Literature DB >> 35378118

Allostery: Allosteric Cancer Drivers and Innovative Allosteric Drugs.

Ruth Nussinov1, Mingzhen Zhang2, Ryan Maloney2, Yonglan Liu2, Chung-Jung Tsai2, Hyunbum Jang2.   

Abstract

Here, we discuss the principles of allosteric activating mutations, propagation downstream of the signals that they prompt, and allosteric drugs, with examples from the Ras signaling network. We focus on Abl kinase where mutations shift the landscape toward the active, imatinib binding-incompetent conformation, likely resulting in the high affinity ATP outcompeting drug binding. Recent pharmacological innovation extends to allosteric inhibitor (GNF-5)-linked PROTAC, targeting Bcr-Abl1 myristoylation site, and broadly, allosteric heterobifunctional degraders that destroy targets, rather than inhibiting them. Designed chemical linkers in bifunctional degraders can connect the allosteric ligand that binds the target protein and the E3 ubiquitin ligase warhead anchor. The physical properties and favored conformational state of the engineered linker can precisely coordinate the distance and orientation between the target and the recruited E3. Allosteric PROTACs, noncompetitive molecular glues, and bitopic ligands, with covalent links of allosteric ligands and orthosteric warheads, increase the effective local concentration of productively oriented and placed ligands. Through covalent chemical or peptide linkers, allosteric drugs can collaborate with competitive drugs, degrader anchors, or other molecules of choice, driving innovative drug discovery.
Copyright © 2022 The Author(s). Published by Elsevier Ltd.. All rights reserved.

Entities:  

Keywords:  allosteric PROTAC; allosteric molecular glues; autoinhibition; ensembles; kinase drug discovery

Mesh:

Substances:

Year:  2022        PMID: 35378118      PMCID: PMC9398924          DOI: 10.1016/j.jmb.2022.167569

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   6.151


  282 in total

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Authors:  Kenta Terai; Michiyuki Matsuda
Journal:  EMBO J       Date:  2006-07-20       Impact factor: 11.598

Review 2.  RAS oncogenes: weaving a tumorigenic web.

Authors:  Yuliya Pylayeva-Gupta; Elda Grabocka; Dafna Bar-Sagi
Journal:  Nat Rev Cancer       Date:  2011-10-13       Impact factor: 60.716

3.  In Silico Modeling and Scoring of PROTAC-Mediated Ternary Complex Poses.

Authors:  Junzhuo Liao; Xueqing Nie; Ilona Christy Unarta; Spencer S Ericksen; Weiping Tang
Journal:  J Med Chem       Date:  2022-04-12       Impact factor: 7.446

Review 4.  The underappreciated role of allostery in the cellular network.

Authors:  Ruth Nussinov; Chung-Jung Tsai; Buyong Ma
Journal:  Annu Rev Biophys       Date:  2013-02-28       Impact factor: 12.981

5.  Delineating the role of cooperativity in the design of potent PROTACs for BTK.

Authors:  Adelajda Zorba; Chuong Nguyen; Yingrong Xu; Jeremy Starr; Kris Borzilleri; James Smith; Hongyao Zhu; Kathleen A Farley; WeiDong Ding; James Schiemer; Xidong Feng; Jeanne S Chang; Daniel P Uccello; Jennifer A Young; Carmen N Garcia-Irrizary; Lara Czabaniuk; Brandon Schuff; Robert Oliver; Justin Montgomery; Matthew M Hayward; Jotham Coe; Jinshan Chen; Mark Niosi; Suman Luthra; Jaymin C Shah; Ayman El-Kattan; Xiayang Qiu; Graham M West; Mark C Noe; Veerabahu Shanmugasundaram; Adam M Gilbert; Matthew F Brown; Matthew F Calabrese
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-16       Impact factor: 11.205

6.  BRAF gene duplication constitutes a mechanism of MAPK pathway activation in low-grade astrocytomas.

Authors:  Stefan Pfister; Wibke G Janzarik; Marc Remke; Aurélie Ernst; Wiebke Werft; Natalia Becker; Grischa Toedt; Andrea Wittmann; Christian Kratz; Heike Olbrich; Rezvan Ahmadi; Barbara Thieme; Stefan Joos; Bernhard Radlwimmer; Andreas Kulozik; Torsten Pietsch; Christel Herold-Mende; Astrid Gnekow; Guido Reifenberger; Andrey Korshunov; Wolfram Scheurlen; Heymut Omran; Peter Lichter
Journal:  J Clin Invest       Date:  2008-05       Impact factor: 14.808

7.  Assessing Measurable Residual Disease in Chronic Myeloid Leukemia. BCR-ABL1 IS in the Avant-Garde of Molecular Hematology.

Authors:  Vlad Moisoiu; Patric Teodorescu; Lorand Parajdi; Sergiu Pasca; Mihnea Zdrenghea; Delia Dima; Radu Precup; Ciprian Tomuleasa; Simona Soverini
Journal:  Front Oncol       Date:  2019-09-23       Impact factor: 6.244

8.  Identification and Phenotypic Characterization of Hsp90 Phosphorylation Sites That Modulate Virulence Traits in the Major Human Fungal Pathogen Candida albicans.

Authors:  Leenah Alaalm; Julia L Crunden; Mark Butcher; Ulrike Obst; Ryann Whealy; Carolyn E Williamson; Heath E O'Brien; Christiane Schaffitzel; Gordon Ramage; James Spencer; Stephanie Diezmann
Journal:  Front Cell Infect Microbiol       Date:  2021-08-27       Impact factor: 5.293

9.  Targeting Bcr-Abl by combining allosteric with ATP-binding-site inhibitors.

Authors:  Jianming Zhang; Francisco J Adrián; Wolfgang Jahnke; Sandra W Cowan-Jacob; Allen G Li; Roxana E Iacob; Taebo Sim; John Powers; Christine Dierks; Fangxian Sun; Gui-Rong Guo; Qiang Ding; Barun Okram; Yongmun Choi; Amy Wojciechowski; Xianming Deng; Guoxun Liu; Gabriele Fendrich; André Strauss; Navratna Vajpai; Stephan Grzesiek; Tove Tuntland; Yi Liu; Badry Bursulaya; Mohammad Azam; Paul W Manley; John R Engen; George Q Daley; Markus Warmuth; Nathanael S Gray
Journal:  Nature       Date:  2010-01-13       Impact factor: 49.962

10.  High-throughput, single-particle tracking reveals nested membrane domains that dictate KRasG12D diffusion and trafficking.

Authors:  Yerim Lee; Carey Phelps; Tao Huang; Barmak Mostofian; Lei Wu; Ying Zhang; Kai Tao; Young Hwan Chang; Philip Js Stork; Joe W Gray; Daniel M Zuckerman; Xiaolin Nan
Journal:  Elife       Date:  2019-11-01       Impact factor: 8.140

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  2 in total

1.  Allosteric regulation of autoinhibition and activation of c-Abl.

Authors:  Yonglan Liu; Mingzhen Zhang; Chung-Jung Tsai; Hyunbum Jang; Ruth Nussinov
Journal:  Comput Struct Biotechnol J       Date:  2022-08-11       Impact factor: 6.155

Review 2.  AlphaFold, Artificial Intelligence (AI), and Allostery.

Authors:  Ruth Nussinov; Mingzhen Zhang; Yonglan Liu; Hyunbum Jang
Journal:  J Phys Chem B       Date:  2022-08-17       Impact factor: 3.466

  2 in total

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