Download MendeleyFragment-Based Discovery of a Small-Molecule RhoGDI2 Ligand, HR3119, that Inhibits Cancer Cell Migration.
Liu, M., Wan, S., Guo, S., Liu, J., Li, W., Wang, L., Li, F., Zhang, J., Liu, X., Liu, D., Yao, X., Gao, J., Ruan, K., He, W.(2025) ACS Chem Biol
- PubMed: 41099476
- DOI: https://doi.org/10.1021/acschembio.5c00361
- Primary Citation of Related Structures:
9X53, 9X54, 9X55, 9X56, 9X59 - PubMed Abstract:
Guanine nucleotide dissociation inhibitors (GDIs) proteins, including RhoGDI2, regulate the functions of Ras superfamily proteins that are known to be important cancer drug targets. Given the challenges in directly targeting Ras superfamily proteins with small molecules, targeting GDIs represents a unique opportunity but has seen limited success. In this work, we discovered HR3119 as the first ligand of RhoGDI2 with low-micromolar affinity ( K d = 8 μM) starting from a millimolar binding affinity fragment hit ( K d = 714 μM). HR3119 and its derivatives were rationally designed based on a series of ligand-bound RhoGDI2 crystal structures. HR3119 occupies the protein-protein interaction interface between RhoGDI2 and its endogenous ligand Rac1 to disrupt RhoGDI2-Rac1 binding. Interestingly, the complex structure suggests that (6 R )- HR3119 preferentially bound to RhoGDI2 when crystallized with a racemic mixture. The purified (6 R )- HR3119 demonstrated a nearly 100-fold binding affinity advantage compared to (6 S )- HR3119 . Finally, (6 R )- HR3119 engaged with RhoGDI2 in cells and suppressed the migration of aggressive breast cancer cells. Our work provides insights into the discovery of small-molecule compounds targeting RhoGDI2 in terms of methodology, chemistry starting points, compound design, and phenotype studies, underscoring exciting new perspectives in early drug discovery.
- The First Affiliated Hospital and School of Life Sciences, Ministry of Education Key Laboratory for Membrane-less Organelles and Cellular Dynamics, Hefei National Research Center for Interdisciplinary Sciences at the Microscale, Biomedical Sciences and Health Laboratory of Anhui Province, Center for Advanced Interdisciplinary Science and Biomedicine of IHM, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei 230027, China.
Organizational Affiliation:
