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K P SH, Babu TD, C M P, Joshy G, Mathew D, Thayyil MS. Antioxidant activity of erlotinib and gefitinib: theoretical and experimental insights. Free Radic Res 2022; 56:196-208. [PMID: 35514158 DOI: 10.1080/10715762.2022.2065990] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Erlotinib and gefitinib are quinazoline derivatives with antineoplastic properties. Usually, intake of antineoplastic agents results in much a greater degree of oxidative stress, i.e. the production of free radicals, than induced by cancer itself. Hence, anticancerous drugs must also exhibit antioxidant activity but this has not been studied thus far. In this study, the antioxidant activity of erlotinib and gefitinib was examined by experimental and computational studies. It was found that erlotinib and gefitinib exhibit good 2,2-dipheny l-1-picrylhydrazyl (DPPH) radical and hydroxyl radical scavenging (HRS) activities. In DPPH assay, the IC50 for erlotinib and gefitinib were 0.584 and 0.696 mM, respectively, while IC50 for HRS assay were 0.843 and 1.03 mM for erlotinib and gefitinib, respectively. Structural characteristics such as frontier molecular orbitals (FMOs), molecular electrostatic potential maps (MESPs), and global descriptive parameters were calculated at DFT/B3LYP/6-311++G (d,p) on the optimized geometries of erlotinib and gefitinib. UV-visible spectroscopy revealed the possible electronic transitions between the FMOs and their associated excitation energies of both drugs and found that erlotinib has π to π* transitions while gefitinib has π to π* and σ to π* transitions. To elucidate the antioxidant activity of erlotinib and gefitinib, three mechanisms namely hydrogen atom transfer (HAT), single electron transfer proton transfer (SETPT), and sequential proton-loss electron-transfer (SPLET) were employed and articulated the results in arithmetic parameters like bond dissociation energy (BDE), proton affinity (PA), ionization potential (IP), electron transfer enthalpy (ETE), and proton dissociation enthalpy (PDE). Further, molecular docking studies have been carried out to have a better understanding of binding sites and modes of interaction with a well-known antioxidant target protein monoamine oxidase-B (MAO-B) employing docking scores and types of interactions. All the calculated parameters point out that though gefitinib and erlotinib were interchangeable, erlotinib requires a lesser amount of energy for proton transfer and electron transfer, moreover it scavenges radicals easily.
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Affiliation(s)
- Safna Hussan K P
- Department of Biochemistry, Amala Cancer Research Center, Amala Nagar, Thrissur, India
| | - Thekkekara D Babu
- Department of Biochemistry, Amala Cancer Research Center, Amala Nagar, Thrissur, India
| | - Pareeth C M
- Department of Biochemistry, Amala Cancer Research Center, Amala Nagar, Thrissur, India
| | - Greena Joshy
- Department of Biochemistry, Amala Cancer Research Center, Amala Nagar, Thrissur, India
| | - Deepu Mathew
- College of Horticulture, Center for Plant Biotechnology and Molecular Biology, Kerala Agriculture University, Thrissur, India
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K P SH, K A AR, Medammal Z, Thayyil MS, Babu TD. Theoretical Insights into the Radical Scavenging Activity of Glipizide: DFT and Molecular Docking Studies. Free Radic Res 2022; 56:53-62. [PMID: 35086396 DOI: 10.1080/10715762.2022.2034803] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
Glipizide is a N-sulfonylurea compound used in the treatment of hyperglycemia in patients with Type 2 diabetes mellitus. In the present study, DFT-based computational methods and molecular docking studies have been performed to systematically evaluate the radical scavenger behavior of the title molecule. Structural characteristics such as molecular descriptors, frontier molecular orbitals, molecular potential mapping, and Mulliken charge population have been investigated. Thermodynamic parameters like proton affinity (PA), ionization potential (IP), bond dissociation energy (BDE), electron transfer enthalpy (ETE), and proton dissociation enthalpy (PDE) related to three antiradical mechanisms namely hydrogen atom transfer (HAT), sequential electron transfer proton transfer (SETPT) and sequential proton loss electron transfer (SPLET) have been studied. Also, molecular docking studies have been carried out to have a theoretical understanding of the molecular mechanism and for the elucidation of binding mode/modes of a compound targeted through non-covalent interactions. The obtained results are of great significance in better understanding the reaction mechanism of the title molecule and open new perspectives for the design of new potent antioxidant agents.
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Affiliation(s)
- Safna Hussan K P
- Department of Biochemistry, Amala Cancer Research Center, Amala Nagar, Thrissur, Kerala, 680555
| | - Abdul Rahoof K A
- Department of Physics, Sullamussalam Science College Areacode, Malappuram-673639, Kerala, India
| | - Zubair Medammal
- Department of Physics, University of Calicut, Malappuram-673635, Kerala, India
| | - M Shahin Thayyil
- Department of Zoology, University of Calicut, Malappuram-673635, Kerala, India
| | - Thekkekara D Babu
- Department of Biochemistry, Amala Cancer Research Center, Amala Nagar, Thrissur, Kerala, 680555
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Shelke RU, Degani MS, Raju A, Ray MK, Rajan MGR. Fragment Discovery for the Design of Nitrogen Heterocycles asMycobacterium tuberculosisDihydrofolate Reductase Inhibitors. Arch Pharm (Weinheim) 2016; 349:602-13. [DOI: 10.1002/ardp.201600066] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2016] [Revised: 05/21/2016] [Accepted: 05/27/2016] [Indexed: 12/22/2022]
Affiliation(s)
- Rupesh U. Shelke
- Institute of Chemical Technology; Nathalal Parekh Marg, Matunga; Mumbai India
| | - Mariam S. Degani
- Institute of Chemical Technology; Nathalal Parekh Marg, Matunga; Mumbai India
| | - Archana Raju
- Institute of Chemical Technology; Nathalal Parekh Marg, Matunga; Mumbai India
| | - Mukti Kanta Ray
- Radiation Medicine Centre; Tata Memorial Hospital, Parel; Mumbai India
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Lele AC, Raju A, Khambete MP, Ray MK, Rajan MGR, Arkile MA, Jadhav NJ, Sarkar D, Degani MS. Design and Synthesis of a Focused Library of Diamino Triazines as Potential Mycobacterium tuberculosis DHFR Inhibitors. ACS Med Chem Lett 2015; 6:1140-4. [PMID: 26617968 DOI: 10.1021/acsmedchemlett.5b00367] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2015] [Accepted: 10/17/2015] [Indexed: 11/29/2022] Open
Abstract
We report design of a series of 2,4-diamino triazines as Mycobacterium tuberculosis (Mtb) dihydrofolate reductase inhibitors. The synthesized compounds were evaluated against Mtb (H37Rv and Dormant stage H37Ra), their cytotoxicity was assessed (HepG2 and A549 cell lines), and selectivity toward Mtb was evaluated by testing against other bacterial strains. Some derivatives showed promising activity along with low cytotoxicity. The most potent compound in the whole cell assay (MIC 0.325 μM against H37Rv) showed selectivity in the enzyme assay and exhibited synergy with second line anti-TB agent p-amino salicylic acid. This study therefore provides promising molecules for further development as antituberculosis DHFR inhibitors.
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Affiliation(s)
- Arundhati C. Lele
- Department of Pharmaceutical Sciences and
Technology, Institute of Chemical Technology, Matunga (E), Mumbai 400019, India
| | - Archana Raju
- Department of Pharmaceutical Sciences and
Technology, Institute of Chemical Technology, Matunga (E), Mumbai 400019, India
| | - Mihir P. Khambete
- Department of Pharmaceutical Sciences and
Technology, Institute of Chemical Technology, Matunga (E), Mumbai 400019, India
| | - M. K. Ray
- Radiation Medicine Center, Bhabha Atomic
Research Centre, Tata Memorial Hospital Annex, Parel, Mumbai 400012, India
| | - M. G. R. Rajan
- Radiation Medicine Center, Bhabha Atomic
Research Centre, Tata Memorial Hospital Annex, Parel, Mumbai 400012, India
| | - Manisha A. Arkile
- Combichem-Bioresource
Center, Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
| | - Nandadeep J. Jadhav
- Combichem-Bioresource
Center, Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
| | - Dhiman Sarkar
- Combichem-Bioresource
Center, Organic Chemistry Division, CSIR-National Chemical Laboratory, Pune 411008, India
| | - Mariam S. Degani
- Department of Pharmaceutical Sciences and
Technology, Institute of Chemical Technology, Matunga (E), Mumbai 400019, India
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Rational drug design, synthesis and biological evaluation of dihydrofolate reductase inhibitors as antituberculosis agents. Future Med Chem 2015; 7:979-88. [DOI: 10.4155/fmc.15.48] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Background: A series of 2,4-diamino-s-triazines was designed, with potential for activity against Mycobacterium tuberculosis (Mtb) dihydrofolate reductase enzyme, on the basis of virtual screening results and structure-based drug design. Results: The compounds were evaluated against Mtb (H37Rv) and their cytotoxicity was assessed using VERO cell lines. Of particular note, two compounds were found to have the most promising antituberculosis activity (6b minimum inhibitory concentration: 1.76 μM and 6i minimum inhibitory concentration: 1.57 μM) along with low cytotoxicity (CC50: >300 μM). The enzyme assay results of these two indicated significant inhibition of Mtb dihydrofolate reductase along with selectivity. Selected derivatives were tested against dormant tubercle bacilli in vivo and ex vivo indicating potential inhibition. Conclusion: This study provides promising antituberculosis dihydrofolate reductase inhibitors that can act as potential leads for further development.
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Mustyala KK, Chitturi AR, Naikal James PS, Vuruputuri U. Pharmacophore mapping and in silico screening to identify new potent leads for A2Aadenosine receptor as antagonists. J Recept Signal Transduct Res 2012; 32:102-13. [DOI: 10.3109/10799893.2012.660532] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
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Arooj M, Thangapandian S, John S, Hwang S, Park JK, Lee KW. 3D QSAR pharmacophore modeling, in silico screening, and density functional theory (DFT) approaches for identification of human chymase inhibitors. Int J Mol Sci 2011; 12:9236-64. [PMID: 22272131 PMCID: PMC3257128 DOI: 10.3390/ijms12129236] [Citation(s) in RCA: 50] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2011] [Revised: 11/18/2011] [Accepted: 11/23/2011] [Indexed: 11/18/2022] Open
Abstract
Human chymase is a very important target for the treatment of cardiovascular diseases. Using a series of theoretical methods like pharmacophore modeling, database screening, molecular docking and Density Functional Theory (DFT) calculations, an investigation for identification of novel chymase inhibitors, and to specify the key factors crucial for the binding and interaction between chymase and inhibitors is performed. A highly correlating (r = 0.942) pharmacophore model (Hypo1) with two hydrogen bond acceptors, and three hydrophobic aromatic features is generated. After successfully validating "Hypo1", it is further applied in database screening. Hit compounds are subjected to various drug-like filtrations and molecular docking studies. Finally, three structurally diverse compounds with high GOLD fitness scores and interactions with key active site amino acids are identified as potent chymase hits. Moreover, DFT study is performed which confirms very clear trends between electronic properties and inhibitory activity (IC(50)) data thus successfully validating "Hypo1" by DFT method. Therefore, this research exertion can be helpful in the development of new potent hits for chymase. In addition, the combinational use of docking, orbital energies and molecular electrostatic potential analysis is also demonstrated as a good endeavor to gain an insight into the interaction between chymase and inhibitors.
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Affiliation(s)
- Mahreen Arooj
- Division of Applied Life Science (BK21 Program), Systems and Synthetic Agrobiotech Center (SSAC), Plant Molecular Biology and Biotechnology Research Center (PMBBRC), Research Institute of Natural Science(RINS), Gyeongsang National University (GNU), 501 Jinju-daero, Gazwa-dong, Jinju 660-701, Korea; E-Mails: (M.A.); (S.T.); (S.J.); (S.H.)
| | - Sundarapandian Thangapandian
- Division of Applied Life Science (BK21 Program), Systems and Synthetic Agrobiotech Center (SSAC), Plant Molecular Biology and Biotechnology Research Center (PMBBRC), Research Institute of Natural Science(RINS), Gyeongsang National University (GNU), 501 Jinju-daero, Gazwa-dong, Jinju 660-701, Korea; E-Mails: (M.A.); (S.T.); (S.J.); (S.H.)
| | - Shalini John
- Division of Applied Life Science (BK21 Program), Systems and Synthetic Agrobiotech Center (SSAC), Plant Molecular Biology and Biotechnology Research Center (PMBBRC), Research Institute of Natural Science(RINS), Gyeongsang National University (GNU), 501 Jinju-daero, Gazwa-dong, Jinju 660-701, Korea; E-Mails: (M.A.); (S.T.); (S.J.); (S.H.)
| | - Swan Hwang
- Division of Applied Life Science (BK21 Program), Systems and Synthetic Agrobiotech Center (SSAC), Plant Molecular Biology and Biotechnology Research Center (PMBBRC), Research Institute of Natural Science(RINS), Gyeongsang National University (GNU), 501 Jinju-daero, Gazwa-dong, Jinju 660-701, Korea; E-Mails: (M.A.); (S.T.); (S.J.); (S.H.)
| | - Jong Keun Park
- Department of Chemistry Education, Research Institute of Natural Science (RINS), Educational Research Institute, Gyeongsang National University, Jinju 660-701, Korea; E-Mail:
| | - Keun Woo Lee
- Division of Applied Life Science (BK21 Program), Systems and Synthetic Agrobiotech Center (SSAC), Plant Molecular Biology and Biotechnology Research Center (PMBBRC), Research Institute of Natural Science(RINS), Gyeongsang National University (GNU), 501 Jinju-daero, Gazwa-dong, Jinju 660-701, Korea; E-Mails: (M.A.); (S.T.); (S.J.); (S.H.)
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Noscapinoids with anti-cancer activity against human acute lymphoblastic leukemia cells (CEM): a three dimensional chemical space pharmacophore modeling and electronic feature analysis. J Mol Model 2011; 18:307-18. [DOI: 10.1007/s00894-011-1057-9] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2011] [Accepted: 03/22/2011] [Indexed: 10/18/2022]
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Tawari NR, Degani MS. Pharmacophore mapping and electronic feature analysis for a series of nitroaromatic compounds with antitubercular activity. J Comput Chem 2010; 31:739-51. [PMID: 19569203 DOI: 10.1002/jcc.21371] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
A five point pharmacophore was generated using PHASE for a series of nitroaromatic compounds and their congeners as antitubercular agents. The generated pharmacophore yielded significant 3D-QSAR model with r(2) of 0.890 for a training set of 92 molecules. The model also showed excellent predictive power with correlation coefficient Q(2) of 0.857 for a test set of 31 compounds. The pharmacophore indicated that presence of a nitro group, a piperazine moiety, one aromatic ring feature and two acceptor features are necessary for potent antitubercular activity. The pharmacophore was supported by electronic property analysis using density functional theory (DFT) at B3LYP/3-21*G level. Molecular electrostatic profile of the compounds was consistent with the generated pharmacophore model, particularly appearance of localized negative potential regions near both the oxygen atoms of nitro group extending laterally to the isoxazole ring system/amide bond in the most active compounds. Calculated data further revealed that all active compounds have smaller LUMO energies located over the nitro group, furan ring, and isoxazole ring/amide bond attached to it. Higher negative values of LUMO energies concentrated over the nitro group are indicative of the electron acceptor capacity of the compounds, suggesting that these compounds are prodrugs and must be activated by TB-nitroreductase. The results obtained from this study should aid in efficient design and development of nitroaromatic compounds as antitubercular agents.
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Affiliation(s)
- Nilesh R Tawari
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, University of Mumbai, Matunga (E), Mumbai 400019, India
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Bag S, Tawari NR, Degani MS, Queener SF. Design, synthesis, biological evaluation and computational investigation of novel inhibitors of dihydrofolate reductase of opportunistic pathogens. Bioorg Med Chem 2010; 18:3187-97. [PMID: 20363634 DOI: 10.1016/j.bmc.2010.03.031] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2010] [Revised: 03/12/2010] [Accepted: 03/13/2010] [Indexed: 10/19/2022]
Abstract
The present work deals with design, synthesis and biological evaluation of novel, diverse compounds as potential inhibitors of dihydrofolate reductase (DHFR) from opportunistic microorganisms; Pneumocystis carinii (pc), Toxoplasma gondii (tg) and Mycobacterium avium (ma). A set of 14 structurally diverse compounds were designed with varying key pharmacophoric features of DHFR inhibitors, bulky distal substitutions and different bridges joining the distal part and 2,4-diaminopyrimidine nucleus. The designed compounds were synthesized and evaluated in enzyme assay against pc, tg and ma DHFR. The rat liver (rl) DHFR was used as mammalian standard. As the next logical step of the project, flexible molecular docking studies were carried out to predict the binding modes of these compounds in pcDHFR active site and the obtained docked poses were post processed using MM-GBSA protocol for prediction of relative binding affinity. The predicted binding modes were able to rationalize the experimental results in most cases. Of particular interest, both the docking scores and MM-GBSA predicted Delta G(bind) were able to distinguish between the active and low active compounds. Furthermore, good correlation coefficient of 0.797 was obtained between the IC(50) values and MM-GBSA predicted Delta G(bind). Taken together, the current work provides not only a novel scaffold for further optimization of DHFR inhibitors but also an understanding of the specific interactions of inhibitors with DHFR and structural modifications that improve selectivity.
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Affiliation(s)
- Seema Bag
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Matunga (E), Mumbai 400 019, India
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Degani MS, Bag S, Bairwa R, Tawari NR, Queener SF. Novel 2-hydrazino-pyrimidin-4(3H)-one derivatives as potential dihydrofolate reductase inhibitors. J Heterocycl Chem 2010. [DOI: 10.1002/jhet.216] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Bag S, Tawari NR, Queener SF, Degani MS. Synthesis and biological evaluation of biguanide and dihydrotriazine derivatives as potential inhibitors of dihydrofolate reductase of opportunistic microorganisms. J Enzyme Inhib Med Chem 2009; 25:331-9. [DOI: 10.3109/14756360903179443] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Affiliation(s)
- Seema Bag
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, Mumbai, India
| | - Nilesh R. Tawari
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, Mumbai, India
| | - Sherry F. Queener
- Department of Pharmacology and Toxicology, School of Medicine, Indiana University, Indianapolis, IN, USA
| | - Mariam S. Degani
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, Mumbai, India
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