A. Katherine Hatstat

This paper demonstrates that large language models can generate de novo protein sequences that bind specific ligands without copying existing sequences, with a 25% hit rate in experimental validation.

This paper designs a de novo protein fold that binds doxorubicin with high affinity through aromatic π-stacking, revealing a new 5-helix globular fold.

The paper introduces NOVARK, an ultrabright biosensor for dynamic imaging of kinase activity, showing it can detect phosphorylation-induced assembly with higher brightness and dynamic range than existing methods.

An all-atom diffusion model unifying biomolecular structure prediction and sequence-structure generation designs experimentally validated nanobodies, mini-proteins, and linear or cyclic peptides across 26 diverse targets.

This paper designs de novo proteins to modify nanopore complexes, creating customized structural and functional properties for enhanced sequencing applications.

The paper demonstrates the feasibility of engineering a transmembrane histidine kinase with a de novo metal-binding sensor domain that transmits binding information.