Supramolecular Peptide Nanostructures Regulate Catalytic Efficiency and Selectivity

We report three constitutionally isomeric tetrapeptides, each comprising one glutamic acid (E) residue, one histidine (H) residue, and two lysine (K-S) residues functionalized with side-chain hydrophobic S-aroylthiooxime (SATO) groups. Depending on the order of amino acids, these amphiphilic peptides self-assembled in aqueous solution into different nanostructures:nanoribbons, a mixture of nanotoroids and nanoribbons, or nanocoils. Each nanostructure catalyzed hydrolysis of a model substrate, with the nanocoils exhibiting the greatest rate enhancement and the highest enzymatic efficiency. Coarse-grained molecular dynamics simulations, analyzed with unsupervised machine learning, revealed clusters of H residues in hydrophobic pockets along the outer edge of the nanocoils, providing insight for the observed catalytic rate enhancement. Finally, all three supramolecular nanostructures catalyzed hydrolysis of the l-substrate only when a pair of enantiomeric Boc-l/d-Phe-ONp substrates were tested. This study highlights how subtle molecular-level changes can influence supramolecular nanostructures, and ultimately affect catalytic efficiency.

Automated summary

We report three constitutionally isomeric tetrapeptides with different nanostructures that catalyze hydrolysis reactions. Coarse-grained molecular dynamics simulations and machine learning analysis reveal the clusters of specific amino acid residues in hydrophobic pockets along the outer edge of the most efficient nanostructure, providing insights into the observed catalytic rate enhancement. This study demonstrates how subtle molecular-level changes can influence supramolecular nanostructures and catalytic efficiency.