Step 1: Scaffold Generation RFdiffusion is used to generate the HTH (helix-turn-helix) scaffold: Custom contigs design a compact structure (total length 28-33 aa), incorporating an active site model to ensure greater stability than a single helix and suitability for solid-phase synthesis. Step 2: Sequence Design & ValidationImport scaffolds into the dl_binder_design workflow: Generate sequences using ProteinMPNN, then predict structures with AlphaFold2, calculating pAE_interaction scores (filtering for high-confidence designs with threshold <10). Step 3: RL Mutation OptimizationBuilding on screened sequences, deploy PPO reinforcement learning: Use boltz/proteinx as an ipsae proxy for rewards, fine-tuning the model every 100 rounds.