Ebi PdbeをChatGPT、Claude、Geminiに接続

• 01 / 03結合部位の特定方法
• 02 / 03タンパク質構造の検証方法
• 03 / 03UniProt配列のマッピング方法

最速日

731ms

最遅日

1232ms

14日間の傾向

遅延傾向+15%

PDBe (Protein Data Bank in Europe) Connector

準備完了です。MCPクライアントを選択し、セットアップ手順に従ってください。

コネクタリンクhttps://edge.vinkius.com/vk_preview_bI09khwqGh15yaAARSveb5XxpbscMGTIKjQ4vrCZ/mcpコピー

Claude Desktop

以下の手順で数秒で接続できます。

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 — PDBe (Protein Data Bank in Europe) capabilities are ready to use.

設定 · claude_desktop_config.jsonコピー

{
  "mcpServers": {
    "ebi-pdbe-mcp": {
      "url": "https://edge.vinkius.com/vk_preview_bI09khwqGh15yaAARSveb5XxpbscMGTIKjQ4vrCZ/mcp"
    }
  }
}

• Claude
• ChatGPT
• Cursor
• VS Code
• Windsurf
• Claude Code
• JetBrains
• Cline

各クライアントの手順ガイドはこちらです。 接続方法

Claude向けのガイド付きセットアップ？ PDBe (Protein Data Bank in Europe)をClaudeや他のAIに設定する

このConnectorが対応するすべてのAIクライアントを見る ↑

• 01

  構造生物学者

  座標ファイルをダウンロードすることなく、構造のメタデータ、品質評価、実験パラメータを迅速に取得できます。

• 02

  創薬研究者

  合理的な薬物設計のために、結合部位、リガンド相互作用、および補因子の特定を行います。

• 03

  バイオインフォマティシャン

  UniProtマッピングを利用して、配列データと3D構造アノテーションを相互参照します。

• 01

  Do I need an API key for PDBe?

  No, this MCP uses the public PDBe REST API, so no personal credentials or keys are required.

• 02

  Which AI clients can use this MCP?

  You can use this with any MCP-compatible client, including Claude, Cursor, and Windsurf.

• 03

  Can I search for structures using names instead of PDB IDs?

  Yes, the search_structures capability allows you to use natural language queries for protein names or organisms.

• 04

  How is the data sourced?

  All data is pulled directly from the official PDBe REST API maintained by EMBL-EBI.

• 05

  Can this help with UniProt data?

  Yes, the MCP includes capabilities to map UniProt sequence positions to specific PDB residues.

• 06

  Do I need an API key?

  No. The PDBe API is completely public and requires no authentication. Enter any placeholder value in the API key field to activate the server immediately.

• 07

  What types of structures are available?

  The PDBe contains over 200,000 experimentally determined 3D structures of proteins, nucleic acids, and complex assemblies. Structures are determined by X-ray crystallography, cryo-electron microscopy (cryo-EM), NMR spectroscopy, and other methods. This includes enzymes, receptors, antibodies, viral proteins, ribosomes, and drug-target complexes.

• 08

  Can I find drug binding sites?

  Yes. Use get_binding_sites to retrieve all annotated ligand binding pockets with their constituent residues. Combine with get_ligand_monomers to identify the small molecules bound in the structure, and get_cofactors for prosthetic groups. This workflow is essential for structure-based drug design and virtual screening target preparation.

• 

  EBI InterPro AIコネクタ

  Classify protein sequences into families, predict functional domains, and explore evolutionary relationships a

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  EBI Proteins API AIコネクタ

  Query the UniProt knowledge base for protein sequences, annotations, and functional data across millions of ch

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  Protein Secondary Structure Predictor AIコネクタ

  Predict protein secondary structures like alpha-helices and beta-sheets from amino acid sequences.

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• 

  RCSB PDB AIコネクタ

  Explore 220K+ 3D molecular structures — search proteins, DNA, and RNA by name, experimental method, resolution

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