RCSB PDB

liveBiologyScienceChemistry

RCSB Protein Data Bank — experimental macromolecular structures. Keyless.

6tools

0msauth

free tier50 calls/day

Tools

searchrequired: query

PDB text search.

Parameters

NameTypeDescription

queryreqstring—

return_typeoptstring—

limitoptnumber—

▶Try it

Response

structurerequired: pdb_id

Full entry record.

Parameters

NameTypeDescription

pdb_idreqstring—

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Response

polymer_entityrequired: pdb_id, entity_id

Polymer entity (chain).

Parameters

NameTypeDescription

pdb_idreqstring—

entity_idreqstring—

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Response

ligandrequired: pdb_id, ligand_id

Ligand record.

Parameters

NameTypeDescription

pdb_idreqstring—

ligand_idreqstring—

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Response

assemblyrequired: pdb_id

Biological assembly.

Parameters

NameTypeDescription

pdb_idreqstring—

assembly_idoptstring—

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Response

summaryrequired: pdb_id

Short summary.

Parameters

NameTypeDescription

pdb_idreqstring—

▶Try it

Response

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/rcsb-pdb/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/rcsb-pdb/mcp \
  -H "Content-Type: application/json" \
  -d '{"jsonrpc":"2.0","id":2,"method":"tools/call","params":{"name":"search","arguments":{"query": "hello"}}}'

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", {"query":"example"});

ask_pipeworx

// Or ask in plain English:
const answer = await px.ask("rcsb protein data bank — experimental macromolecular structures");

Related packs

Other Pipeworx packs in the same categories (Biology, Science, Chemistry):

MCP Config

claude_desktop_config.json

{
  "mcpServers": {
    "pipeworx-rcsb-pdb": {
      "command": "npx",
      "args": [
        "-y",
        "mcp-remote",
        "https://gateway.pipeworx.io/rcsb-pdb/mcp"
      ]
    }
  }
}