Literature DB >> 27396271

Drugging Ras GTPase: a comprehensive mechanistic and signaling structural view.

Shaoyong Lu1, Hyunbum Jang, Shuo Gu, Jian Zhang, Ruth Nussinov.   

Abstract

Ras proteins are small GTPases, cycling between inactive GDP-bound and active GTP-bound states. Through these switches they regulate signaling that controls cell growth and proliferation. Activating Ras mutations are associated with approximately 30% of human cancers, which are frequently resistant to standard therapies. Over the past few years, structural biology and in silico drug design, coupled with improved screening technology, led to a handful of promising inhibitors, raising the possibility of drugging Ras proteins. At the same time, the invariable emergence of drug resistance argues for the critical importance of additionally honing in on signaling pathways which are likely to be involved. Here we overview current advances in Ras structural knowledge, including the conformational dynamic of full-length Ras in solution and at the membrane, therapeutic inhibition of Ras activity by targeting its active site, allosteric sites, and Ras-effector protein-protein interfaces, Ras dimers, the K-Ras4B/calmodulin/PI3Kα trimer, and targeting Ras with siRNA. To mitigate drug resistance, we propose signaling pathways that can be co-targeted along with Ras and explain why. These include pathways leading to the expression (or activation) of YAP1 and c-Myc. We postulate that these and Ras signaling pathways, MAPK/ERK and PI3K/Akt/mTOR, act independently and in corresponding ways in cell cycle control. The structural data are instrumental in the discovery and development of Ras inhibitors for treating RAS-driven cancers. Together with the signaling blueprints through which drug resistance can evolve, this review provides a comprehensive and innovative master plan for tackling mutant Ras proteins.

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Year:  2016        PMID: 27396271      PMCID: PMC5021603          DOI: 10.1039/c5cs00911a

Source DB:  PubMed          Journal:  Chem Soc Rev        ISSN: 0306-0012            Impact factor:   54.564


  238 in total

1.  Carboxyl methylation of Ras regulates membrane targeting and effector engagement.

Authors:  Vi K Chiu; Joseph Silletti; Victoria Dinsell; Heidi Wiener; Kristina Loukeris; Guoming Ou; Mark R Philips; Michael H Pillinger
Journal:  J Biol Chem       Date:  2003-12-02       Impact factor: 5.157

Review 2.  Direct Inhibitors of Ras-Effector Protein Interactions.

Authors:  Punit Upadhyaya; Walaa Bedewy; Dehua Pei
Journal:  Mini Rev Med Chem       Date:  2016       Impact factor: 3.862

3.  Inherited susceptibility to lung cancer may be associated with the T790M drug resistance mutation in EGFR.

Authors:  Daphne W Bell; Ira Gore; Ross A Okimoto; Nadia Godin-Heymann; Raffaella Sordella; Roseann Mulloy; Sreenath V Sharma; Brian W Brannigan; Gayatry Mohapatra; Jeff Settleman; Daniel A Haber
Journal:  Nat Genet       Date:  2005-10-30       Impact factor: 38.330

Review 4.  Principles of protein-protein interactions: what are the preferred ways for proteins to interact?

Authors:  Ozlem Keskin; Attila Gursoy; Buyong Ma; Ruth Nussinov
Journal:  Chem Rev       Date:  2008-03-21       Impact factor: 60.622

Review 5.  Harnessing allostery: a novel approach to drug discovery.

Authors:  Shaoyong Lu; Shuai Li; Jian Zhang
Journal:  Med Res Rev       Date:  2014-05-14       Impact factor: 12.944

6.  ABT-199, a potent and selective BCL-2 inhibitor, achieves antitumor activity while sparing platelets.

Authors:  Andrew J Souers; Joel D Leverson; Erwin R Boghaert; Scott L Ackler; Nathaniel D Catron; Jun Chen; Brian D Dayton; Hong Ding; Sari H Enschede; Wayne J Fairbrother; David C S Huang; Sarah G Hymowitz; Sha Jin; Seong Lin Khaw; Peter J Kovar; Lloyd T Lam; Jackie Lee; Heather L Maecker; Kennan C Marsh; Kylie D Mason; Michael J Mitten; Paul M Nimmer; Anatol Oleksijew; Chang H Park; Cheol-Min Park; Darren C Phillips; Andrew W Roberts; Deepak Sampath; John F Seymour; Morey L Smith; Gerard M Sullivan; Stephen K Tahir; Chris Tse; Michael D Wendt; Yu Xiao; John C Xue; Haichao Zhang; Rod A Humerickhouse; Saul H Rosenberg; Steven W Elmore
Journal:  Nat Med       Date:  2013-01-06       Impact factor: 53.440

7.  The RAS-Binding Domain of Human BRAF Protein Serine/Threonine Kinase Exhibits Allosteric Conformational Changes upon Binding HRAS.

Authors:  James M Aramini; Sergey M Vorobiev; Lynda M Tuberty; Haleema Janjua; Elliot T Campbell; Jayaraman Seetharaman; Min Su; Yuanpeng J Huang; Thomas B Acton; Rong Xiao; Liang Tong; Gaetano T Montelione
Journal:  Structure       Date:  2015-07-09       Impact factor: 5.006

8.  Andrographolide derivatives inhibit guanine nucleotide exchange and abrogate oncogenic Ras function.

Authors:  Harrison J Hocker; Kwang-Jin Cho; Chung-Ying K Chen; Nandini Rambahal; Sreenivasa Rao Sagineedu; Khozirah Shaari; Johnson Stanslas; John F Hancock; Alemayehu A Gorfe
Journal:  Proc Natl Acad Sci U S A       Date:  2013-06-04       Impact factor: 11.205

9.  The structural basis for the transition from Ras-GTP to Ras-GDP.

Authors:  Brian E Hall; Dafna Bar-Sagi; Nicolas Nassar
Journal:  Proc Natl Acad Sci U S A       Date:  2002-09-04       Impact factor: 11.205

10.  Novel allosteric sites on Ras for lead generation.

Authors:  Barry J Grant; Suryani Lukman; Harrison J Hocker; Jaqueline Sayyah; Joan Heller Brown; J Andrew McCammon; Alemayehu A Gorfe
Journal:  PLoS One       Date:  2011-10-25       Impact factor: 3.240

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  57 in total

1.  The structural basis for Ras activation of PI3Kα lipid kinase.

Authors:  Mingzhen Zhang; Hyunbum Jang; Ruth Nussinov
Journal:  Phys Chem Chem Phys       Date:  2019-06-05       Impact factor: 3.676

Review 2.  Inhibition of Nonfunctional Ras.

Authors:  Ruth Nussinov; Hyunbum Jang; Attila Gursoy; Ozlem Keskin; Vadim Gaponenko
Journal:  Cell Chem Biol       Date:  2021-01-12       Impact factor: 8.116

3.  TBK1 Provides Context-Selective Support of the Activated AKT/mTOR Pathway in Lung Cancer.

Authors:  Jonathan M Cooper; Yi-Hung Ou; Elizabeth A McMillan; Rachel M Vaden; Aubhishek Zaman; Brian O Bodemann; Gurbani Makkar; Bruce A Posner; Michael A White
Journal:  Cancer Res       Date:  2017-07-17       Impact factor: 12.701

Review 4.  Oncogenic Ras Isoforms Signaling Specificity at the Membrane.

Authors:  Ruth Nussinov; Chung-Jung Tsai; Hyunbum Jang
Journal:  Cancer Res       Date:  2017-12-22       Impact factor: 12.701

5.  The Plasma Membrane as a Competitive Inhibitor and Positive Allosteric Modulator of KRas4B Signaling.

Authors:  Chris Neale; Angel E García
Journal:  Biophys J       Date:  2020-01-22       Impact factor: 4.033

6.  Flexible-body motions of calmodulin and the farnesylated hypervariable region yield a high-affinity interaction enabling K-Ras4B membrane extraction.

Authors:  Hyunbum Jang; Avik Banerjee; Tanmay Chavan; Vadim Gaponenko; Ruth Nussinov
Journal:  J Biol Chem       Date:  2017-06-16       Impact factor: 5.157

7.  Computational dissection of allosteric inhibition of the SH2 domain of Bcr-Abl kinase by the monobody inhibitor AS25.

Authors:  Mingfei Ji; Guodong Zheng; Xiaolong Li; Zhongqin Zhang; Guanqun Jv; Xiaowei Wang; Jialin Wang
Journal:  J Mol Model       Date:  2017-05-09       Impact factor: 1.810

Review 8.  Intrinsic protein disorder in oncogenic KRAS signaling.

Authors:  Ruth Nussinov; Hyunbum Jang; Chung-Jung Tsai; Tsung-Jen Liao; Shuai Li; David Fushman; Jian Zhang
Journal:  Cell Mol Life Sci       Date:  2017-06-08       Impact factor: 9.261

Review 9.  Calmodulin and PI3K Signaling in KRAS Cancers.

Authors:  Ruth Nussinov; Guanqiao Wang; Chung-Jung Tsai; Hyunbum Jang; Shaoyong Lu; Avik Banerjee; Jian Zhang; Vadim Gaponenko
Journal:  Trends Cancer       Date:  2017-02-18

10.  Structural Dynamics in Ras and Related Proteins upon Nucleotide Switching.

Authors:  Rane A Harrison; Jia Lu; Martin Carrasco; John Hunter; Anuj Manandhar; Sudershan Gondi; Kenneth D Westover; John R Engen
Journal:  J Mol Biol       Date:  2016-10-14       Impact factor: 5.469

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