What is the BRENDA database?

BRENDA (Braunschweig Enzyme Database) is the world's most comprehensive enzyme information system, offering detailed data on enzyme kinetics, reactions, and biochemical properties sourced from scientific literature.

Do I need an account to use this skill?

Yes, you must register for a free account at the official BRENDA website and configure your credentials using BRENDA_EMAIL and BRENDA_PASSWORD environment variables.

Can I search for enzymes by substrate name?

Yes, this skill includes dedicated functions to search for enzymes based on specific substrates, products, or reaction patterns, helping you find relevant EC numbers for your research.

Can I compare enzymes across different species?

Absolutely. The skill provides high-level functions to compare enzyme properties like optimal pH, temperature ranges, and substrate affinities across a list of specific organisms.

How does this skill support metabolic modeling?

It automates the retrieval of Km and kcat values and includes scripts to export this data into formats suitable for Michaelis-Menten kinetic modeling and pathway simulation.

BRENDA Enzyme Database Access

Name: BRENDA Enzyme Database Access
Author: Yezez9

byYezez9

0•

データサイエンスとML

Accesses the comprehensive BRENDA database to retrieve enzyme kinetic parameters, reaction equations, and biochemical data for metabolic analysis.

This skill integrates the BRENDA (Braunschweig Enzyme Database) into the Claude environment, providing researchers and bioinformaticians with direct access to millions of data points on enzyme kinetics (Km, kcat), substrate specificity, and optimal conditions. It streamlines the process of querying the BRENDA SOAP API, allowing users to compare enzyme properties across organisms, identify enzymes for specific biochemical transformations, and gather essential data for kinetic modeling and metabolic engineering. By automating data retrieval and offering visualization scripts, it serves as a powerful assistant for biochemical research and synthetic biology projects.

主な機能

01Search functionality to find enzymes by specific substrates, products, or reaction patterns

020 GitHub stars

03Detailed analysis of enzyme inhibition, activation, and cofactor requirements

04Retrieval of kinetic parameters (Km, kcat, Vmax) for over 45,000 enzymes

05Comparative analysis of enzyme properties across different organisms and species

06Access to environmental optima including pH, temperature, and stability data

ユースケース

01Identifying thermophilic or pH-stable enzyme variants for industrial biocatalysis

02Metabolic pathway reconstruction and retrosynthesis for synthetic biology applications

03Collecting kinetic parameters for systems biology modeling and flux balance analysis

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add yezez9/research-agent brenda-database

For use in Claude.ai and ChatGPT

主な機能

01Search functionality to find enzymes by specific substrates, products, or reaction patterns

020 GitHub stars

03Detailed analysis of enzyme inhibition, activation, and cofactor requirements

04Retrieval of kinetic parameters (Km, kcat, Vmax) for over 45,000 enzymes

05Comparative analysis of enzyme properties across different organisms and species

06Access to environmental optima including pH, temperature, and stability data

ユースケース

01Identifying thermophilic or pH-stable enzyme variants for industrial biocatalysis

02Metabolic pathway reconstruction and retrosynthesis for synthetic biology applications

03Collecting kinetic parameters for systems biology modeling and flux balance analysis