Blocking Ras inhibition as an antitumor strategy.

Ras proteins are among the most frequently mutated drivers in human cancer and remain an elusive pharmaceutical targeting. Previous studies have improved the understanding of Ras structure, processing, and signaling pathways in cancer cells and have opened new possibilities for inhibiting Ras function. In this review we discuss the most recent advances towards inhibiting Ras activity with small molecules, highlighting the two approaches: (i) compounds that bind directly to Ras protein and (ii) inhibitors of the enzymes involved in the post-translational modifications of Ras. In the former, we analyze the most recent contributions in each of the main classes of Ras direct binders, including the different types of nucleotide exchange inhibitors, allosteric compounds, and molecules that interfere with the interaction between Ras and its effectors. In the latter, we examine the compounds that inhibit Ras activation by blocking any of its post-translational modifications. Also, a special focus is made on those molecules that have progressed the farthest from medicinal chemistry and drug development points of view. Finally, the current scene regarding the clinical trials of Ras inhibitors, together with the future promising avenues for further development of the challenging Ras field are reviewed.

[1]  A. Jimeno,et al.  Integrated preclinical and clinical development of S-trans, trans-farnesylthiosalicylic acid (FTS, Salirasib) in pancreatic cancer , 2012, Investigational New Drugs.

[2]  I. Vetter,et al.  The Guanine Nucleotide-Binding Switch in Three Dimensions , 2001, Science.

[3]  G. Ladds,et al.  Ras activation revisited: role of GEF and GAP systems , 2015, Biological chemistry.

[4]  A. Adjei,et al.  Blocking oncogenic Ras signaling for cancer therapy. , 2001, Journal of the National Cancer Institute.

[5]  Taebo Sim,et al.  Therapeutic targeting of oncogenic K-Ras by a covalent catalytic site inhibitor. , 2014, Angewandte Chemie.

[6]  Helen Thompson,et al.  US National Cancer Institute's new Ras project targets an old foe , 2013, Nature Medicine.

[7]  A. Carroll,et al.  Spermatinamine, the first natural product inhibitor of isoprenylcysteine carboxyl methyltransferase, a new cancer target. , 2007, Bioorganic & medicinal chemistry letters.

[8]  M. Bergo,et al.  Rce1 deficiency accelerates the development of K-RAS-induced myeloproliferative disease. , 2007, Blood.

[9]  J. L. Bos,et al.  ras oncogenes in human cancer: a review. , 1989, Cancer research.

[10]  M. Bergo,et al.  Targeting the protein prenyltransferases efficiently reduces tumor development in mice with K-RAS-induced lung cancer , 2010, Proceedings of the National Academy of Sciences.

[11]  S. Sebti,et al.  Blockade of Protein Geranylgeranylation Inhibits Cdk2-Dependent p27Kip1 Phosphorylation on Thr187 and Accumulates p27Kip1 in the Nucleus: Implications for Breast Cancer Therapy , 2009, Molecular and Cellular Biology.

[12]  Ozlem Keskin,et al.  Ras Conformational Ensembles, Allostery, and Signaling. , 2016, Chemical reviews.

[13]  R. Gibbs,et al.  S-Farnesyl-Thiopropionic Acid (FTPA) Triazoles as Potent Inhibitors of Isoprenylcysteine Carboxyl Methyltransferase. , 2012, ACS medicinal chemistry letters.

[14]  Neal Rosen,et al.  Allele-specific inhibitors inactivate mutant KRAS G12C by a trapping mechanism , 2016, Science.

[15]  M. Bergo,et al.  Inactivating Icmt ameliorates K-RAS-induced myeloproliferative disease. , 2008, Blood.

[16]  David A. Scott,et al.  Potent and Selective Covalent Quinazoline Inhibitors of KRAS G12C. , 2017, Cell chemical biology.

[17]  P. Casey,et al.  Inactivation of Icmt inhibits transformation by oncogenic K-Ras and B-Raf. , 2004, The Journal of clinical investigation.

[18]  I. Mellman,et al.  Small-molecule ligands bind to a distinct pocket in Ras and inhibit SOS-mediated nucleotide exchange activity , 2012, Proceedings of the National Academy of Sciences.

[19]  R. Baron,et al.  A small-molecule inhibitor of isoprenylcysteine carboxyl methyltransferase with antitumor activity in cancer cells. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[20]  Khozirah Shaari,et al.  Andrographolide derivatives inhibit guanine nucleotide exchange and abrogate oncogenic Ras function , 2013, Proceedings of the National Academy of Sciences.

[21]  J. Otto,et al.  On the Physiological Importance of Endoproteolysis of CAAX Proteins , 2004, Journal of Biological Chemistry.

[22]  M. Philips,et al.  Where no Ras has gone before: VPS35 steers N-Ras through the cytosol , 2019, Small GTPases.

[23]  Lucio Crinò,et al.  Selumetinib plus docetaxel for KRAS-mutant advanced non-small-cell lung cancer: a randomised, multicentre, placebo-controlled, phase 2 study. , 2013, The Lancet. Oncology.

[24]  D. Bar-Sagi,et al.  Regulating the regulator: post-translational modification of RAS , 2011, Nature Reviews Molecular Cell Biology.

[25]  D. Esposito,et al.  Dragging ras back in the ring. , 2014, Cancer cell.

[26]  L. Wortmann,et al.  Latest Advances Towards Ras Inhibition: A Medicinal Chemistry Perspective. , 2016, Angewandte Chemie.

[27]  L. Pardo,et al.  Development of a Nucleotide Exchange Inhibitor That Impairs Ras Oncogenic Signaling. , 2017, Chemistry.

[28]  S. Fesik,et al.  Drugging the undruggable RAS: Mission Possible? , 2014, Nature Reviews Drug Discovery.

[29]  R. Greil,et al.  Endocrine therapy plus zoledronic acid in premenopausal breast cancer. , 2009, The New England journal of medicine.

[30]  Sarah R. Clippinger,et al.  Inhibition of Ras signaling by blocking Ras-effector interactions with cyclic peptides. , 2015, Angewandte Chemie.

[31]  Zhao-yong Yang,et al.  The discovery of a novel compound with potent antitumor activity: virtual screening, synthesis, biological evaluation and preliminary mechanism study , 2017, Oncotarget.

[32]  A. Carroll,et al.  Aplysamine 6, an alkaloidal inhibitor of Isoprenylcysteine carboxyl methyltransferase from the sponge Pseudoceratina sp. , 2008, Journal of natural products.

[33]  D. Bar-Sagi,et al.  Isoprenylcysteine carboxylmethyltransferase deficiency exacerbates KRAS-driven pancreatic neoplasia via Notch suppression. , 2013, The Journal of clinical investigation.

[34]  Jiro Shimada,et al.  In silico discovery of small-molecule Ras inhibitors that display antitumor activity by blocking the Ras–effector interaction , 2013, Proceedings of the National Academy of Sciences.

[35]  C. Fuchs,et al.  Preclinical and clinical pharmacodynamic assessment of L-778,123, a dual inhibitor of farnesyl:protein transferase and geranylgeranyl:protein transferase type-I. , 2002, Molecular cancer therapeutics.

[36]  M. Lewis,et al.  Direct Demonstration of Geranylgeranylation and Farnesylation of Ki-Ras in Vivo * , 1997, The Journal of Biological Chemistry.

[37]  S. Michaelis,et al.  Endoplasmic reticulum membrane localization of Rce1p and Ste24p, yeast proteases involved in carboxyl-terminal CAAX protein processing and amino-terminal a-factor cleavage. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[38]  Norbert Perrimon,et al.  Direct inhibition of oncogenic KRAS by hydrocarbon-stapled SOS1 helices , 2015, Proceedings of the National Academy of Sciences.

[39]  Paramjit S. Arora,et al.  An Orthosteric Inhibitor of the Ras-Sos Interaction , 2011, Nature chemical biology.

[40]  H. E. Smith,et al.  8-Hydroxyquinoline-based inhibitors of the Rce1 protease disrupt Ras membrane localization in human cells. , 2016, Bioorganic & medicinal chemistry.

[41]  S. Michaelis,et al.  Mammalian Prenylcysteine Carboxyl Methyltransferase Is in the Endoplasmic Reticulum* , 1998, The Journal of Biological Chemistry.

[42]  L. Perkins,et al.  Ras oncoprotein inhibitors: the discovery of potent, ras nucleotide exchange inhibitors and the structural determination of a drug-protein complex. , 1997, Bioorganic & medicinal chemistry.

[43]  J. Abbruzzese,et al.  A phase II study of farnesyl transferase inhibitor R115777 in pancreatic cancer: A Southwest oncology group (SWOG 9924) study , 2005, Investigational New Drugs.

[44]  Taebo Sim,et al.  Covalent Guanosine Mimetic Inhibitors of G12C KRAS. , 2017, ACS medicinal chemistry letters.

[45]  P. Casey,et al.  A Small Molecule Inhibitor of Isoprenylcysteine Carboxymethyltransferase Induces Autophagic Cell Death in PC3 Prostate Cancer Cells*♦ , 2008, Journal of Biological Chemistry.

[46]  J. Brown,et al.  Interaction of a novel GDP exchange inhibitor with the Ras protein. , 1998, Biochemistry.

[47]  R. Rando,et al.  Kinetic mechanism of isoprenylated protein methyltransferase. , 1992, Journal of Biological Chemistry.

[48]  J. Cherfils,et al.  Ras superfamily GEFs and GAPs: validated and tractable targets for cancer therapy? , 2010, Nature Reviews Cancer.

[49]  M. Kris,et al.  A Phase II Trial of Salirasib in Patients with Lung Adenocarcinomas with KRAS Mutations , 2011, Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer.

[50]  P. Casey,et al.  An improved isoprenylcysteine carboxylmethyltransferase inhibitor induces cancer cell death and attenuates tumor growth in vivo , 2014, Cancer biology & therapy.

[51]  H. Kantarjian,et al.  Phase I study of S-trans, trans-farnesylthiosalicylic acid (salirasib), a novel oral RAS inhibitor in patients with refractory hematologic malignancies. , 2015, Clinical lymphoma, myeloma & leukemia.

[52]  A. Gonçalves,et al.  L744,832 and Everolimus Induce Cytotoxic and Cytostatic Effects in Non-Hodgkin Lymphoma Cells , 2016, Pathology & Oncology Research.

[53]  Kotaro Sakamoto,et al.  Investigation of the structural requirements of K-Ras(G12D) selective inhibitory peptide KRpep-2d using alanine scans and cysteine bridging. , 2017, Bioorganic & medicinal chemistry letters.

[54]  Jie Zhang,et al.  Inhibitors of Ras/Raf-1 interaction identified by two-hybrid screening revert Ras-dependent transformation phenotypes in human cancer cells , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[55]  Kevan M. Shokat,et al.  K-Ras(G12C) inhibitors allosterically control GTP affinity and effector interactions , 2013, Nature.

[56]  Hao Wang,et al.  Phase II and pharmacodynamic study of the farnesyltransferase inhibitor R115777 as initial therapy in patients with metastatic pancreatic adenocarcinoma. , 2003, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[57]  M. Villalona-Calero,et al.  Inhibition of Ras-Effector Interaction by Cyclic Peptides. , 2013, MedChemComm.

[58]  Qi Sun,et al.  Discovery of small molecules that bind to K-Ras and inhibit Sos-mediated activation. , 2012, Angewandte Chemie.

[59]  Matthias Stein,et al.  Design, Synthesis and Biological Evaluation of Sugar‐Derived Ras Inhibitors , 2005, Chembiochem : a European journal of chemical biology.

[60]  P. Casey,et al.  Amino derivatives of indole as potent inhibitors of isoprenylcysteine carboxyl methyltransferase. , 2010, Journal of medicinal chemistry.

[61]  Harrison J. Hocker,et al.  Novel Allosteric Sites on Ras for Lead Generation , 2011, PloS one.

[62]  P. Casey,et al.  Isoprenylcysteine carboxylmethyltransferase is critical for malignant transformation and tumor maintenance by all RAS isoforms , 2017, Oncogene.

[63]  Ruth Nussinov,et al.  Inhibitors of Ras–SOS Interactions , 2016, ChemMedChem.

[64]  A. Carroll,et al.  Small-molecule inhibitors of the cancer target, isoprenylcysteine carboxyl methyltransferase, from Hovea parvicalyx. , 2008, Phytochemistry.

[65]  T. Möröy,et al.  Sulindac sulfide inhibits Ras signaling , 1998, Oncogene.

[66]  D. Bar-Sagi,et al.  RAS oncogenes: weaving a tumorigenic web , 2011, Nature Reviews Cancer.

[67]  Kotaro Sakamoto,et al.  K-Ras(G12D)-selective inhibitory peptides generated by random peptide T7 phage display technology. , 2017, Biochemical and biophysical research communications.

[68]  N. Brown,et al.  Interaction of GTP derivatives with cellular and oncogenic ras-p21 proteins. , 1991, Journal of medicinal chemistry.

[69]  E. Van Cutsem,et al.  Phase III trial of gemcitabine plus tipifarnib compared with gemcitabine plus placebo in advanced pancreatic cancer. , 2004, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[70]  W. Kabsch,et al.  Guanosine triphosphatase stimulation of oncogenic Ras mutants. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[71]  Matthew E. Welsch,et al.  Multivalent Small-Molecule Pan-RAS Inhibitors , 2017, Cell.

[72]  Dima Kozakov,et al.  Analysis of binding site hot spots on the surface of Ras GTPase. , 2011, Journal of molecular biology.

[73]  P. Kirschmeier,et al.  Synthesis and evaluation of pyrazolo[3,4-b]quinoline ribofuranosides and their derivatives as inhibitors of oncogenic Ras , 1996 .

[74]  P. Casey,et al.  Inhibition of purified p21 ras farnesyl:protein transferase by Cys-AAX tetrapeptides , 1990, Cell.

[75]  Philipp M. Cromm,et al.  Direct Modulation of Small GTPase Activity and Function. , 2015, Angewandte Chemie.

[76]  M. Philips,et al.  Thematic review series: Lipid Posttranslational Modifications CAAX modification and membrane targeting of Ras Published, JLR Papers in Press, March 16, 2006. , 2006, Journal of Lipid Research.

[77]  S. Sogabe,et al.  Crystal Structure of a Human K-Ras G12D Mutant in Complex with GDP and the Cyclic Inhibitory Peptide KRpep-2d. , 2017, ACS medicinal chemistry letters.

[78]  Yi Liu,et al.  Selective Inhibition of Oncogenic KRAS Output with Small Molecules Targeting the Inactive State. , 2016, Cancer discovery.

[79]  F. Tamanoi,et al.  Inhibitors of Protein Geranylgeranyltransferase I and Rab Geranylgeranyltransferase Identified from a Library of Allenoate-derived Compounds* , 2008, Journal of Biological Chemistry.

[80]  R. Gibbs,et al.  Probing the isoprenylcysteine carboxyl methyltransferase (Icmt) binding pocket: sulfonamide modified farnesyl cysteine (SMFC) analogs as Icmt inhibitors. , 2011, Bioorganic & medicinal chemistry letters.

[81]  Kevan M. Shokat,et al.  Ras Binder Induces a Modified Switch-II Pocket in GTP and GDP States. , 2017, Cell chemical biology.

[82]  P. Casey,et al.  Targeting Ras signaling through inhibition of carboxyl methylation: An unexpected property of methotrexate , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[83]  W. Jahnke,et al.  Discovery of Novel Allosteric Non‐Bisphosphonate Inhibitors of Farnesyl Pyrophosphate Synthase by Integrated Lead Finding , 2015, ChemMedChem.

[84]  W. Jahnke,et al.  Allosteric non-bisphosphonate FPPS inhibitors identified by fragment-based discovery. , 2010, Nature chemical biology.

[85]  T. Andersson,et al.  Inhibitors of Farnesyl and Geranylgeranyl Methyltransferases Prevent β2Integrin-Induced Actin Polymerization without Affecting β2Integrin-Induced Ca2+Signaling in Neutrophils , 1996 .

[86]  W. K. Schmidt,et al.  Small-Molecule Inhibitors of the Rce1p CaaX Protease , 2007, Journal of biomolecular screening.

[87]  S. Sebti,et al.  Targeting protein prenylation for cancer therapy , 2011, Nature Reviews Cancer.

[88]  J. Rine,et al.  Modulation of Ras and a-Factor Function by Carboxyl-Terminal Proteolysis , 1997, Science.

[89]  Carla Mattos,et al.  A comprehensive survey of Ras mutations in cancer. , 2012, Cancer research.

[90]  Y. Engelborghs,et al.  Role of the switch II region in the conformational transition of activation of Ha‐ras‐p21 , 2008, Protein science : a publication of the Protein Society.

[91]  P. Lyne,et al.  Targeting KRAS-dependent tumors with AZD4785, a high-affinity therapeutic antisense oligonucleotide inhibitor of KRAS , 2017, Science Translational Medicine.

[92]  J. Fagin,et al.  Transformation by HrasG12V is Consistently Associated with Mutant Allele Copy Gains and is Reversed by Farnesyl Transferase Inhibition , 2013, Oncogene.

[93]  W. R. Bishop,et al.  K- and N-Ras Are Geranylgeranylated in Cells Treated with Farnesyl Protein Transferase Inhibitors* , 1997, The Journal of Biological Chemistry.

[94]  P. Slattum,et al.  Discovery and SAR of methylated tetrahydropyranyl derivatives as inhibitors of isoprenylcysteine carboxyl methyltransferase (ICMT). , 2011, Journal of medicinal chemistry.