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Islam A, Chang YC, Chen XC, Weng CW, Chen CY, Wang CW, Chen MK, Tikhomirov AS, Shchekotikhin AE, Chueh PJ. Water-soluble 4-(dimethylaminomethyl)heliomycin exerts greater antitumor effects than parental heliomycin by targeting the tNOX-SIRT1 axis and apoptosis in oral cancer cells. eLife 2024; 12:RP87873. [PMID: 38567911 PMCID: PMC10990494 DOI: 10.7554/elife.87873] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/05/2024] Open
Abstract
The antibiotic heliomycin (resistomycin), which is generated from Streptomyces resistomycificus, has multiple activities, including anticancer effects. Heliomycin was first described in the 1960s, but its clinical applications have been hindered by extremely low solubility. A series of 4-aminomethyl derivatives of heliomycin were synthesized to increase water solubility; studies showed that they had anti-proliferative effects, but the drug targets remained unknown. In this study, we conducted cellular thermal shift assays (CETSA) and molecular docking simulations to identify and validate that heliomycin and its water-soluble derivative, 4-(dimethylaminomethyl)heliomycin (designated compound 4-dmH) engaged and targeted with sirtuin-1 (SIRT1) in p53-functional SAS and p53-mutated HSC-3 oral cancer cells. We further addressed the cellular outcome of SIRT1 inhibition by these compounds and found that, in addition to SIRT1, the water-soluble 4-dmH preferentially targeted a tumor-associated NADH oxidase (tNOX, ENOX2). The direct binding of 4-dmH to tNOX decreased the oxidation of NADH to NAD+ which diminished NAD+-dependent SIRT1 deacetylase activity, ultimately inducing apoptosis and significant cytotoxicity in both cell types, as opposed to the parental heliomycin-induced autophagy. We also observed that tNOX and SIRT1 were both upregulated in tumor tissues of oral cancer patients compared to adjacent normal tissues, suggesting their clinical relevance. Finally, the better therapeutic efficacy of 4-dmH was confirmed in tumor-bearing mice, which showed greater tNOX and SIRT1 downregulation and tumor volume reduction when treated with 4-dmH compared to heliomycin. Taken together, our in vitro and in vivo findings suggest that the multifaceted properties of water-soluble 4-dmH enable it to offer superior antitumor value compared to parental heliomycin, and indicated that it functions through targeting the tNOX-NAD+-SIRT1 axis to induce apoptosis in oral cancer cells.
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Affiliation(s)
- Atikul Islam
- Institute of Biomedical Sciences, National Chung Hsing UniversityTaichungTaiwan
| | - Yu-Chun Chang
- Institute of Biomedical Sciences, National Chung Hsing UniversityTaichungTaiwan
| | - Xiao-Chi Chen
- Institute of Biomedical Sciences, National Chung Hsing UniversityTaichungTaiwan
| | - Chia-Wei Weng
- Institute of Biomedical Sciences, National Chung Hsing UniversityTaichungTaiwan
- Institute of Medicine, Chung Shan Medical UniversityTaichungTaiwan
| | - Chien-Yu Chen
- Institute of Biomedical Sciences, National Chung Hsing UniversityTaichungTaiwan
| | - Che-Wei Wang
- Department of Otorhinolaryngology-Head and Neck Surgery, Changhua Christian HospitalChanghuaTaiwan
- Department of Post-Baccalaureate Medicine, College of Medicine, National Chung Hsing UniversityTaichungTaiwan
| | - Mu-Kuan Chen
- Department of Otorhinolaryngology-Head and Neck Surgery, Changhua Christian HospitalChanghuaTaiwan
- Department of Post-Baccalaureate Medicine, College of Medicine, National Chung Hsing UniversityTaichungTaiwan
| | | | | | - Pin Ju Chueh
- Institute of Biomedical Sciences, National Chung Hsing UniversityTaichungTaiwan
- Department of Post-Baccalaureate Medicine, College of Medicine, National Chung Hsing UniversityTaichungTaiwan
- Department of Medical Research, China Medical University HospitalTaichungTaiwan
- Graduate Institute of Basic Medicine, China Medical UniversityTaichungTaiwan
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Mathada BS, Basha NJ, Javeed M, Karunakar P, Venkatesulu A, Erappa K, Varsha A. Novel pyrimidines as COX-2 selective inhibitors: synthesis, DFT analysis, molecular docking and dynamic simulation studies. J Biomol Struct Dyn 2024; 42:1751-1764. [PMID: 37102863 DOI: 10.1080/07391102.2023.2202248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2022] [Accepted: 04/08/2023] [Indexed: 04/28/2023]
Abstract
Pyrimidine and its derivatives are associated with varieties of biological properties. Therefore, we herein reported the synthesis of four novel pyrimidines (2, 3, and 4a, b) derivatives. The structure of these molecules is confirmed by spectroscopic methods such as IR, NMR, and Mass analysis. The electronic behavior of synthesized compounds 4a, b and in silico drug design 4 c, d was explained by Density Functional Theory estimations at the DFT/B3LYP level via 6-31 G++ (d, p) replicates the structure and geometry. All the synthesized compounds were screened for their in vitro COX-1 and COX-2 inhibitory activity compared to standards Celecoxib and Ibuprofen. Compounds 3 and 4a afforded excellent COX-1 and COX-2 inhibitory activities at IC50 = 5.50 and 5.05 μM against COX-1, 0.85 and 0.65 μM against COX-2, respectively. The standard drugs Celecoxib and Ibuprofen showed inhibitory activity at IC50 = 6.34 and 3.1 μM against COX-1, 0.56 and 1.2 μM against COX-2, respectively. Further, these compounds showed high potential docking with SARS-CoV-2 Omicron protease & COX-2 and predicted drug-likeness for the pyrimidine analogs by using Molinspiration. The protein stability, fluctuations of APO-protein, protein-ligand complexes were investigated through Molecular Dynamics simulations studies using Desmond Maestro 11.3 and potential lead molecules were identified.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
| | - N Jeelan Basha
- Department of Chemistry, Indian Academy Degree College-Autonomous, Bengaluru, Karnataka, India
| | - Mohammad Javeed
- P. G. Department and Research Studies in Chemistry, Nrupatunga University, Bengaluru, Karnataka, India
| | - Prashantha Karunakar
- Department of Biotechnology, Dayananda Sagar College of Engineering, Bengaluru, Karnataka, India
| | - Adavala Venkatesulu
- Department of Post Graduate Studies & Research Centre in Physics, Govt. First Grade College, Hoskote, Karnataka, India
| | - Krishnakanth Erappa
- Department of Post Graduate Studies & Research Centre in Physics, Govt. First Grade College, Hoskote, Karnataka, India
| | - A Varsha
- Department of Biotechnology, PES University, Bengaluru, Karnataka, India
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Basavarajaiah SM, Badiger J, Nagesh GY, Gupta N, Karunakar P, Sridhar BT, Javeed M, Kiran KS, Rakesh B. Exploration of Indolo[3,2c]isoquinoline derived triazoles as potential antimicrobial and DNA cleavage agents: Synthesis, DFT calculations, and molecular modeling studies. Bioorg Chem 2023; 137:106598. [PMID: 37186963 DOI: 10.1016/j.bioorg.2023.106598] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Revised: 05/01/2023] [Accepted: 05/04/2023] [Indexed: 05/17/2023]
Abstract
Indole and its derivatives are well-known assorted motif in drug design and development. We here in reporting synthesis of new 9-chloro-1-(4-substituted phenyl)-12H-indolo[2,3-c][1,2,4]triazolo[3,4-a]isoquinolines 7 (a-h). Structures of the newly synthesized compounds were confirmed by making use of spectroscopic techniques like IR, NMR and Mass. The DFT calculations were taken for the selected molecules using CAM-B3LYP hybrid functional with a 6-31 + g(d) all-electron basis set using the Gaussian 09 package. The drug-likeness predictions were described for the synthesized derivatives. The In vitro antimicrobial and DNA cleavage activities were reported for all compounds 7 (a-h). The compounds 7a, 7b, and 7h showed excellent microbial inhibition and DNA cleavage activity as compared to standard drugs. Furthermore, the docking studies for the newly synthesized molecules were carried out by Auto dock software with two molecular targets Epidermal Growth Factor Receptor tyrosine kinase (1 M17) and C-kit Tyrosine Kinase (1 T46) exhibited better binding affinity of all synthesized compounds. In addition, the docking results were observed to be in full agreement with the in vitro DNA cleavage assay suggesting the potential of synthesized metal complexes in biological applications. Lastly, the protein stability, fluctuations of APO-Protein, and protein-ligand complexes were investigated through Molecular Dynamics (MD) simulations studies using Desmond Maestro 11.3 and potential lead molecules were identified.
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Affiliation(s)
| | - Jaishree Badiger
- Department of Chemistry, MSI Degree College, Kalaburagi 585101, Karnataka, India
| | | | - Nidhi Gupta
- M. M. College of Pharmacy, Maharishi Markandeshwar (DEEMED TO BE UNIVERSITY) Mullana, Ambala 133207, Haryana, India
| | - Prashantha Karunakar
- Department of Biotechnology, Dayananda Sagar College of Engineering (Affiliated to Visvesvaraya Technological University, Belagavi), Kumaraswamy Layout, Bangalore 560111 Karnataka, India
| | - Bilgumba Thimmaiah Sridhar
- Department of Chemistry, Maharani Science College for Women, Maharani Cluster University, Benagaluru 560001, Karnataka, India
| | - Mohammad Javeed
- P. G. Department and Research Studies in Chemistry, Nrupatunga University, Bengaluru 560 001, Karnataka, India
| | - K S Kiran
- Department of Physics, Faculty of Engineering and Technology, Jain Deemed-to-be University, Kanakapura Road, Bangalore 562 112, Karnataka, India
| | - Budimath Rakesh
- Department of Studies in Chemistry, Davanagere University, Davanagere 577007, Karnataka, India
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Datar M, Dhanwad R, Javeed M, Gunavanthrao Yernale N, Suliphuldevara Mathada B. Synthesis, Structural Investigations, DFT Calculations, and Molecular Docking Studies of Novel 2-(Substituted-Aryloxymethyl)-5-(Pyridin-4-yl)-1, 3, 4-Oxadiazoles: Highly Potential InhA and Cytochrome c Peroxidase Inhibitors. Polycycl Aromat Compd 2023. [DOI: 10.1080/10406638.2023.2174997] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
Affiliation(s)
- Madhura Datar
- Department of Pharmaceutical Chemistry, Government College of Pharmacy, Bengaluru, Karnataka, India
| | - Ramagopal Dhanwad
- Department of Pharmaceutical Chemistry, Government College of Pharmacy, Bengaluru, Karnataka, India
| | - Mohammad Javeed
- P.G. Department and Research Studies in Chemistry, Nrupatunga University, Bengaluru, Karnataka, India
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Mathada BS, Basha NJ, Karunakar P, Periyasamy G, Somappa SB, Javeed M, Vanishree S. Investigation of embelin synthetic hybrids as potential COVID-19 and COX inhibitors: Synthesis, spectral analysis, DFT calculations and molecular docking studies. J Mol Struct 2023; 1273:134356. [PMID: 36277303 PMCID: PMC9575004 DOI: 10.1016/j.molstruc.2022.134356] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2022] [Revised: 09/28/2022] [Accepted: 10/16/2022] [Indexed: 11/05/2022]
Abstract
Embelin (2, 5-dihydroxy-3-undecyl-1,4-benzoquinone), a benzoquinone isolated from fruits of Embelia ribes has miscellaneous biological potentials including; anticancer, anti-inflammation, antibiotic, and anti-hyperglycemic activities. Also, embelin down-regulates the overexpression of inflammatory pathways like NF-kB, TACE, TNF-α, and other cytokines. Furthermore, embelin fascinated synthetic interest as a pharmacologically active compound. The present article involves the design, synthesis, DFT calculations, and molecular docking studies of embelin derivatives as cyclooxygenase inhibitors. The structure of these derivatives is confirmed by the various spectral analyses such as IR, NMR, and Mass. The DFT calculations were carried out for the molecules (1-8) using CAM-B3LYP hybrid functional with a 6-31+g(d) all-electron basis set using the Gaussian 09 package. Second-order harmonic vibrational calculations are used to check the minimum nature of the geometry. Further, HOMO and LUMO analyses were used for the charge transfer interface between the structures. Based on our previous work and structural activity relationship study, foresaid embelin derivatives were evaluated for in vitro COX-1 and COX-2 inhibitory activity. The compounds 3, 4, 7, and 8 demonstrated excellent COX inhibitions with IC50 values of 1.65, 1.54, 1.56, and 1.23 μM compared to standard drugs Celecoxib and Ibuprofen. Finally, the molecular docking studies carried out with Covid-19 and cyclooxygenase with all the newly synthesized embelin derivatives.
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Affiliation(s)
| | - N. Jeelan Basha
- Department of Chemistry, Indian Academy Degree College-Autonomous, Bengaluru 560 043, India,Corresponding author
| | | | - Ganga Periyasamy
- Department of Chemistry, Bangalore University, Jnana Bharathi Campus, Bangalore 560056, India
| | - Sasidhar B. Somappa
- Chemical Sciences and Technology Division, CSIR-National Institute for Interdisciplinary Science and Technology (NIIST), Thiruvananthapuram 695 019, India,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Mohammad Javeed
- P. G. Department and Research Studies in Chemistry, Nrupatunga University, Bengaluru 560 001, India
| | - S. Vanishree
- Department of Chemistry, Bangalore University, Jnana Bharathi Campus, Bangalore 560056, India
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