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This work introduces PROTEAN, a standardized benchmark for text-guided protein structural editing and provides an open testbed for developing autonomous, multi-backend macromolecular design agents.
Existing reaction models primarily learn molecular transformations, whereas enzy- matic reactions depend jointly on molecular structure and catalytic function. We formulate this problem as learning an enzymatic reaction space linking reactants, products, and Enzyme Commission (EC) annotations. To characterize this spac...
Built with VRH, VenusREM2 is the first to rank highest in all function, taxon, MSA-depth, and mutation-depth categories, with a ProteinGym Average Spearman of 0.556, 0.038 above the prior best.
MAXWELL (Matrix-wise Landscape Learning), a novel post-training method that calibrates the probabilistic outputs learned by protein language models during pretraining to generate mutational landscapes that quantify the effects of individual amino acid substitutions on protein stability, is introduced.
SciReasoner is introduced, a multimodal scientific foundation model for native structural reasoning across proteins, small molecules and inorganic crystals that connects accurate prediction with interpretable scientific inference.
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