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brenda-database

Retrieve enzyme kinetic parameters and reaction data from the BRENDA database via SOAP API.

Updated Jan 10, 2026
Search Tags:#database#metabolism#biochemistry#enzyme#brenda#kinetics
One-click install
npx skills add https://github.com/robinbarvaag/poynt --skill brenda-database-robinbarvaag
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: brenda-database
Source: https://github.com/robinbarvaag/poynt/tree/main/.github/skills/brenda-database
Command: npx skills add https://github.com/robinbarvaag/poynt --skill brenda-database-robinbarvaag

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires zeep, requests, pandas, matplotlib, seaborn, and includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill provides programmatic access to the BRENDA enzyme database, enabling researchers to retrieve detailed enzyme kinetic parameters, reaction information, and organism-specific data, thereby accelerating biochemical research and metabolic pathway analysis.

Core Features & Use Cases

  • Retrieve Kinetic Parameters: Get Km, kcat, and Vmax values for enzymes.
  • Access Reaction Data: Obtain reaction equations and stoichiometry.
  • Find Enzymes: Search for enzymes based on substrates, products, or reaction patterns.
  • Analyze Organism Data: Compare enzyme properties across different species.
  • Use Case: A metabolic engineer needs to find enzymes that can convert glucose to pyruvate in E. coli with high efficiency. This Skill can query BRENDA for relevant enzymes, their kinetic parameters, and optimal conditions.

Quick Start

Use the brenda-database skill to find enzymes that act on glucose.

Frequently Asked Questions about brenda-database

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I retrieve enzyme kinetic parameters like Km and kcat from the BRENDA database?▼

To retrieve enzyme kinetic parameters like Km and kcat from the BRENDA database, this Skill programmatically queries the BRENDA SOAP API to extract detailed values, reaction equations, and organism data for over 45,000 enzymes.

Can I search for specific enzymes in BRENDA using substrate names or reaction patterns?▼

Yes, you can search for specific enzymes in BRENDA using substrate names, products, or reaction patterns. The Skill queries the database to find matching enzymes and retrieves their corresponding substrate specificities and stoichiometric data.

What's the best way to compare enzyme properties across different organisms for metabolic pathway reconstruction?▼

The best way to compare enzyme properties across different organisms for metabolic pathway reconstruction is querying organism-specific data via the BRENDA SOAP API. This Skill retrieves comparative kinetic parameters and reaction equations across species.

Does this BRENDA enzyme database access tool require specific Python dependencies to function?▼

Yes, accessing the BRENDA enzyme database via this tool requires specific Python dependencies. It relies on the zeep library for SOAP API communication, alongside requests, pandas, matplotlib, and seaborn for data handling and visualization.

When do I need BRENDA enzyme data for biochemical research workflows?▼

You need BRENDA enzyme data for biochemical research workflows when performing metabolic pathway reconstruction or enzyme engineering. It provides essential kinetic parameters, substrate specificities, and reaction equations to analyze metabolic conversions.

Are there limitations to querying BRENDA via SOAP API for large-scale enzyme analysis?▼

Limitations of querying BRENDA via SOAP API for large-scale enzyme analysis include potential API rate limits and response parsing overhead. The Skill manages this using pandas for structured data extraction across 45,000 enzymes.

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