Does this skill require a separate server or Modal deployment?

No, the UniProt skill runs locally via standard HTTP requests to the UniProt REST API, requiring no external cloud infrastructure.

How do I map UniProt entries to PDB structures?

The skill includes a dedicated cross-reference function that extracts PDB IDs, experimental methods, and chain information directly from the UniProt entry.

Can I search for proteins using gene names instead of accessions?

Yes, the skill includes a search function that allows you to query UniProtKB by gene name, organism, and other metadata.

Does this skill handle rate limiting?

While the skill uses direct API calls, it is recommended to add delays between batch requests to comply with UniProt's usage policies.

What sequence formats are supported?

The skill supports fetching sequences in FASTA format for compatibility with most tools, and JSON format for detailed annotation data.

UniProt Protein Database Access

Name: UniProt Protein Database Access
Author: adaptyvbio

byadaptyvbio

•

数据科学与机器学习

Retrieves comprehensive protein sequences, functional annotations, and structural cross-references directly from the UniProt database.

This skill integrates the UniProt REST API into your Claude Code environment, enabling seamless retrieval of biological data for bioinformatics and protein design projects. It allows users to fetch FASTA sequences, extract precise domain boundaries, identify natural variants, and find corresponding PDB structures using accessions or gene names. By providing structured access to functional annotations and sequence metadata without requiring complex local setups, it serves as a foundational tool for researchers and developers working on computational biology and molecular engineering.

主要功能

01Identification of natural variants and sequence polymorphisms

02Protein sequence retrieval in FASTA and JSON formats

0375 GitHub stars

04Automatic cross-referencing to PDB structures for 3D modeling

05Functional annotation extraction including domain boundaries and active sites

06Advanced search capabilities by gene name, organism ID, and keywords

使用场景

01Retrieving domain-specific sequences for modular protein design

02Mapping functional site annotations to structural data for mutation analysis

03Automated target selection and characterization for protein engineering

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add adaptyvbio/protein-design-skills uniprot

For use in Claude.ai and ChatGPT

Download Skill