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MOLAI

Verified Integration
Author: @nanogenomic•Category: ServerApplication
GitHub Repository
JSON-RPC 2.0
Protocol Standard
Sub-second
Execution Latency
Active
Operational Status
Tags:#Claude#Search#Database#API#Git#Filesystem#AI#GitHub#Node.js

Client Configuration

— Connect MOLAI to Claude Desktop or Cursor in seconds
{
  "mcpServers": {
    "molai": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-molai"
      ],
      "env": {}
    }
  }
}
Paste into ~/Library/Application Support/Claude/claude_desktop_config.json (macOS) or %APPDATA%\Claude\claude_desktop_config.json (Windows).
Architecture & Capabilities

System Overview

Enables Claude AI to directly control and manipulate molecular structures within PyMOL.

Indexed Date

7/23/2026

License

Open Source

Protocol Layer

stdio / SSE RPC

Frequently Asked Questions

Architecture and operational details for MOLAI

MOLAI uses an MCP server script and a PyMOL plugin to establish communication between Claude Desktop and PyMOL. This allows Claude to send commands and PyMOL to execute them.

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