PyMOL™ has been the standard for molecular visualization, and Nano Helix builds on this foundation by redesigning PyMOL™ with AI at its core. We've combined PyMOL™'s open source visualization engine with a modern interface and AI-powered features. Best of all? Nano Helix is completely free for both academic and commercial use, and you only pay for the AI features.
Nano Helix: PyMOL™ Redesigned with AI at its Core
What's Included (Free)
- Full PyMOL™ visualization engine redesigned for a modern look
- Jupyter notebook style coding environment
- Cross-platform compatibility (Mac and Windows)
AI Features
Nano Helix is built with AI at its foundation. Advanced AI features are available through subscription:
- Structure copilot to automate your protein realted tasks
- All code commands accessible with plain English
- Protein folding tool with Boltz (AlphaFold3 implementation)
- Protein design tools with RFdiffusion, RFAntibody and ProteinMPNN
- Run protein AI models in a pipeline to scale up and automate
- Automated analysis and insights
What Makes Nano Helix Different?
AI-First Design
Nano Helix is designed from the ground up with AI as a core component, accelerating workflows for structural biologists, and lowering the barrier to entry for new users.
Free Licensing
Nano Helix is free for everyone—academics, startups, and large corporations alike. Use it for research, teaching, or commercial product development without licensing fees.
Frequently Asked Questions
How is Nano Helix different from PyMOL™?
Nano Helix builds on the open-source PyMOL™ engine with a modern redesign and AI integration. You'll find a structure copilot for automation, and advanced protein folding and design tools.
What platforms does Nano Helix support?
Nano Helix runs natively on both Mac and Windows operating systems, offering a consistent experience across platforms.
Is Nano Helix really free for commercial use?
Yes! The core platform with the redesigned PyMOL™ visualization engine and Jupyter notebook environment is completely free for everyone. Advanced AI features like structure copilot, protein folding, and design tools are available through subscription.
What AI features are included?
Our AI suite includes structure copilot for automation, plain English command translation, protein folding with Boltz (AlphaFold3), and protein design tools (RFdiffusion, RFAntibody, ProteinMPNN). These tools are designed to accelerate your structural biology workflows.
Conclusion
Nano Helix combines the visualization power of PyMOL™ with modern web technology and AI-first design, making molecular visualization more accessible and intelligent than ever. Whether you're looking for a simplified licensing model, browser-based access, or AI-powered analysis, Nano Helix offers a fresh approach to structural biology workflows.
Ready to try PyMOL™ redesigned with AI at its core? Get started with Nano Helix for free and experience the future of molecular visualization.
Disclaimer: PyMOL™ is a trademark of Schrodinger, LLC. NanoHelix is an independent product based on open-source PyMOL™ technology.