brenda-database
BRENDA Enzyme DB SOAP/REST queries: kinetic parameters (Km, Vmax, kcat, Ki), EC classes, substrate specificity, inhibitors, cofactors, organism data. 80K+ enzymes, 7M+ values. Free academic registration. For metabolic modeling use cobrapy-metabolic-modeling; metabolites use hmdb-database.
npx skills add BioTender-max/awesome-bio-agent-skills --skill brenda-database --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# 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 use `hmdb-databas
- Overview
- When to Use
- Prerequisites
- Quick Start
- Core API
- Query 1: Km Values for Enzyme-Substrate Pair
- Query 2: kcat (Turnover Number) Values
- Query 3: Substrates and Products
- Query 4: Organism-Specific Enzyme Data
- Query 5: pH and Temperature Optima
- Query 6: EC Number to UniProt Cross-Reference
- Key Concepts
- SOAP Interface and Authentication
- EC Number Classification
pip install zeep pandas requests Register at https://www.brenda-enzymes.org/register.php to obtain API credentials
What does the brenda-database skill do?
BRENDA Enzyme DB SOAP/REST queries: kinetic parameters (Km, Vmax, kcat, Ki), EC classes, substrate specificity, inhibitors, cofactors, organism data. 80K+ enzymes, 7M+ values. Free academic registration. For metabolic modeling use cobrapy-metabolic-modeling; metabolites use hmdb-database.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill brenda-database --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.