Public MCP Servers
Community-contributed MCP servers integrated into ProteinMCP. These are cloned to tool-mcps/public/ on install.
Augmented Nature
| MCP | Description |
| UniProt MCP | Advanced access to the UniProt protein database with 26 specialized bioinformatics tools |
| AlphaFold DB MCP | Access to the AlphaFold Protein Structure Database |
| PDB MCP | Access to the Protein Data Bank (PDB) 3D structure repository |
| STRING DB MCP | STRING protein interaction database |
| ProteinAtlas MCP | Human Protein Atlas data (expression, localization, pathology) |
| KEGG MCP | KEGG database access through REST API |
| Open Targets MCP | Open Targets platform for gene-drug-disease associations |
| NCBI Datasets MCP | NCBI Datasets API with 31 specialized tools |
| MCP | Description |
| PyMOL MCP | AI agents interact with and control PyMOL |
| Arxiv MCP | Search and access arXiv papers |
| PubMed MCP | Search, access, and analyze PubMed articles |
| BioMCP | Protein structure analysis capabilities |
| Biomedical MCP | Biomedical knowledge (clinical trials, literature, genomic variants) |
| InterPro MCP | InterProScan for protein domain and family analysis |
Install
pmcp install uniprot_mcp
pmcp install alphafold_db_mcp
# ... etc