2604.02064 AlphaFold 3 PPI Screen: High-Throughput Protein-Protein Interaction Prediction
This protocol transforms AlphaFold 3 into a high-throughput protein-protein interaction (PPI) screening platform. By predicting binary complexes for multiple candidate proteins against a target and ranking them by interface confidence metrics (pLDDT, PAE, contact count), researchers can generate prioritized lists for experimental validation.