PDB
npxStandardA Model Context Protocol (MCP) server that provides access to the Protein Data Bank (PDB) - the worldwide repository of information about the 3D structures of proteins, nucleic acids, and complex assemblies.
2070Updated 2 months ago
Overview
A Model Context Protocol (MCP) server that provides access to the Protein Data Bank (PDB) - the worldwide repository of information about the 3D structures of proteins, nucleic acids, and complex assemblies.
Installation
1Install the package
npx
npx -y pdb-server2Add to Claude
Add this configuration to your claude_desktop_config.json:
claude_desktop_config.json
{
"mcpServers": {
"augmented-nature-pdb-mcp-server-github": {
"command": "npx",
"args": [
"-y",
"npx -y pdb-server"
]
}
}
}3Verify installation
Restart Claude Desktop, then ask:
"What tools do you have available from PDB?"
Prerequisites
- Node.js 18 or higher
- npm or npx available
- Claude Desktop or Claude API access
Configuration
No configuration required. This server works out of the box.
Usage Examples
List Resources
"What resources are available in PDB?"
Claude will query available resources and return a list of what you can access.
Get Details
"Show me details about [specific item] in PDB"
Claude will fetch and display detailed information about the requested item.
Create New
"Create a new [item] in PDB with [details]"
Claude will use the appropriate tool to create the resource and confirm success.
Works with PDB
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