pdb mcp for VS Code

io.github.mrfentmen/pdb-mcp

RCSB PDB: search 230k+ structures, read chains, ligands, formulas and citations — keyless.

client:VS Code transport:stdio runtime:npm

Install pdb mcp in VS Code

.vscode/mcp.json

{
  "servers": {
    "pdb-mcp": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "pdb-mcp"
      ]
    }
  }
}

Requires agent mode. MCP: Open User Configuration puts the same block in every workspace. VS Code docs