Protenix-v2 is a sophisticated biomolecular modeling system developed by ByteDance Seed that integrates high-accuracy structure prediction with advanced biomolecular design. This updated version significantly outperforms its predecessors and competitors like AlphaFold3 in predicting antibody-antigen interfaces, demonstrating a massive leap in sampling efficiency. On the design front, the model achieves a 100% success rate across various soluble targets and shows remarkable effectiveness in discovering binders for challenging GPCR targets. Beyond antibodies, the system introduces training-free guidance to ensure the chemical plausibility and physical realism of small-molecule ligand poses. The resulting hits from these zero-shot campaigns exhibit high developability, including superior thermostability and structural diversity. Ultimately, these advancements establish the framework as a powerful tool for accelerated drug discovery across diverse and complex biological systems.

References:

• doi: https://doi.org/10.64898/2026.04.10.717613