Uniprot-MCP and PDB-MCP-Server
These tools are complements because one provides comprehensive protein data and metadata from UniProt, while the other offers access to the 3D structural information of proteins and nucleic acids from the PDB, allowing for a combined view of protein function and structure.
About Uniprot-MCP
josefdc/Uniprot-MCP
UniProt MCP Server - Access comprehensive protein data via Model Context Protocol. Search, retrieve, and analyze UniProt entries with full-text search, ID mapping, and rich metadata. Supports stdio & HTTP transports for Claude Desktop and custom integrations.
Implements production-grade resilience patterns including exponential backoff retries, concurrent request pooling (configurable to 8 workers), and progress tracking for long-running ID mapping jobs across 200+ database types. Built on FastMCP for stdio and Starlette for HTTP, with Prometheus metrics and structured Pydantic models ensuring type safety for LLM agent integration. Includes VCR-based integration tests, field subsetting to optimize payload sizes, and CORS/health check endpoints for seamless Claude Desktop and custom client deployments.
About PDB-MCP-Server
Augmented-Nature/PDB-MCP-Server
A Model Context Protocol (MCP) server that provides access to the Protein Data Bank (PDB) - the worldwide repository of information about the 3D structures of proteins, nucleic acids, and complex assemblies.
This project helps researchers and scientists quickly find and access 3D structural information about proteins, nucleic acids, and complex biological assemblies from the Protein Data Bank (PDB). You can input keywords, protein names, or PDB IDs to get detailed structure information, quality metrics, and downloadable files. It's designed for structural biologists, biochemists, and computational biologists who work with molecular structures.
Related comparisons
Scores updated daily from GitHub, PyPI, and npm data. How scores work