RFdiffusion3 Documentation
==========================

RFdiffusion3 is a powerful protein design tool that operates on the atomic level to 
study ligand-protein interactions, create nucleic acid-protein interfaces, and 
design *de novo* enzymes. It is designed to be highly flexible and 
user-friendly, making it suitable for a wide range of applications in computational biology and biochemistry.

General
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.. toctree::
   :maxdepth: 1

   intro_inference_calculations.md
   input.md

Tutorials
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.. toctree::
   :maxdepth: 1

   ppi_design_tutorial.md

Examples
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.. toctree::
   :maxdepth: 1 

   na_binder_design.md
   sm_binder_design.md
   protein_binder_design.md
   symmetry.md
   enzyme_design.md