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Structure-based Design of CDC42 Effector Interaction Inhibitors For the Treatment of Cancer

Sohail Jahid, Jose A. Ortega, Linh M. Vuong, Isabella Maria Acquistapace, Stephanie J. Hachey, Jessica L. Flesher, Maria Antonietta La Serra, Nicoletta Brindani, Giuseppina La Sala, Jacopo Manigrasso, Jose M. Arencibia, Sine Mandrup Bertozzi, Maria Summa, Rosalia Bertorelli, Andrea Armirotti, Rongsheng Jin, Zheng Liu, Chi-Fen Chen, Robert Edwards, Christopher C.W. Hughes, Marco De Vivo, Anand K. Ganesan
doi: https://doi.org/10.1101/2021.10.14.464305
Sohail Jahid
1Department of Dermatology, University of California, Irvine, Irvine, CA
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Jose A. Ortega
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Linh M. Vuong
1Department of Dermatology, University of California, Irvine, Irvine, CA
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Isabella Maria Acquistapace
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Stephanie J. Hachey
5Department of Physiology and Biophysics, University of California, Irvine, Irvine, CA
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Jessica L. Flesher
4Department of Biological Chemistry, University of California, Irvine, Irvine, CA
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Maria Antonietta La Serra
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Nicoletta Brindani
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Giuseppina La Sala
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Jacopo Manigrasso
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Jose M. Arencibia
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Sine Mandrup Bertozzi
3Analytical Chemistry and Translational Pharmacology, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Maria Summa
3Analytical Chemistry and Translational Pharmacology, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Rosalia Bertorelli
3Analytical Chemistry and Translational Pharmacology, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Andrea Armirotti
3Analytical Chemistry and Translational Pharmacology, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Rongsheng Jin
5Department of Physiology and Biophysics, University of California, Irvine, Irvine, CA
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Zheng Liu
5Department of Physiology and Biophysics, University of California, Irvine, Irvine, CA
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Chi-Fen Chen
1Department of Dermatology, University of California, Irvine, Irvine, CA
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Robert Edwards
6Department of Pathology and Lab Medicine, University of California, Irvine, Irvine, CA
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Christopher C.W. Hughes
7Department of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA
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Marco De Vivo
2Laboratory of Molecular Modeling and Drug Design, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genoa, Italy
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Anand K. Ganesan
1Department of Dermatology, University of California, Irvine, Irvine, CA
4Department of Biological Chemistry, University of California, Irvine, Irvine, CA
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  • For correspondence: aganesan@hs.uci.edu
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SUMMARY

CDC42 family GTPases (RHOJ, RHOQ, CDC42) are upregulated but rarely mutated in cancer and control both the ability of tumor cells to invade surrounding tissues and the ability of endothelial cells to vascularize tumors. Here we use computer-aided drug design to discover a new chemical entity (ARN22089) that targets CDC42 GTPases and blocks CDC42 effector interactions without affecting the binding between closely related GTPases (RAC1, RAS, RAL) and their downstream effectors. Our lead compound has broad activity against a panel of cancer cell lines, inhibits S6 phosphorylation and MAPK activation, activates pro-inflammatory and apoptotic signaling, and blocks tumor growth and angiogenesis in three-dimensional vascularized microtumor models (VMT) in vitro. In addition, ARN22089 has a favorable pharmacokinetic profile and can inhibit the growth of BRAF mutant mouse melanomas and patient-derived xenografts in vivo. Taken together, this work identifies a promising new class of therapeutic agents that influence tumor growth by modulating CDC42 signaling in both the tumor cell and its microenvironment.

Competing Interest Statement

Anand Ganesan and Marco De Vivo are co-founders of a company entitled Alyra Therapeutics based on the technology presented in this manuscript.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted October 14, 2021.
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Structure-based Design of CDC42 Effector Interaction Inhibitors For the Treatment of Cancer
Sohail Jahid, Jose A. Ortega, Linh M. Vuong, Isabella Maria Acquistapace, Stephanie J. Hachey, Jessica L. Flesher, Maria Antonietta La Serra, Nicoletta Brindani, Giuseppina La Sala, Jacopo Manigrasso, Jose M. Arencibia, Sine Mandrup Bertozzi, Maria Summa, Rosalia Bertorelli, Andrea Armirotti, Rongsheng Jin, Zheng Liu, Chi-Fen Chen, Robert Edwards, Christopher C.W. Hughes, Marco De Vivo, Anand K. Ganesan
bioRxiv 2021.10.14.464305; doi: https://doi.org/10.1101/2021.10.14.464305
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Structure-based Design of CDC42 Effector Interaction Inhibitors For the Treatment of Cancer
Sohail Jahid, Jose A. Ortega, Linh M. Vuong, Isabella Maria Acquistapace, Stephanie J. Hachey, Jessica L. Flesher, Maria Antonietta La Serra, Nicoletta Brindani, Giuseppina La Sala, Jacopo Manigrasso, Jose M. Arencibia, Sine Mandrup Bertozzi, Maria Summa, Rosalia Bertorelli, Andrea Armirotti, Rongsheng Jin, Zheng Liu, Chi-Fen Chen, Robert Edwards, Christopher C.W. Hughes, Marco De Vivo, Anand K. Ganesan
bioRxiv 2021.10.14.464305; doi: https://doi.org/10.1101/2021.10.14.464305

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