RCSB PDB MCP Server

by rcsb Your server? Claim it

local only

RCSB PDB runs on your own machine — the client starts it, so there is no endpoint to ping. 541 installs a week from pypi. Last commit 23 Oct 2026.

MCP server to search, inspect, and cross-reference RCSB Protein Data Bank structures

Installs per day peak 444 · avg 112 · +40% w/w

a month agotoday

541

Installs / week

pypi · rcsb-mcp

Stars

1 open issue

23 Oct 2026

Last commit

from GitHub

MIT

License

Python

Nothing serious here today

Today is the operative word: we check RCSB PDB every 15 minutes and re-read its code on every release. Watch it and you find out the day that stops being true.

Connect this server

This server runs on your own machine — install it with the package manager and the client starts it for you. Package name taken from the official registry entry.

Claude Code Claude Desktop Codex Cursor VS Code

run in your terminal

claude mcp add rcsb-mcp -- uvx rcsb-mcp

~/Library/Application Support/Claude/claude_desktop_config.json

{
  "mcpServers": {
    "rcsb-mcp": {
      "command": "uvx",
      "args": [
        "rcsb-mcp"
      ]
    }
  }
}

~/.codex/config.toml

[mcp_servers.rcsb-mcp]
command = "uvx"
args = ["rcsb-mcp"]

.cursor/mcp.json

{
  "mcpServers": {
    "rcsb-mcp": {
      "command": "uvx",
      "args": [
        "rcsb-mcp"
      ]
    }
  }
}

.vscode/mcp.json

{
  "servers": {
    "rcsb-mcp": {
      "type": "stdio",
      "command": "uvx",
      "args": [
        "rcsb-mcp"
      ]
    }
  }
}

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RCSB PDB — questions

Answers built from our own checks of this server.

Why is there no uptime for RCSB PDB?

RCSB PDB runs on your own machine over stdio — there is no network address to reach, so uptime cannot be measured for it by anyone. What can be measured is adoption: the pypi package rcsb-mcp was installed 541 times last week.

How do I connect RCSB PDB?

Copy the ready config from this page. We generate it for Claude Code, Claude Desktop, Codex, Cursor and VS Code, each in the form that client actually reads. It runs locally, so the command pulls rcsb-mcp straight from pypi; nothing to host, nothing to sign up for.

How many people use RCSB PDB?

The pypi package rcsb-mcp was installed 541 times in the last week. Week over week that is +40%. We show installs rather than GitHub stars on purpose: a star is a bookmark, an install is someone actually running it.

Is RCSB PDB open source?

Yes — it is published under the MIT licence, written in Python, 12 stars on GitHub and 1 open issue. The source link is on this page, so you can read exactly what it does with your data before you connect it.