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Here we use a large language model for the exploration of chemical space of transition metal complexes (TMCs), fine-tuning the open-source Llama-3.2-1B model with a variation of the SMILES string...
LinkLlama is presented, a fine-tuned Meta Llama 3 model that bridges the gap between text-based generation and 3D spatial awareness, offering a highly controllable and chemically robust framework to accelerate linker design and drug discovery in general.
KinConfBench is introduced, a curated benchmark of 2225 high-quality human kinase chains to evaluate the ability of four state-of-the-art cofolding models—Boltz-2, Chai-1, Protenix, and RoseTTAFold-All-Atom—to recover both canonical and rare conformational states.
Co-folding models hold immense potential for allosteric drug discovery, but have been severely hampered by their systematic bias toward orthosteric ligand binding. While fragment screening has been proposed for allosteric binding site discovery, we show that co-folding models still suffer from memorization in which che...
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