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Han H, Jain AD, Truica MI, Izquierdo-Ferrer J, Anker JF, Lysy B, Sagar V, Luan Y, Chalmers ZR, Unno K, Mok H, Vatapalli R, Yoo YA, Rodriguez Y, Kandela I, Parker JB, Chakravarti D, Mishra RK, Schiltz GE, Abdulkadir SA. Small-Molecule MYC Inhibitors Suppress Tumor Growth and Enhance Immunotherapy. Cancer Cell 2019; 36:483-497.e15. [PMID: 31679823 PMCID: PMC6939458 DOI: 10.1016/j.ccell.2019.10.001] [Citation(s) in RCA: 234] [Impact Index Per Article: 46.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/06/2019] [Revised: 08/19/2019] [Accepted: 09/30/2019] [Indexed: 01/16/2023]
Abstract
Small molecules that directly target MYC and are also well tolerated in vivo will provide invaluable chemical probes and potential anti-cancer therapeutic agents. We developed a series of small-molecule MYC inhibitors that engage MYC inside cells, disrupt MYC/MAX dimers, and impair MYC-driven gene expression. The compounds enhance MYC phosphorylation on threonine-58, consequently increasing proteasome-mediated MYC degradation. The initial lead, MYC inhibitor 361 (MYCi361), suppressed in vivo tumor growth in mice, increased tumor immune cell infiltration, upregulated PD-L1 on tumors, and sensitized tumors to anti-PD1 immunotherapy. However, 361 demonstrated a narrow therapeutic index. An improved analog, MYCi975 showed better tolerability. These findings suggest the potential of small-molecule MYC inhibitors as chemical probes and possible anti-cancer therapeutic agents.
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Affiliation(s)
- Huiying Han
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Atul D Jain
- Center for Molecular Innovation and Drug Discovery, Northwestern University, Evanston, IL 60208, USA
| | - Mihai I Truica
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Javier Izquierdo-Ferrer
- Center for Molecular Innovation and Drug Discovery, Northwestern University, Evanston, IL 60208, USA
| | - Jonathan F Anker
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Barbara Lysy
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Vinay Sagar
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Yi Luan
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Zachary R Chalmers
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Kenji Unno
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Hanlin Mok
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Rajita Vatapalli
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Young A Yoo
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Yara Rodriguez
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Irawati Kandela
- Center for Developmental Therapeutics, Northwestern University, Evanston, IL 60208, USA
| | - J Brandon Parker
- Division of Reproductive Science in Medicine, Department of OB/GYN, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
| | - Debabrata Chakravarti
- Division of Reproductive Science in Medicine, Department of OB/GYN, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA; The Robert H. Lurie Comprehensive Cancer Center, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA; Department of Pharmacology, Northwestern University Feinberg School of Medicine, Chicago IL 60611, USA
| | - Rama K Mishra
- Center for Molecular Innovation and Drug Discovery, Northwestern University, Evanston, IL 60208, USA; Department of Pharmacology, Northwestern University Feinberg School of Medicine, Chicago IL 60611, USA
| | - Gary E Schiltz
- Center for Molecular Innovation and Drug Discovery, Northwestern University, Evanston, IL 60208, USA; The Robert H. Lurie Comprehensive Cancer Center, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA; Department of Pharmacology, Northwestern University Feinberg School of Medicine, Chicago IL 60611, USA
| | - Sarki A Abdulkadir
- Department of Urology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA; The Robert H. Lurie Comprehensive Cancer Center, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA; Department of Pathology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA.
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Acar C, Yalçın G, Ertan-Bolelli T, Kaynak Onurdağ F, Ökten S, Şener F, Yıldız İ. Synthesis and molecular docking studies of some novel antimicrobial benzamides. Bioorg Chem 2019; 94:103368. [PMID: 31699395 DOI: 10.1016/j.bioorg.2019.103368] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Revised: 10/09/2019] [Accepted: 10/14/2019] [Indexed: 11/24/2022]
Abstract
Common use of classical antibiotics has caused to the growing emergence of many resistant strains of pathogenic bacteria. Therefore, we aimed to synthesize a number of N-(2-hydroxy-(4 or 5)-nitrophenyl)benzamide derivatives as a new class of antimicrobial compounds. Moreover, our second goal is to predict the interaction between active structures and enzymes (DNA -gyrase and FtsA) in the binding mode. In this study, thirteen N-(2-hydroxy-(4 or 5-nitrophenyl)-substituted-benzamides were synthesized and determined for their antimicrobial activity using the microdilution method. According to this work, none of the compounds showed any activity against Candida albicans and its clinical isolate. Some of the benzamides (4N1, 5N1, 5N2) displayed very significant activity against Staphylococcus aureus and MSSA with <4 µg/ml MIC value, even they were found to be more potent than ceftazidime. 4N1 was also found to be more effective than gentamicin against Enterococcus faecalis clinical isolate. Molecular docking studies revealed that 4N1, 5N1, and 5N2 showed a good interactions with DNA-gyrase. Moreover, 5N1 has interacted with FtsA enzyme in the binding mode, as well. Only compound 5N4 displayed very good activity against Escherichia coli ATCC 25922. These findings showed us that 4N1, 5N1, 5N2, and 5N4 could be lead compounds to discover new antibacterial candidates against multidrug-resistant strains.
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Affiliation(s)
- Cemre Acar
- Ankara University, Faculty of Pharmacy, Department of Pharmaceutical Chemistry, 06560 Yenimahalle, Ankara, Turkey
| | - Gozde Yalçın
- Ankara University, Biotechnology Institute, 06560 Yenimahalle, Ankara, Turkey; Recep Tayyip Erdogan University, Faculty of Engineering, Bioengineering Department, 53100 Rize, Turkey
| | - Tuğba Ertan-Bolelli
- Ankara University, Faculty of Pharmacy, Department of Pharmaceutical Chemistry, 06560 Yenimahalle, Ankara, Turkey
| | - Fatma Kaynak Onurdağ
- Trakya University Faculty of Pharmacy Department of Pharmaceutical Microbiology, 22030 Edirne, Turkey
| | - Suzan Ökten
- Trakya University Faculty of Pharmacy Department of Pharmaceutical Microbiology, 22030 Edirne, Turkey
| | - Funda Şener
- Ankara University, Faculty of Pharmacy, Department of Pharmaceutical Chemistry, 06560 Yenimahalle, Ankara, Turkey
| | - İlkay Yıldız
- Ankara University, Faculty of Pharmacy, Department of Pharmaceutical Chemistry, 06560 Yenimahalle, Ankara, Turkey.
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High throughput screening against pantothenate synthetase identifies amide inhibitors against Mycobacterium tuberculosis and Staphylococcus aureus. In Silico Pharmacol 2018; 6:9. [PMID: 30607322 DOI: 10.1007/s40203-018-0046-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2018] [Accepted: 04/10/2018] [Indexed: 01/14/2023] Open
Abstract
Abstract Pantothenate is a crucial enzyme for the synthesis of coenzyme A and acyl carrier protein in Mycobacterium tuberculosis and Staphylococcus aureus. It is indispensable for the growth and survival of these bacteria. Amides analogs are designed and have been used as inhibitors of pantothenate synthetase. Molecular docking approach has been used to design and predict the drug activity of molecule to the specific disease. In this work, more than hundred amides have been screened by Discovery Studio molecular docking programme to search best suitable molecule for the treatment of Mycobacterium tuberculosis. Pharmacophore generation has been done to recognize the binding modes of inhibitors in the receptor active site. To observe the stability and flexibility of inhibitors molecular dynamics (MD) simulation has been done; Lipinski's rule of five protocols is followed to screen drug likeness and ADMET (absorption, distribution, metabolism, excretion and toxicity) filtration is also used to value toxicity. DFT computation of optimized geometry and derivation of MOs has been used to correlate the drug likeness. The small difference in energy between HOMO and LUMO may help to activate the drug in the protein environment quickly. 2-Hydroxy-5-[(E)-2-{4-[(prop-2-enamido)sulfonyl]phenyl}diazen-1-yl]benzoic acid (M1) shows best theoretical efficiency against Mycobacterium tuberculosis (MTB) pantothenate synthetase and so does 2-hydroxy-5-[(E)-2-{4-[(2-phenylacetamido)sulfonyl]phenyl}diazen-1-yl]benzoic acid (M2) against Staphylococcus aureus pantothenate synthetase. These compounds also bind to Adenine-Thymine region of tuberculosis DNA. Graphical abstract
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Zilifdar F, Foto E, Ertan-Bolelli T, Aki-Yalcin E, Yalcin I, Diril N. Biological evaluation and pharmacophore modeling of some benzoxazoles and their possible metabolites. Arch Pharm (Weinheim) 2018; 351. [DOI: 10.1002/ardp.201700265] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2017] [Revised: 12/17/2017] [Accepted: 01/02/2018] [Indexed: 12/15/2022]
Affiliation(s)
- Fatma Zilifdar
- Faculty of Science; Department of Molecular Biology; Hacettepe University; Ankara Turkey
| | - Egemen Foto
- Faculty of Science; Department of Molecular Biology; Hacettepe University; Ankara Turkey
| | - Tugba Ertan-Bolelli
- Faculty of Pharmacy; Department of Pharmaceutical Chemistry; Ankara University; Ankara Turkey
| | - Esin Aki-Yalcin
- Faculty of Pharmacy; Department of Pharmaceutical Chemistry; Ankara University; Ankara Turkey
| | - Ismail Yalcin
- Faculty of Pharmacy; Department of Pharmaceutical Chemistry; Ankara University; Ankara Turkey
| | - Nuran Diril
- Faculty of Science; Department of Molecular Biology; Hacettepe University; Ankara Turkey
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Bolelli K, Musdal Y, Aki-Yalcin E, Mannervik B, Yalcin I. Synthesis and activity mechanism of some novel 2-substituted benzothiazoles as hGSTP1-1 enzyme inhibitors. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2017; 28:927-940. [PMID: 29206502 DOI: 10.1080/1062936x.2017.1402820] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2017] [Accepted: 11/06/2017] [Indexed: 06/07/2023]
Abstract
Human GSTP1-1 is one of the most important proteins, which overexpresses in a large number of human tumours and is involved in the development of resistance to several anticancer drugs. So, it has become an important target in cancer treatment. In this study, 12 benzothiazole derivatives were synthesized and screened for their in vitro inhibitory activity for hGSTP1-1. Among these compounds, two of them (compounds #2 and #5) have been found to be the leads when compared with the reference drug etoposide. In order to analyse the structure-activity relationships (SARs) and to investigate the binding side interactions of the observed lead compounds, a HipHop pharmacophore model was generated and the molecular docking studies were performed by using CDocker method. In conclusion, it is observed that the lead compounds #2 and #5 possessed inhibitory activity on the hGSTP1-1 by binding to the H-site as a substrate in which the para position of the phenyl ring of the benzamide moiety on the benzothiazole ring is important. Substitution at this position with a hydrophobic group that reduces the electron density at the phenyl ring is required for the interaction with the H side active residue Tyr108.
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Affiliation(s)
- K Bolelli
- a Department of Pharmaceutical Chemistry, Faculty of Pharmacy , Ankara University , Ankara , Turkey
| | - Y Musdal
- b Department of Neurochemistry , Stockholm University , Stockholm , Sweden
| | - E Aki-Yalcin
- a Department of Pharmaceutical Chemistry, Faculty of Pharmacy , Ankara University , Ankara , Turkey
| | - B Mannervik
- b Department of Neurochemistry , Stockholm University , Stockholm , Sweden
| | - I Yalcin
- a Department of Pharmaceutical Chemistry, Faculty of Pharmacy , Ankara University , Ankara , Turkey
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Taşdemir D, Karaküçük-İyidoğan A, Ulaşli M, Taşkin-Tok T, Oruç-Emre EE, Bayram H. Synthesis, Molecular Modeling, and Biological Evaluation of Novel Chiral Thiosemicarbazone Derivatives as Potent Anticancer Agents. Chirality 2014; 27:177-88. [DOI: 10.1002/chir.22408] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2014] [Revised: 09/29/2014] [Accepted: 10/13/2014] [Indexed: 12/13/2022]
Affiliation(s)
- Demet Taşdemir
- Gaziantep University; Faculty of Science and Arts, Department of Chemistry; Gaziantep Turkey
| | | | - Mustafa Ulaşli
- Gaziantep University; Faculty of Medicine, Department of Medical Biology; Sehitkamil Gaziantep Turkey
| | - Tuğba Taşkin-Tok
- Gaziantep University; Faculty of Science and Arts, Department of Chemistry; Gaziantep Turkey
| | - Emİne Elçİn Oruç-Emre
- Gaziantep University; Faculty of Science and Arts, Department of Chemistry; Gaziantep Turkey
| | - Hasan Bayram
- Gaziantep University; Faculty of Medicine, Department of Pulmonary Diseases; Sehitkamil Gaziantep Turkey
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Yilmaz S, Altinkanat-Gelmez G, Bolelli K, Guneser-Merdan D, Over-Hasdemir MU, Yildiz I, Aki-Yalcin E, Yalcin I. Pharmacophore generation of 2-substituted benzothiazoles as AdeABC efflux pump inhibitors in A. baumannii. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2014; 25:551-563. [PMID: 24905472 DOI: 10.1080/1062936x.2014.919357] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
RND family efflux pumps are important for multidrug resistance in Gram-negative bacteria. To date no efflux pump inhibitors for clinical use have been found, so developing the specific inhibitors of this pump system will be beneficial for the treatment of infections caused by these multidrug-resistant pathogens. A set of BSN-coded 2-substituted benzothiazoles were tested alone and in combination with ciprofloxacin (CIP) against the RND family efflux pump AdeABC overexpressor Acinetobacter baumannii SbMox-2 strain. The results indicated that the BSN compounds did not have antimicrobial activity when tested alone. However, if they were applied in combination with CIP, it was observed that the antibiotic had antimicrobial activity against the tested pathogen, possessing a minimum inhibitory concentration value that could be utilized in clinical treatment. A 3D-common features pharmacophore model was applied by using the HipHop method and the generated pharmacophore hypothesis revealed that the hydrogen bond acceptor property of nitrogen in the thiazole ring and the oxygen of the amide substituted at the second position of the benzothiazole ring system were significant for binding to the target protein. Moreover, three hydrophobic aromatic features were found to be essential for inhibitory activity.
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Affiliation(s)
- S Yilmaz
- a Pharmaceutical Chemistry Dept., Faculty of Pharmacy , Ankara University , Ankara , Turkey
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8
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Kalyanaraman L, Ganesh KKS, Kumar RM, Pichai R, Narasimhan S, Vyas K. AN NMR AND LC-MS BASED MIXTURE ANALYSIS APPROACH FOR STRUCTURAL ELUCIDATION OF ANTIMICROBIAL DERIVATIVES OF CALOPHYLLOLIDE. J LIQ CHROMATOGR R T 2012. [DOI: 10.1080/10826076.2011.621155] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- L. Kalyanaraman
- a Dr. Reddy's Laboratories Ltd, IPDO , Bachupally , Hyderabad , India
- b Department of Chemistry , Presidency College , Chennai , India
| | - K. K. Sree Ganesh
- a Dr. Reddy's Laboratories Ltd, IPDO , Bachupally , Hyderabad , India
| | - R. Mohan Kumar
- c Asthagiri Herbal Research Foundation, Tambaram , Chennai , India
| | - R. Pichai
- b Department of Chemistry , Presidency College , Chennai , India
| | - S. Narasimhan
- c Asthagiri Herbal Research Foundation, Tambaram , Chennai , India
| | - K. Vyas
- a Dr. Reddy's Laboratories Ltd, IPDO , Bachupally , Hyderabad , India
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Arisoy M, Temiz-Arpaci O, Yildiz I, Kaynak-Onurdag F, Aki E, Yalcin I, Abbasoglu U. Synthesis, antimicrobial activity and QSAR studies of 2,5-disubstituted benzoxazoles. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2008; 19:589-612. [PMID: 18853304 DOI: 10.1080/10629360802348738] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
In this study, a new series of 2,5-disubstituted benzoxazoles was synthesized and their structures were elucidated by elemental analysis, MASS, (1)H-NMR, (13)C-NMR and IR spectral data. Newly and previously synthesized 2,5-disubstituted benzoxazole derivatives were evaluated for antibacterial and antifungal activity against standard strains and their drug-resistant isolates. Microbiological results showed that the compounds presented a large spectrum of activity having MIC values of 250-7.8 microg mL(-1) against the tested microorganisms. Among the newly synthesized derivatives 3-22, compound 11 was the most active against Candida krusei out of all; however, it was one dilution less potent than standard drug fluconazole. In addition, all the new and previous compounds were more active than standard drugs ampicillin trihydrate and rifampicin against Pseudomonas aeruginosa and its gentamicin-resistant isolate. The 2D-QSAR (Quantitative Structure-Activity Relationship) analysis of a set of newly and previously synthesized benzoxazoles tested for growth inhibitory activity against methicillin-resistant Staphylococcus aureus (MRSA) was also performed by using multivariable regression analysis. The activity contributions for substituent effects of these compounds were determined from the correlation equation for predictions of the lead optimization.
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Affiliation(s)
- M Arisoy
- Faculty of Pharmacy, Department of Pharmaceutical Chemistry, Ankara University, Ankara, Turkey
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Robinson A, Thomas GL, Spandl RJ, Welch M, Spring DR. Gemmacin B: bringing diversity back into focus. Org Biomol Chem 2008; 6:2978-81. [DOI: 10.1039/b809038f] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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