BRENDA


BRENDA

BRENDA is the comprehensive enzyme information database. It is maintained and developed at the Institute of Biochemistry at the University of Cologne. Data on enzyme functions are extracted directly from the primary literature. Formal and consistency checks are done by computer programs and each data set is checked manually. The latest update was in January, 2004 which included:

* Large increase in updating speed
* Development of new EC-tree browser
* Taxonomy-tree browser
* Chemical substructure search engine for ligand structure
* Development of controlled vocabulary
* Ontology for some information fields
* Thesaurus for ligand names.

Usage

The database covers 40 data fields with information about nomenclature, reaction and specificity, enzyme structure, isolation/preparation, stability, literature references and cross references to sequence and 3D-structure data banks.

The resource is available free of charge for academic, non-profit users; commercial use requires a license. For use it requires registration by email. The database can be searched by EC number, enzyme name, organism, or an advanced search combining these terms.

Example

As an example you can use the quick search to search for pyruvate dehydrogenase. This search gives several forms of the enzyme. If you click on pyruvate dehydrogenase (NADP+) it takes you to a page it gives you information on:
* Enzyme nomenclature
* Enzyme ligand interactions
* Functional parameters
* Organism related information
* Enzyme structure
* Molecular properties
* Bibliography/links/Disease

This page also shows all the organisms that contain this enzyme. If you wanted to determine the pyruvate dehydrogenase enzyme found in humans you can use the advance search using this query: enzyme name = pyruvate dehydrogenaseorganism = homo sapiens

This query gives the result pyruvate dehydrogenase (lipoamide).

Other methods of searching include full text search, substructure search, TaxTree search (search an organism in taxonomy tree), search the EC tree and it is possible to do a sequence search.

Other databases

BRENDA also links to other databases. Including KEGG which provides information about the pathway that the enzyme is involved in. It also links to gene ontology information through the GO website. There is also links to the literature through PubMed. Other databases that BRENDA link to include:
* ExPASy
* NCBI databases (Protein, nucleotide, structure, genome, OMIM, Domains
* IUBMB enzyme nomenclature
* PDB database (3D information)
* PROSITE
* SYSTERS
* Protein mutant database
* SCOP
* CATH
* InterPro

Database extensions

As of January 2007, the data repository was complemented by text-mining data inBarthelmes J, Ebeling C, Chang A, Schomburg I, Schomburg D (2007). BRENDA, AMENDA and FRENDA: the enzyme information system in 2007. "Nucleic Acids Res, 35(Database issue):D511-4".] :
* AMENDA (Automatic Mining of ENzyme DAta); and
* FRENDA (Full Reference ENzyme DAta)

References

* Schomburg I, Hofmann O, Bänsch C, Chang A, Schomburg D (2000). Enzyme data and metabolic information: BRENDA, a resource for research in biology, biochemistry, and medicine. "Gene Funct Dis, 3-4:109-18".
* Schomburg D, Schomburg I (2001). Springer Handbook of Enzymes, 2nd Ed. Springer, Heidelberg.
* Schomburg I, Chang A, Schomburg D (2002). BRENDA, enzyme data and metabolic information. "Nucleic Acids Res, 30:47-9".
* Schomburg I, Chang A, Hofmann O, Ebeling C, Ehrentreich F, Schomburg D (2002). BRENDA: a resource for enzyme data and metabolic information. "Trends Biochem Sci, 27(1):54-6".
* Pharkya P, Nikolaev EV, Maranas CD (2003). Review of the BRENDA Database. "Metab Eng, 5(2):71-3".
* Schomburg I, Chang A, Ebeling C, Gremse M, Heldt C, Huhn G, Schomburg D (2004). BRENDA, the enzyme database: updates and major new developments. "Nucleic Acids Res, 32(Database issue):D431-3".

External links

* [http://www.brenda-enzymes.info Official BRENDA website]
* [http://www.empproject.com/ EMP: Enzymes and Metabolic Pathways database]
* [http://www.worthington-biochem.com/default.html Worthington Biochemical Corporation Enzyme Manual]
* [http://www.chem.qmul.ac.uk/iubmb/enzyme/ Enzyme Nomenclature]


Wikimedia Foundation. 2010.

Look at other dictionaries:

  • BRENDA — (BRaunschweig ENzyme DAtabase) zählt zu den weltweit umfassendsten und wichtigsten online Informationssystemen für biochemische und molekularbiologische Daten über Enzyme und Stoffwechselwege. BRENDA ist ein online verfügbares… …   Deutsch Wikipedia

  • Brenda — ist ein weiblicher Vorname Bekannte Namensträgerinnen: Brenda Bakke (* 1963), US amerikanische Schauspielerin Brenda Blethyn (* 1946), britische Schauspielerin Brenda Fassie (1964–2004), südafrikanische Popsängerin Brenda Fowler (1883–1942), US… …   Deutsch Wikipedia

  • Brenda — Saltar a navegación, búsqueda Brenda puede hacer referencia a: Brenda Bezares, conductora y productora de TV mexicana. Brenda Blethyn, actriz británica. Brenda Lee, cantante estadounidense. Brenda Song, actriz estadounidense. Brenda Walsh,… …   Wikipedia Español

  • Brenda — f Scottish, Irish, and (in the 20th century) English: of uncertain derivation. It seems to be of Scandinavian rather than Celtic origin (in spite of its similarity to BRENDAN (SEE Brendan)), and may be a short form of various compound names… …   First names dictionary

  • BRENDA — a veterib. Poetis brevitatis causa appellabator Brundusium, teste Festô …   Hofmann J. Lexicon universale

  • brenda — brȇnda ž <G mn ā/ ī> DEFINICIJA reg., v. brenta ETIMOLOGIJA tal. brenta …   Hrvatski jezični portal

  • brenda-? — *brenda ?, *brendaz germ., stark. Maskulinum (a): nhd. Elenochs; ne. male elk; Etymologie: idg. *bʰrentos, Maskulinum, Geweihträger, Hirsch, Pokorny 168; s. ing. *bʰer (1) …   Germanisches Wörterbuch

  • Brenda — [bren′də] n. [prob. fem. of Brand < Ger brand or ON brandr, a sword: see BRAND] a feminine name …   English World dictionary

  • Brenda — Infobox Given Name Revised name = Brenda imagesize= caption= pronunciation= gender = Female meaning = region = origin = related names = footnotes = Brenda is a female given name adopted from Old Norse brandr sword . It is rarely a variant form of …   Wikipedia

  • Brenda — Cette page d’homonymie répertorie les différents sujets et articles partageant un même nom. BRENDA : banque de données allemande sur les enzymes. Slobodan Misic Brenda (née en 1942), joueur de handball serbe Brenda est le prénom de Brenda… …   Wikipédia en Français