Chembl MCP Server
by cyanheadsio.github.cyanheads/chembl-mcp-serverv0.3.2
Link compounds to protein targets, rank bioactivity, and look up drug mechanisms and indications.
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Active13d ago
Install Chembl MCP server
Install in Claude Code
claude mcp add chembl -- npx -y @cyanheads/chembl-mcp-server run start:stdioInstall in Cursor
{
"mcpServers": {
"chembl": {
"command": "npx",
"args": [
"-y",
"@cyanheads/chembl-mcp-server",
"run",
"start:stdio"
]
}
}
}Add to ~/.cursor/mcp.json (global) or .cursor/mcp.json (project).
Install in Claude Desktop
{
"mcpServers": {
"chembl": {
"command": "npx",
"args": [
"-y",
"@cyanheads/chembl-mcp-server",
"run",
"start:stdio"
]
}
}
}Settings → Developer → Edit Config (claude_desktop_config.json), then restart.
Install in VS Code
{
"servers": {
"chembl": {
"type": "stdio",
"command": "npx",
"args": [
"-y",
"@cyanheads/chembl-mcp-server",
"run",
"start:stdio"
]
}
}
}Add to .vscode/mcp.json in your workspace.
Install in Windsurf
{
"mcpServers": {
"chembl": {
"command": "npx",
"args": [
"-y",
"@cyanheads/chembl-mcp-server",
"run",
"start:stdio"
]
}
}
}Add to ~/.codeium/windsurf/mcp_config.json.
Configuration
| Variable | Required | Secret | Description |
|---|---|---|---|
| CANVAS_PROVIDER_TYPE | — | — | Set to 'duckdb' to enable the bioactivity DataCanvas spill and the chembl_dataframe_* SQL tools. When 'none', large bioactivity sets inline a preview but never spill. |
| CHEMBL_API_BASE_URL | — | — | Base URL for the ChEMBL REST data API. Override for a private mirror or pinned host. |
| CHEMBL_REQUEST_TIMEOUT_MS | — | — | Per-request timeout in milliseconds for upstream ChEMBL fetches. |
| CHEMBL_MAX_PAGE_SIZE | — | — | ChEMBL per-page cap when streaming activity pages for the bioactivity spill (max 1000). |
| CHEMBL_DEFAULT_LIMIT | — | — | Default result limit applied when callers omit it. |
| CHEMBL_MAX_SPILL_ROWS | — | — | Ceiling on rows chembl_get_bioactivities stages to a DataCanvas table, and so on the upstream page drain behind it. Over the cap the response reports truncated: true. |
| CHEMBL_DATAFRAME_DROP_ENABLED | — | — | Set to 'true' to register the opt-in chembl_dataframe_drop tool (absent from tools/list when off). |
| MCP_LOG_LEVEL | — | — | Sets the minimum log level for output (e.g., 'debug', 'info', 'warn'). |
| MCP_HTTP_HOST | — | — | The hostname for the HTTP server. |
| MCP_HTTP_PORT | — | — | The port to run the HTTP server on. |
| MCP_HTTP_ENDPOINT_PATH | — | — | The endpoint path for the MCP server. |
| MCP_AUTH_MODE | — | — | Authentication mode to use: 'none', 'jwt', or 'oauth'. |
Remote endpoints
- streamable-http
https://chembl.caseyjhand.com/mcp
Freshness
Active — last maintenance signal 13d ago. The newest of the signals below sets the band.
Last commit (default branch)
2026-09-26 · 13d ago · GitHub
Latest release
2026-09-26 · 13d ago · GitHub · v0.3.2
Package published
no data · npm/PyPI
Registry entry updated
2026-09-26 · 13d ago · official registry · v0.3.2
FAQ
›How do I install the Chembl MCP server in Claude Code?
Run: claude mcp add chembl -- npx -y @cyanheads/chembl-mcp-server run start:stdio. For Cursor, VS Code, Claude Desktop and Windsurf, use the install tabs above.
›Does Chembl require an API key?
No required environment variables are declared in its published metadata.
›Can I use Chembl as a remote (hosted) MCP server?
Yes — it offers both a hosted endpoint and a local stdio package.
›Is Chembl in the official MCP registry?
Yes, as io.github.cyanheads/chembl-mcp-server.