Mechanistic Modeling of Lys745 Sulfonylation in EGFR C797S Reveals Chemical Determinants for Inhibitor Activity and Discriminates Reversible from Irreversible Agents

• Published in: Journal of chemical information and modeling Vol. 63; no. 4; pp. 1301 - 1312
• Main Authors: Arafet, Kemel, Scalvini, Laura, Galvani, Francesca, Martí, Sergio, Moliner, Vicent, Mor, Marco, Lodola, Alessio
• Format: Journal Article
• Language: English
• Published: United States American Chemical Society 27.02.2023
• Subjects: Computational Biochemistry; Drug Resistance, Neoplasm - genetics; ErbB Receptors - metabolism; Growth factors; Humans; Kinases; Lung Neoplasms - genetics; Lysine; Mutation; Optimization; Protein Kinase Inhibitors - pharmacology; Quantum mechanics
• ISSN: 1549-9596; 1549-960X
• DOI: 10.1021/acs.jcim.2c01586

Targeted covalent inhibitors hold promise for drug discovery, particularly for kinases. Targeting the catalytic lysine of epidermal growth factor receptor (EGFR) has attracted attention as a new strategy to overcome resistance due to the emergence of C797S mutation. Sulfonyl fluoride derivatives able to inhibit EGFRL858R/T790M/C797S by sulfonylation of Lys745 have been reported. However, atomistic details of this process are still poorly understood. Here, we describe the mechanism of inhibition of an innovative class of compounds that covalently engage the catalytic lysine of EGFR, through a sulfur­(VI) fluoride exchange (SuFEx) process, with the help of hybrid quantum mechanics/molecular mechanics (QM/MM) and path collective variables (PCVs) approaches. Our simulations identify the chemical determinants accounting for the irreversible activity of agents targeting Lys745 and provide hints for the further optimization of sulfonyl fluoride agents.