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ClaudeChatGPTPerplexityGeminiMicrosoft CopilotRaycastMeta AIGrokZ.aiQwenKimi
DeepSeekMistralCursorVS CodeWindsurfJetBrainsClineLovableVercel AI SDKLangChain

Use RCSB PDB with your AI.

Connect your account once and let the AI you already use work with it, without building another integration. Explore 220K+ 3D molecular structures. search proteins, DNA, and RNA by name, experimental method, resolution, and bound ligands from the Protein Data Bank.

Included with plan

Ask AI about this Connector

Developed, maintained, and hosted by Vinkius.

MCP VERIFIED · PRODUCTION READY · VINKIUS GUARANTEED

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Works with modern AI clients that support MCP, including ChatGPT, Claude, Cursor, and more.

ChatGPTClaudeCursorPerplexityGeminiMicrosoft CopilotRaycastMeta AI

Complete set · 2 capabilities

The complete RCSB PDB capability set.

These are the exact actions your AI can choose when you ask it to work with RCSB PDB.

Capability set01 / 01

01-02

2 capabilities in this set.

Part of 2 available through RCSB PDB.

  1. 01

    Get pdb structure

    PDB IDs are 4-character codes like 1HHO, 6LU7, 7BNN. Get full structural details by PDB ID

  2. 02

    Search pdb

    Returns PDB ID, title, experimental method (X-ray, Cryo-EM, NMR), resolution, authors, and bound ligands. Essential for drug discovery and structural biology. Search 220K+ 3D molecular structures in the Protein Data Bank

Observed, not estimated

886ms average. Fast in production.

RCSB PDB is checked daily against the live service.

Daily averagePeak 1005ms
Aug 20Today
Fastest day
751ms
Slowest day
1005ms
14-day trend
Slowing+27%

Connect your client

One URL. Every client.

Activate the Connector, copy your link, and paste it into the client you already use. 2 capabilities arrive ready to run.

Preview access · not provider authentication

The vk_preview_* token belongs to Vinkius preview infrastructure. It lets Claude discover and display the capabilities of RCSB PDB, so you can see the experience inside your AI.

It does not authenticate your account with RCSB PDB. Actions requiring credentials or live account data may not run until you activate the Connector and authorize the service.

RCSB PDB Connector

You're all set. Choose your MCP client and follow the setup instructions.

Connector linkhttps://edge.vinkius.com/vk_preview_px4KJXLkPAfRiw8dj06D8ILeCL0RIsHNqISA0zQD/mcp

Claude Desktop

Follow the steps below to connect in seconds.

  1. 1In Claude Desktop, open Settings → Connectors.
  2. 2Click “Add custom connector” and paste the connector link above as the remote MCP server URL.
  3. 3Click Add and start a new chat — RCSB PDB capabilities are ready to use.
Configuration · claude_desktop_config.jsonCopy
{
  "mcpServers": {
    "rcsb-pdb-mcp": {
      "url": "https://edge.vinkius.com/vk_preview_px4KJXLkPAfRiw8dj06D8ILeCL0RIsHNqISA0zQD/mcp"
    }
  }
}
  • Claude
  • ChatGPT
  • Cursor
  • VS Code
  • Windsurf
  • Claude Code
  • JetBrains
  • Cline

Step-by-step instructions for each client are in the guide. How to connect

FAQ

Questions RCSB PDB owners ask.

  • 01

    What experimental methods are represented in the PDB?

    The PDB contains structures determined by four main methods: X-ray Crystallography (85% of entries, atomic resolution), Cryo-EM (rapidly growing, now 15%+ of new deposits), NMR Spectroscopy (solution-state structures), and Neutron Diffraction (hydrogen atom positions). Each entry lists its method and resolution.

  • 02

    Do I need authentication to access PDB data?

    No. RCSB PDB is completely free and open. funded by NSF, NIH, DOE, and international partners. All 220K+ structures are openly accessible without any registration or API key. The data is licensed under CC0 (public domain).

  • 03

    What information does each PDB entry contain?

    Each entry includes: PDB ID (4-character code), structure title, depositing authors, experimental method, resolution in Ångströms, source organism, release date, number of polymer chains, and bound non-polymer ligands (drugs, cofactors, ions). Higher resolution (lower number) means more precise atomic coordinates.

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