Chembl

ChEMBL MCP — drug discovery database (EBI).

Part of Pipeworx — an MCP gateway connecting AI agents to 965+ live data sources.

Tools

Tool	Description
search	Full-text search the ChEMBL drug-discovery database for molecules, targets, assays, or documents; returns ChEMBL IDs and summary fields you can pass to molecule, target, or activities.
molecule	Full molecule record by ChEMBL ID (e.g. "CHEMBL25" = aspirin).
target	Target record by ChEMBL target ID.
mechanism	Mechanism of action records (filtered by molecule_chembl_id).
activities	Retrieve bioactivity records from ChEMBL filtered by molecule_chembl_id and/or target_chembl_id; returns IC50/Ki/EC50 values, assay descriptions, and units.
drug_indications	Retrieve approved drug indication records from ChEMBL filtered by molecule_chembl_id and/or MeSH disease ID; returns disease names, efo_id cross-references, and max clinical trial phase.

Quick Start

Add to your MCP client (Claude Desktop, Cursor, Windsurf, etc.):

{
  "mcpServers": {
    "chembl": {
      "url": "https://gateway.pipeworx.io/chembl/mcp"
    }
  }
}

Or connect to the full Pipeworx gateway for access to all 965+ data sources:

{
  "mcpServers": {
    "pipeworx": {
      "url": "https://gateway.pipeworx.io/mcp"
    }
  }
}

Using with ask_pipeworx

Instead of calling tools directly, you can ask questions in plain English:

ask_pipeworx({ question: "your question about Chembl data" })

The gateway picks the right tool and fills the arguments automatically.

More

• All tools and guides
• pipeworx.io

License

MIT