UniProt MCP Server

Example Use Cases

• 1

  Fetch detailed protein entries and annotations from UniProtKB.

• 2

  Perform advanced full-text searches and filter protein data by various criteria.

• 3

  Map protein identifiers across over 200 biological databases with progress tracking.

Description

This MCP server enables querying of UniProtKB protein entries, sequences, Gene Ontology annotations, and identifier mappings through structured Pydantic models. It supports dual transport modes (stdio and HTTP) for local and remote use, offers advanced search and ID mapping capabilities, and includes production-ready features like automatic retries, CORS, and Prometheus metrics. The server is designed to facilitate integration with LLM agents and bioinformatics workflows by providing typed responses and pre-built prompts.