific enzyme information. AMENDA constitutes a subset of FRENDA focussing on enzyme data specific to a certain source tissue, cellular component or organism. The use of AMENDA and FRENDA is free for the academic community.

Acknowledgements

The work for the database is supported by the European Union (FELICS, Free European Life-Science Information and Computational Services)

References

1. Schomburg, I., Chang, A., Ebeling, C., Gremse, M., Heldt, C., Huhn, G., and Schomburg, D. (2004) BRENDA, the enzyme database: updates and major new developments. Nucleic Acids Res., 32 (Database issue), D431-433.
2. Barthelmes, J., Ebeling, C., Chang, A., Schomburg, I., and Schomburg, D. (2007) BRENDA, AMENDA and FRENDA: the enzyme information system in 2007. Nucleic Acids Res., 35 (Database issue), D511-D514.


Go to the abstract in the NAR 2009 Database Issue.
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