EMDB (Cryo-EM)

live BiologyScience

Three-dimensional structures of molecules and cells determined by electron microscopy, from the EBI archive.

2 tools
0ms auth
free tier 50 calls/day

Tools

search_maps

Search the EBI Electron Microscopy Data Bank (EMDB) for 3D cryo-EM / electron-tomography density maps by free-text keyword (e.g. "ribosome", "spike protein", "apoptosis"). Returns matching maps with E

No parameters required.

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get_map

Get a single EMDB entry by its EMDB id (e.g. "EMD-1080"). Returns a trimmed record: title, sample, structure-determination method, resolution (Angstrom), and release date. EMDB holds 3D electron-micro

No parameters required.

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Test with curl

The gateway speaks JSON-RPC 2.0 over HTTP POST. You can test any pack directly from the terminal.

List available tools
bash 
curl -X POST https://gateway.pipeworx.io/emdb/mcp \
  -H "Content-Type: application/json" \
  -d '{"jsonrpc":"2.0","id":1,"method":"tools/list"}'
Call a tool
bash 
curl -X POST https://gateway.pipeworx.io/emdb/mcp \
  -H "Content-Type: application/json" \
  -d '{"jsonrpc":"2.0","id":2,"method":"tools/call","params":{"name":"search_maps","arguments":{}}}'

Use with the SDK

Install @pipeworx/sdk to call tools from any TypeScript/Node project.

TypeScript 
import { Pipeworx } from '@pipeworx/sdk';
const px = new Pipeworx();
const result = await px.call("search_maps", {});
ask_pipeworx 
// Or ask in plain English:
const answer = await px.ask("three-dimensional structures of molecules and cells determined by electron microscopy, from the ebi archive");