ProteinMCP

ProteinMCP: An Agentic AI Framework for Autonomous Protein Engineering

[](https://charlesxu90.github.io/ProteinMCP/) [](./LICENSE)

**[Documentation](https://charlesxu90.github.io/ProteinMCP/)** | **[Installation](https://charlesxu90.github.io/ProteinMCP/installation)** | **[Quick Start](https://charlesxu90.github.io/ProteinMCP/quickstart)** | **[MCP Catalog](https://charlesxu90.github.io/ProteinMCP/mcps/)** | **[Workflows](https://charlesxu90.github.io/ProteinMCP/workflows/)**


Prerequisites

The following tools must be installed on your system:

Tool	Purpose	Install Guide
Python 3.10+	Core runtime	python.org
Conda/Mamba	Environment management	miniforge
Node.js / npm	Claude Code CLI	nodejs.org
Docker (with GPU support)	Containerized MCP servers	docs.docker.com
NVIDIA drivers + nvidia-container-toolkit	GPU access in Docker	NVIDIA Container Toolkit

Verify your setup:

python --version       # >= 3.10
conda --version        # or mamba --version
npm --version
docker --version
nvidia-smi             # GPU available
docker run --rm --gpus all nvidia/cuda:12.1.0-base-ubuntu22.04 nvidia-smi  # GPU in Docker

Installation

Step 1 — Create the Python environment

mamba env create -f environment.yml
mamba activate protein-mcp
pip install -r requirements.txt
pip install -e .

Step 2 — Install Claude Code CLI

npm install -g @anthropic-ai/claude-code

Step 3 — Verify the installation

pmcp avail     # List a