UniProt Augmented Nature

How to Set Up and Use UniProt Augmented Nature

The Augmented Nature UniProt MCP Server provides AI assistants with comprehensive access to the UniProt protein database through 26 specialized tools covering protein search, sequence retrieval, feature annotation, structural biology, comparative analysis, systems biology, and data export. It connects to the public UniProt REST API without requiring an API key, making it immediately useful for drug discovery researchers, bioinformaticians, and structural biologists who want to query protein data through natural language. Researchers use it to look up protein sequences, explore domains and functional sites, compare proteins across species, and export data in formats like FASTA, GFF, and GenBank.

git clone https://github.com/Augmented-Nature/Augmented-Nature-UniProt-MCP-Server.git
cd Augmented-Nature-UniProt-MCP-Server

npm install
npm run build

{
  "mcpServers": {
    "uniprot": {
      "command": "node",
      "args": ["/absolute/path/to/Augmented-Nature-UniProt-MCP-Server/build/index.js"]
    }
  }
}

{
  "mcpServers": {
    "uniprot": {
      "command": "node",
      "args": ["/path/to/Augmented-Nature-UniProt-MCP-Server/build/index.js"],
      "env": {}
    }
  }
}

- "Search UniProt for human insulin proteins."
- "Get the detailed information for UniProt accession P01308."
- "What are the functional domains of the BRCA1 protein in humans?"
- "Retrieve the FASTA sequence for UniProt entry P53_HUMAN."
- "Find proteins related to the TP53 gene in mouse and compare them to the human version."