brenda-database
BRENDA Enzyme Database
Overview
BRENDA (BRaunschweig ENzyme DAtabase) is the world's most comprehensive enzyme information system, containing 80,000+ enzyme entries covering all classified enzymes (EC numbers). It holds 7M+ experimentally measured kinetic parameters (Km, Vmax, kcat, Ki, inhibition constants), substrate specificity data, cofactor requirements, tissue expression, and organism-specific enzyme variants from 200,000+ literature references. Programmatic access is via a SOAP-based web service (Python zeep library) with free academic registration.
When to Use
- Retrieving kinetic parameters (Km, kcat, Vmax, Ki) for a specific enzyme and substrate combination
- Comparing kinetic parameters across organisms or mutant variants for an enzyme
- Finding natural substrates, inhibitors, and cofactors for an EC number
- Building kinetic models for metabolic simulations requiring Michaelis-Menten parameters
- Identifying enzyme-specific structural data (recommended pH, temperature optima)
- Cross-referencing EC numbers with UniProt accessions and organism taxonomy
- For metabolic network simulation use
cobrapy-metabolic-modeling; for metabolite structures usehmdb-database
Prerequisites
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