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Chao W, Qiu L, Gao L, Feng J, Liu Y, Yan L, Jiang Y, Lv Q. Antifungal Tetrahydrocarbazole Compound CAR-8 Induces Endoplasmic Reticulum Stress in Candida albicans. ACS Infect Dis 2024; 10:2705-2716. [PMID: 38989983 DOI: 10.1021/acsinfecdis.4c00069] [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] [Indexed: 07/12/2024]
Abstract
The development of new effective antifungal agents is essential to combat fungal infections. Tetrahydrocarbazole has been exploited as a promising skeleton against various pathogenic microorganisms and is used to search for novel active antifungal compounds. In this study, a library composed of small tetrahydrocarbazole compounds was screened, and a potent antifungal agent, CAR-8, was identified with a minimum inhibitory concentration of 2-4 μg/mL against Candida albicans. CAR-8 showed strong fungicidal activities and killed almost all C. albicans within 3 h at a concentration of 16 μg/mL. At concentrations of 2 and 8 μg/mL, CAR-8 significantly inhibited the formation of hyphae and biofilms. Moreover, CAR-8 at 10 and 20 mg/kg reduced the fungal load and improved the survival in the C. albicans infection model in the invertebrate Galleria mellonella. Transcriptome analysis revealed significant changes in the expression of genes associated with protein processing in the endoplasmic reticulum (ER), ER-associated degradation, and unfolded protein response (UPR), which suggested that CAR-8 treatment induced ER stress. Moreover, CAR-8 treatment resulted in various phenotypes similar to tunicamycin, a classical ER stress inducer. These included nonconventional splicing of HAC1 mRNA, the fragmented morphology of ER, the distribution changes of GFP-Snc1 in Saccharomyces cerevisiae, and cell apoptosis probably caused by ER stress. More importantly, the disruption of IRE1 or HAC1 increased the sensitivity of C. albicans to CAR-8, confirming that the UPR signaling pathway was critical for CAR-8 resistance. Overall, our study identifies a potent ER stress-induced antifungal compound that will help the discovery of new antifungal drugs.
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Affiliation(s)
- Wen Chao
- College of Basic Medical Sciences, Naval Medical University, Shanghai 200433, China
| | - Lijuan Qiu
- College of Basic Medical Sciences, Naval Medical University, Shanghai 200433, China
| | - Lu Gao
- Department of Pharmacology, Shanghai Tenth People's Hospital, Tongji University School of Medicine, Shanghai 200072, China
| | - Jia Feng
- Department of Pharmacology, Shanghai Tenth People's Hospital, Tongji University School of Medicine, Shanghai 200072, China
| | - Yu Liu
- School of Pharmacy, Naval Medical University, Shanghai 200433, China
| | - Lan Yan
- School of Pharmacy, Naval Medical University, Shanghai 200433, China
- The Center for Basic Research and Innovation of Medicine and Pharmacy (MOE), School of Pharmacy, Naval Medical University, Shanghai 200433, China
| | - Yuanying Jiang
- Department of Pharmacology, Shanghai Tenth People's Hospital, Tongji University School of Medicine, Shanghai 200072, China
| | - Quanzhen Lv
- School of Pharmacy, Naval Medical University, Shanghai 200433, China
- The Center for Basic Research and Innovation of Medicine and Pharmacy (MOE), School of Pharmacy, Naval Medical University, Shanghai 200433, China
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2
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Rudrapal M, Kirboga KK, Abdalla M, Maji S. Explainable artificial intelligence-assisted virtual screening and bioinformatics approaches for effective bioactivity prediction of phenolic cyclooxygenase-2 (COX-2) inhibitors using PubChem molecular fingerprints. Mol Divers 2024; 28:2099-2118. [PMID: 38200203 DOI: 10.1007/s11030-023-10782-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2023] [Accepted: 11/22/2023] [Indexed: 01/12/2024]
Abstract
Cyclooxygenase-2 (COX-2) inhibitors are nonsteroidal anti-inflammatory drugs that treat inflammation, pain and fever. This study determined the interaction mechanisms of COX-2 inhibitors and the molecular properties needed to design new drug candidates. Using machine learning and explainable AI methods, the inhibition activity of 1488 molecules was modelled, and essential properties were identified. These properties included aromatic rings, nitrogen-containing functional groups and aliphatic hydrocarbons. They affected the water solubility, hydrophobicity and binding affinity of COX-2 inhibitors. The binding mode, stability and ADME properties of 16 ligands bound to the Cyclooxygenase active site of COX-2 were investigated by molecular docking, molecular dynamics simulation and MM-GBSA analysis. The results showed that ligand 339,222 was the most stable and effective COX-2 inhibitor. It inhibited prostaglandin synthesis by disrupting the protein conformation of COX-2. It had good ADME properties and high clinical potential. This study demonstrated the potential of machine learning and bioinformatics methods in discovering COX-2 inhibitors.
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Affiliation(s)
- Mithun Rudrapal
- Department of Pharmaceutical Sciences, School of Biotechnology and Pharmaceutical Sciences, Vignan's Foundation for Science, Technology & Research (Deemed to Be University), Guntur, 522213, India.
| | - Kevser Kübra Kirboga
- Informatics Institute, Istanbul Technical University, 34469, Maslak, Istanbul, Turkey.
- Bioengineering Department, BilecikSeyhEdebali University, 11230, Bilecik, Turkey.
| | - Mohnad Abdalla
- Pediatric Research Institute, Children's Hospital Affiliated to Shandong University, Jinan, 250022, Shandong, People's Republic of China
| | - Siddhartha Maji
- Department of Chemistry, Oklahoma State University, Stillwater, OK, USA
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3
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Chen S, Tan J, Wu H, Zhao Q, Shang Y. Base-promoted tandem synthesis of 2-azaaryl indoline. Org Biomol Chem 2023; 21:9133-9137. [PMID: 37974521 DOI: 10.1039/d3ob01444d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
A novel tandem method to synthesize 2-azaaryl indoline promoted by LiN(SiMe3)2 from 2-azaaryl methyl amine and 2-fluoro benzyl bromides was developed. Mechanistic investigation indicated that this tandem cyclization was initiated by selective benzyl C-SN2 substitution followed by an intramolecular SNAr reaction. Diverse 2-azaaryl indoles could also be obtained via simple functional transformations.
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Affiliation(s)
- Shuguang Chen
- Key Laboratory of Functional Molecular Solids, Ministry of Education, Anhui Laboratory of Molecule-Based Materials (State Key Laboratory Cultivation Base), College of Chemistry and Materials Science, Anhui Normal University, Wuhu 241000, P.R. China.
| | - Jiahong Tan
- Key Laboratory of Functional Molecular Solids, Ministry of Education, Anhui Laboratory of Molecule-Based Materials (State Key Laboratory Cultivation Base), College of Chemistry and Materials Science, Anhui Normal University, Wuhu 241000, P.R. China.
| | - Hao Wu
- Key Laboratory of Functional Molecular Solids, Ministry of Education, Anhui Laboratory of Molecule-Based Materials (State Key Laboratory Cultivation Base), College of Chemistry and Materials Science, Anhui Normal University, Wuhu 241000, P.R. China.
| | - Quansheng Zhao
- Key Laboratory of Functional Molecular Solids, Ministry of Education, Anhui Laboratory of Molecule-Based Materials (State Key Laboratory Cultivation Base), College of Chemistry and Materials Science, Anhui Normal University, Wuhu 241000, P.R. China.
| | - Yongjia Shang
- Key Laboratory of Functional Molecular Solids, Ministry of Education, Anhui Laboratory of Molecule-Based Materials (State Key Laboratory Cultivation Base), College of Chemistry and Materials Science, Anhui Normal University, Wuhu 241000, P.R. China.
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4
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Güngör SA. Synthesis, DNA Binding Properties, Molecular Docking and ADME Studies of Schiff Base Compound Containing Pyridine-Propargyl Group. Chem Biodivers 2023; 20:e202300752. [PMID: 37782576 DOI: 10.1002/cbdv.202300752] [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: 05/24/2023] [Revised: 09/15/2023] [Accepted: 09/25/2023] [Indexed: 10/04/2023]
Abstract
The structure of the pyridine-based Schiff base compound containing the propargyl group was characterized by NMR spectroscopy. Binding of compound 2 with double-stranded fish sperm DNA (Fsds-DNA) was investigated using viscosity measurement studies and UV/VIS and fluorescence spectral techniques. Binding of compound 2 with Fsds-DNA results in minor hypochromism with no change in absorption maxima and fluorescence quenching with almost no shift in emission maxima, which can be attributed to the groove-binding mode of the interaction. The binding constant was found to be 4.7×104 M-1 . The Fsds-DNA viscosity measurement, KI quenching and NaCl quenching studies and the competitive interaction between compound 2 and ethidium bromide with DNA confirm the proposed binding mode. In addition, interactions between compound 2 and the DNA double helix were analysed by molecular docking study in order to determine the binding mode and binding affinity. As a result of molecular docking, the binding affinity of the 2-DNA complex, which has the most stable conformation -8.10 kcal/mol and it is located in its minor groove. In addition, molecular docking and ADME studies for compound 2 were also performed.
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Affiliation(s)
- Seyit Ali Güngör
- Chemistry Department, Faculty of Science, Kahramanmaras Sütcü Imam University, 46100, Kahramanmaras, Turkey
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Kurapati C, Paidikondala K, Badavath VN, Parveen S, Singh OV, Gundla R. Design, and synthesis of N‐benzyl Spiro‐piperidine hydroxamic acid‐based derivatives: HDAC inhibitory activity and drug‐likeness prediction. J Heterocycl Chem 2022. [DOI: 10.1002/jhet.4538] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Chidvilas Kurapati
- Department of Chemistry, School of Science GITAM Deemed to be University Hyderabad Telangana India
| | - Kalyani Paidikondala
- Department of Chemistry KG Reddy College of Engineering & Technology Hyderabad Telangana India
| | - Vishnu Nayak Badavath
- School of Pharmacy & Technology Management SVKM's Narsee Monjee Institute of Management Studies (NMIMS) Hyderabad India
| | - Sabnam Parveen
- Chitkara School of Pharmacy Chitkara University Rajpura Punjab India
| | - Om V. Singh
- Department of Chemistry, School of Science GITAM Deemed to be University Hyderabad Telangana India
| | - Rambabu Gundla
- Department of Chemistry, School of Science GITAM Deemed to be University Hyderabad Telangana India
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6
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Badavath VN, Kumar A, Samanta PK, Maji S, Das A, Blum G, Jha A, Sen A. Determination of potential inhibitors based on isatin derivatives against SARS-CoV-2 main protease (m pro): a molecular docking, molecular dynamics and structure-activity relationship studies. J Biomol Struct Dyn 2022; 40:3110-3128. [PMID: 33200681 PMCID: PMC7682386 DOI: 10.1080/07391102.2020.1845800] [Citation(s) in RCA: 30] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2020] [Accepted: 10/29/2020] [Indexed: 12/27/2022]
Abstract
SARS-COV-2, the novel coronavirus and root of global pandemic COVID-19 caused a severe health threat throughout the world. Lack of specific treatments raised an effort to find potential inhibitors for the viral proteins. The recently invented crystal structure of SARS-CoV-2 main protease (Mpro) and its key role in viral replication; non-resemblance to any human protease makes it a perfect target for inhibitor research. This article reports a computer-aided drug design (CADD) approach for the screening of 118 compounds with 16 distinct heterocyclic moieties in comparison with 5 natural products and 7 repurposed drugs. Molecular docking analysis against Mpro protein were performed finding isatin linked with a oxidiazoles (A2 and A4) derivatives to have the best docking scores of -11.22 kcal/mol and -11.15 kcal/mol respectively. Structure-activity relationship studies showed a good comparison with a known active Mpro inhibitor and repurposed drug ebselen with an IC50 value of -0.67 μM. Molecular Dynamics (MD) simulations for 50 ns were performed for A2 and A4 supporting the stability of the two compounds within the binding pocket, largely at the S1, S2 and S4 domains with high binding energy suggesting their suitability as potential inhibitors of Mpro for SARS-CoV-2.
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Affiliation(s)
| | - Akhil Kumar
- Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, India
| | - Pralok K. Samanta
- School of Chemical and Bioprocess Engineering, University College Dublin, Dublin, Ireland
| | - Siddhartha Maji
- Department of Pharmaceutical Sciences and Technology, Birla Institute of Technology, Mesra, Ranchi, India
| | - Anik Das
- Department of Chemistry, Institute of Science, GITAM (Deemed to be University), Visakhapatnam, India
| | - Galia Blum
- Institute for Drug Research, The Hebrew University, Jerusalem, Israel
| | - Anjali Jha
- Department of Chemistry, Institute of Science, GITAM (Deemed to be University), Visakhapatnam, India
| | - Anik Sen
- Department of Chemistry, Institute of Science, GITAM (Deemed to be University), Visakhapatnam, India
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7
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Cherukumalli PKR, Tadiboina BR, Gulipalli KC, Bodige S, Badavath VN, Sridhar G, Gangarapu K. Design and synthesis of novel urea derivatives of pyrimidine-pyrazoles as anticancer agents. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131937] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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8
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Wang G, Sun S, Guo H. Current status of carbazole hybrids as anticancer agents. Eur J Med Chem 2021; 229:113999. [PMID: 34838335 DOI: 10.1016/j.ejmech.2021.113999] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2021] [Revised: 11/07/2021] [Accepted: 11/13/2021] [Indexed: 12/15/2022]
Abstract
The drug resistance and low specificity of current available chemotherapeutics to cancer cells are the main reasons responsible for the failure of cancer chemotherapy and remain dramatic challenges for cancer therapy, creating an urgent need to develop novel anticancer agents. Carbazole nucleus, widely distributed in nature, is a predominant feature of a vast array of biologically active compounds. Carbazole derivatives exhibited potential antiproliferative activity against different cancer cell lines by diverse mechanisms, inclusive of arrest cell cycle and induce apoptosis, and several anticancer agents are carbazole-based compounds. Thus, carbazole derivatives represent a fertile source for discovery of novel anticancer therapeutic agents. Over the past several years, a variety of carbazole hybrids have been developed as potential anticancer agents. The present review focuses on the recent progress, from 2016 until now, in knowledge on anticancer properties, structure-activity relationships and mechanisms of action of carbazole hybrids to provide a basis for development of relevant therapeutic agents.
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Affiliation(s)
- Gangqiang Wang
- Hubei Key Laboratory of Radiation Chemistry and Functional Materials, Non-power Nuclear Technology Collaborative Innovation Center, School of Nuclear Technology and Chemistry & Biology, Hubei University of Science and Technology, Xianning, 437100, PR China; School of Pharmaceutical Sciences, South-Central University for Nationalities, Wuhan, 430074, PR China.
| | - Shaofa Sun
- Hubei Key Laboratory of Radiation Chemistry and Functional Materials, Non-power Nuclear Technology Collaborative Innovation Center, School of Nuclear Technology and Chemistry & Biology, Hubei University of Science and Technology, Xianning, 437100, PR China
| | - Hua Guo
- School of Chemistry and Life Science, Anshan Normal University, Anshan, 114005, Liaoning, PR China
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9
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Lin S, Liu J, Li H, Liu Y, Chen Y, Luo J, Liu S. Development of Highly Potent Carbazole Amphiphiles as Membrane-Targeting Antimicrobials for Treating Gram-Positive Bacterial Infections. J Med Chem 2020; 63:9284-9299. [DOI: 10.1021/acs.jmedchem.0c00433] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Shuimu Lin
- Key Laboratory of Molecular Target & Clinical Pharmacology and the State Key Laboratory of Respiratory Disease, School of Pharmaceutical Sciences & the Fifth Affiliated Hospital, Guangzhou Medical University, Guangzhou 511436, P. R. China
| | - Jiayong Liu
- Key Laboratory of Molecular Target & Clinical Pharmacology and the State Key Laboratory of Respiratory Disease, School of Pharmaceutical Sciences & the Fifth Affiliated Hospital, Guangzhou Medical University, Guangzhou 511436, P. R. China
| | - Hongxia Li
- Key Laboratory of Molecular Target & Clinical Pharmacology and the State Key Laboratory of Respiratory Disease, School of Pharmaceutical Sciences & the Fifth Affiliated Hospital, Guangzhou Medical University, Guangzhou 511436, P. R. China
| | - Ying Liu
- Guangdong Key Laboratory of Optical Fiber Sensing and Communications, Institute of Photonics Technology, Jinan University, Guangzhou 510632, Guangdong, P. R. China
| | - Yongzhi Chen
- Key Laboratory of Molecular Target & Clinical Pharmacology and the State Key Laboratory of Respiratory Disease, School of Pharmaceutical Sciences & the Fifth Affiliated Hospital, Guangzhou Medical University, Guangzhou 511436, P. R. China
| | - Jiachun Luo
- Key Laboratory of Molecular Target & Clinical Pharmacology and the State Key Laboratory of Respiratory Disease, School of Pharmaceutical Sciences & the Fifth Affiliated Hospital, Guangzhou Medical University, Guangzhou 511436, P. R. China
| | - Shouping Liu
- Key Laboratory of Molecular Target & Clinical Pharmacology and the State Key Laboratory of Respiratory Disease, School of Pharmaceutical Sciences & the Fifth Affiliated Hospital, Guangzhou Medical University, Guangzhou 511436, P. R. China
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10
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Electronic (donating or withdrawing) effects of ortho-phenolic substituents in dendritic antioxidants. Tetrahedron Lett 2020. [DOI: 10.1016/j.tetlet.2020.151607] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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11
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El-Kardocy A, Mostafa YA, Mohamed NG, Abo-Zeid MN, Hassan NA, Hetta HF, Abdel-Aal ABM. CK2 inhibition, lipophilicity and anticancer activity of new N1versus N2-substituted tetrabromobenzotriazole regioisomers. NEW J CHEM 2020. [DOI: 10.1039/d0nj01194k] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Both the type and position of polar group substitutions in polybrominated benzotriazoles dramatically change their lipophilicity, kinase inhibition and anticancer activity.
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Affiliation(s)
- Ahmed El-Kardocy
- Student Research Unit
- Faculty of Pharmacy
- Assiut University
- Assiut 71526
- Egypt
| | - Yaser A. Mostafa
- Department of Pharmaceutical Organic Chemistry, Faculty of Pharmacy
- Assiut University
- Assiut 71526
- Egypt
| | - Noha G. Mohamed
- Student Research Unit
- Faculty of Pharmacy
- Assiut University
- Assiut 71526
- Egypt
| | - Mohammad Nabil Abo-Zeid
- Department of Pharmaceutical Analytical Chemistry
- Faculty of Pharmacy
- Assiut University
- Assiut 71526
- Egypt
| | - Nivin A. Hassan
- Cancer Biology Department
- South Egypt Cancer Institute, Assiut University
- Assiut
- Egypt
| | - Helal F. Hetta
- Department of Medical Microbiology and Immunology
- Faculty of Medicine
- Assiut University
- Assiut
- Egypt
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Kumar J, Kumar N, Sati N, Hota PK. Antioxidant properties of ethenyl indole: DPPH assay and TDDFT studies. NEW J CHEM 2020. [DOI: 10.1039/d0nj01317j] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
Ethenyl indole exhibits antioxidant activity in a substituent dependent manner. Ethenyls bearing strong electron withdrawing substituents show weak or no antioxidant activities, whereas ethenyls with electron donating substituents exhibit antioxidant properties comparable to vitamin E.
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Affiliation(s)
- Jagdeep Kumar
- Department of Chemistry
- School of Sciences
- Hemvati Nandan Bahuguna Garhwal University
- Srinagar (Garhwal)
- India
| | - Naresh Kumar
- Department of Chemistry
- School of Sciences
- Hemvati Nandan Bahuguna Garhwal University
- Srinagar (Garhwal)
- India
| | - Nitin Sati
- Department of Pharmaceutical Sciences
- School of Sciences
- Hemvati Nandan Bahuguna Garhwal University
- Srinagar (Garhwal)
- India
| | - Prasanta Kumar Hota
- Department of Chemistry
- School of Sciences
- Hemvati Nandan Bahuguna Garhwal University
- Srinagar (Garhwal)
- India
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