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Mohamed MAF, Benjamin I, Okon GA, Ahmad I, Khan SAPM, Patel H, Agwamba EC, Louis H. Insights into in-vitro studies and molecular modelling of the antimicrobial efficiency of 4-chlorobenzaldehyde and 4-methoxybenzaldehyde derivatives. J Biomol Struct Dyn 2024; 42:6042-6064. [PMID: 37504959 DOI: 10.1080/07391102.2023.2239917] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Accepted: 06/21/2023] [Indexed: 07/29/2023]
Abstract
Owing to the significant gap in the knowledge and understanding of the mechanisms of antimicrobial action and the development of resistance, the optimization of antimicrobial therapies therefore becomes a necessity. It is on this note, that this study seeks to both experimentally and theoretically investigate the antimicrobial efficiency of two synthesized compounds namely; 1-((4-methoxyphenyl) (morpholino)methyl)thiourea (MR1) and diethyl 4-(4-chlorophenyl)-2,6-diphenyl-1,4-dihydropyridine-3,5-dicarboxylate (HRC). Utilizing the density functional theory (DFT), the compounds were optimized at ωB97XD/6-31++G(2d, 2p) level of theory. This provided a clear explanation for their distinct reactivity and stability potentials. More so, the natural bond orbital (NBO) analysis confirmed strong intra and intermolecular interactions, which agreed with the calculated reactivity parameters and density of states (DOS). Upon assessing the antimicrobial efficacy of the synthesized compounds, it was found that they exhibited lower activity against Enterobacter and A. niger, but considerable activity against Moraxella. In contrast, they showed higher activity against B. subtilis and Trichophyton, indicating that the compounds are more effective against gram-positive bacteria than gram-negative ones. Hence, it can be asserted that the synthesized compounds have superior antifungal action than antibacterial activity. A fascinating aspect of the data is that they show interactions that are incredibly insightful, totally correlating with the simulations of both molecular docking and molecular dynamics. Therefore, the alignment between experimental findings and computational simulations strengthens the validity of the study's conclusions, emphasizing the significance of the synthesized compounds in the context of optimizing antimicrobial therapies.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Mashood A F Mohamed
- PG and Research Department of Chemistry, Jamal Mohamed College (Autonomous), Affiliated to Bharathidasan University, Tiruchirappalli, Tamilnadu, India
| | - Innocent Benjamin
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar, Nigeria
- Department of Microbiology, Faculty of Biological Sciences, University of Calabar, Calabar, Nigeria
| | - Gideon A Okon
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar, Nigeria
| | - Iqrar Ahmad
- Department of Pharmaceutical Chemistry, Prof. Ravindra Nikam College of Pharmacy, Dhule, Maharashtra, India
| | - Syed A P M Khan
- PG and Research Department of Chemistry, Jamal Mohamed College (Autonomous), Affiliated to Bharathidasan University, Tiruchirappalli, Tamilnadu, India
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar, Nigeria
| | - Harun Patel
- Division of Computer Aided Drug Design, Department of Pharmaceutical Chemistry, R. C. Patel Institute of Pharmaceutical Education and Research, Shirpur, Maharashtra, India
| | - Ernest C Agwamba
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar, Nigeria
| | - Hitler Louis
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar, Nigeria
- Department of Pure and Applied Chemistry, University of Calabar, Calabar, Nigeria
- Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute, Chettinad Academy of Research and Education, Kelambakkam, Tamil Nadu, India
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Bharanidharan S, Savithiri S, Rajarajan G, Sugumar P, Nelson A. Synthesis, spectroscopic profiling, biological evaluation, DFT, molecular docking and mathematical studies of 3,5-diethyl-2r,6c-diphenylpiperidin-4-one picrate. Mol Phys 2023. [DOI: 10.1080/00268976.2023.2173964] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/09/2023]
Affiliation(s)
- S. Bharanidharan
- Department of Physics, Panimalar Engineering College, Chennai, India
| | - S. Savithiri
- Department of Chemistry, Kings Engineering College, Sriperumbudur, Chennai, India
| | - G. Rajarajan
- Department of Chemistry, Annamalai University, Chidambaram, India
- Department of Chemistry, Bharathiar University, Coimbatore, India
| | - P. Sugumar
- Department of Physics, Agni College of Technology, Thalambur, Chennai, India
| | - A. Nelson
- Department of Mathematics, Panimalar Engineering College, Chennai, India
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Covalent interaction, solvent effects, electrochemical, and spectroscopic characterization of novel (4Z)-4-{2-[amino(hydroxy)methyl]hydrazinylidene}-2,6-di(furan-2-yl)-3-methylpiperidin-1-ol(4a) derivative- Anti-microbial activity study. J Mol Liq 2023. [DOI: 10.1016/j.molliq.2023.121272] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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4
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Khodiev M, Holikulov U, ISSAOUI N, Al-Dossary OM, Bousiakoug LG, Lavrik N. Estimation of electrostatic and covalent contributions to the enthalpy of H-bond formation in H-complexes of 1,2,3-benzotriazole with proton-acceptor molecules by IR spectroscopy and DFT calculations. JOURNAL OF KING SAUD UNIVERSITY - SCIENCE 2022. [DOI: 10.1016/j.jksus.2022.102530] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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5
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Experimental spectroscopic investigations, solute-solvent interactions, topological analysis and biological evaluations of N-(9-Fluorenylmethoxycarbonyloxy)succinimide: An effective agent in anti-breast cancer activity. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.119756] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Janani S, Rajagopal H, Muthu S, Javed S, Irfan A. Structural, electronic properties (different solvents), chemical reactivity, ELF, LOL, spectroscopic insights, molecular docking and in vitro anticancer activity studies on methyl (4-nitro-1-imidazolyl)acetate. J INDIAN CHEM SOC 2022. [DOI: 10.1016/j.jics.2022.100438] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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7
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Saidj M, Djafri A, Rahmani R, Belkafouf NEH, Boukabcha N, Djafri A, Chouaih A. Molecular Structure, Experimental and Theoretical Vibrational Spectroscopy, (HOMO-LUMO, NBO) Investigation, (RDG, AIM) Analysis, (MEP, NLO) Study and Molecular Docking of Ethyl-2-{[4-Ethyl-5-(Quinolin-8-yloxyMethyl)-4H-1,2,4-Triazol-3-yl] Sulfanyl} Acetate. Polycycl Aromat Compd 2022. [DOI: 10.1080/10406638.2022.2039238] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Merzouk Saidj
- Process Engineering Department, Laboratory of Technology and Solid Properties, Faculty of Sciences and Technology, Abdelhamid Ibn Badis University, Mostaganem, Algeria
| | - Ahmed Djafri
- Process Engineering Department, Laboratory of Technology and Solid Properties, Faculty of Sciences and Technology, Abdelhamid Ibn Badis University, Mostaganem, Algeria
- Organic Synthesis Division, Centre de Recherche Scientifique et Technique en Analyses Physico-Chimiques (CRAPC), Tipaza, Algérie
| | - Rachida Rahmani
- Process Engineering Department, Laboratory of Technology and Solid Properties, Faculty of Sciences and Technology, Abdelhamid Ibn Badis University, Mostaganem, Algeria
- Department of Process Engineering, Faculty of Sciences and Technology, Ahmed Zabana University of Relizane, Relizane, Algeria
| | - Nour El Houda Belkafouf
- Process Engineering Department, Laboratory of Technology and Solid Properties, Faculty of Sciences and Technology, Abdelhamid Ibn Badis University, Mostaganem, Algeria
| | - Nourdine Boukabcha
- Process Engineering Department, Laboratory of Technology and Solid Properties, Faculty of Sciences and Technology, Abdelhamid Ibn Badis University, Mostaganem, Algeria
- Chemistry Department, Faculty of Exact Sciences and Informatic, Hassiba Benbouali University, Chlef, Algeria
| | - Ayada Djafri
- Laboratoire de Synthèse Organique Appliquées (LSOA), Faculté Des Sciences Exactes et Appliquées, Département de Chimie, Université Oran-1, Algérie
| | - Abdelkader Chouaih
- Process Engineering Department, Laboratory of Technology and Solid Properties, Faculty of Sciences and Technology, Abdelhamid Ibn Badis University, Mostaganem, Algeria
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Sagaama A, Issaoui N, Bardak F, Al-Dossary O, Kazachenko AS, Karrouchi K, Atac A, Wojcik MJ. Non covalent interactions analysis and spectroscopic characterization combined with molecular docking study of N′-(4-Methoxybenzylidene)-5-phenyl-1H-pyrazole-3-carbohydrazide. JOURNAL OF KING SAUD UNIVERSITY - SCIENCE 2022. [DOI: 10.1016/j.jksus.2021.101778] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Thirunavukkarasu M, Balaji G, Muthu S, Sakthivel S, Prabakaran P, Irfan A. Theoretical conformations studies on 2-Acetyl-gamma-butyrolactone structure and stability in aqueous phase and the solvation effects on electronic properties by quantum computational methods. COMPUT THEOR CHEM 2022. [DOI: 10.1016/j.comptc.2021.113534] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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10
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Saral A, Sudha P, Muthu S, Sevvanthi S, Irfan A. Molecular structure spectroscopic Elucidation, IEFPCM solvation (UV–Vis, MEP, FMO, NBO, NLO), molecular docking and biological assessment studies of lepidine (4-Methylquinoline). J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118249] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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11
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Guerroudj AR, Boukabcha N, Benmohammed A, Dege N, Belkafouf NEH, Khelloul N, Djafri A, Chouaih A. Synthesis, crystal structure, vibrational spectral investigation, intermolecular interactions, chemical reactivity, NLO properties and molecular docking analysis on (E)-N-(4-nitrobenzylidene)-3-chlorobenzenamine: A combined experimental and theoretical study. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2021.130589] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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12
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Jiang S, Jin Y, Yan R, Wang Z. Detailed structural study of cyclic anticancer drug Lorlatinib: spectroscopic and stereostructure investigation (IR, ECD and NMR) using density functional theory approach. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129295] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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13
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Rahuman MH, Muthu S, Raajaraman BR, Raja M, Umamahesvari H. Investigations on 2-(4-Cyanophenylamino) acetic acid by FT-IR,FT-Raman, NMR and UV-Vis spectroscopy, DFT (NBO, HOMO-LUMO, MEP and Fukui function) and molecular docking studies. Heliyon 2020; 6:e04976. [PMID: 33005793 PMCID: PMC7511746 DOI: 10.1016/j.heliyon.2020.e04976] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2020] [Revised: 07/26/2020] [Accepted: 09/16/2020] [Indexed: 01/18/2023] Open
Abstract
Extensive quantum chemical calculation have been carried out to investigate the Fourier Transform Infrared(FT-IR), Fourier Transform Raman(FT-RAMAN) and Nuclear magnetic resonance(NMR), and Ultra Violet-Visible(UV-vis) spectra of 2-(4-Cyanophenylamino) acetic acid. The molecular structure, fundamental vibrational frequencies and intensities of the vibrational bands were interpreted with the aid of optimizations and normal coordinate force field calculations based on density functional theory (DFT) and ab initio HF methods with 6–311++G(d,p) basis set. The theoretical vibrational wavenumbers are compared with the experimental values. The calculated HOMO-LUMO energies were found to be-6.2056 eV and -1.2901 eV which indicates the charge transfer within the molecule. Natural bond orbital analysis has been carried out to explain the charge transfer (or) delocalization of charge due to the intra molecular interactions. Molecular Electrostatic Potential (MEP), First order hyperpolarizability, and Fukui functions calculation were also performed. The thermodynamic properties of the title compound were studied for different temperatures. Molecular docking studies were made on the title compound to study the hydrogen bond interactions and the minimum binding energy was calculated.
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Affiliation(s)
- M Habib Rahuman
- Department of Physics, Arignar Anna Govt. Arts College, Cheyyar, 604 407, Tamil Nadu, India
| | - S Muthu
- Department of Physics, Arignar Anna Govt. Arts College, Cheyyar, 604 407, Tamil Nadu, India.,Department of Physics, PuratchiThalaivar Dr. MGR Govt Arts and Science College, Uthiramerur, 603 406, Tamil Nadu, India
| | - B R Raajaraman
- Department of Physics, St. Joseph College of Engineering, Sriperumbudur, 602 117, Tamil Nadu, India
| | - M Raja
- Department of Physics, Government Thirumagal Mills College, Vellore 635 803, Tamil Nadu, India
| | - H Umamahesvari
- Department of Science and Humanities, Sreenivasa Institute of Technology and Management Studies (Autonomous), Chittoor 517127, Andhra Pradesh, India
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14
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Quantum chemical calculations, spectroscopic investigation and molecular docking analysis of 4-chloro-N-methylpyridine-2-carboxamide. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128053] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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15
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Ramesh P, Lydia Caroline M, Muthu S, Raja M, Ben Geoffrey A, Aayisha S, David HA. Theoretical and experimental spectroscopic studies of monomeric and dimeric structures of 4-hydroxybenzamide. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.127742] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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16
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Shafi A, Timiri Sathyamurthy RD, Seetharaman J, Sambanthan M, Murugesan R, Sundaram S, Bhanumathy Ramarathinam R. Molecular docking, quantum chemical computational and vibrational studies on bicyclic heterocycle "6-nitro-2,3-dihydro-1,4-benzodioxine": Anti-cancer agent. Comput Biol Chem 2020; 86:107226. [PMID: 32142983 DOI: 10.1016/j.compbiolchem.2020.107226] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2019] [Revised: 01/15/2020] [Accepted: 01/26/2020] [Indexed: 10/24/2022]
Abstract
The heterocyclic aromatic compounds are primarily used to make pharmaceutical and agrochemicals. In addition, these compounds can be chosen as antioxidants, corrosion inhibitors, electro and opto-electronic devices, polymer material, dye stuff, developers, etc. On the account of this, the heterocyclic aromatic 6-nitro-2,3-dihydro-1,4-benzodioxine (6N3DB) was chosen and the structure is optimized to predict the important properties of it. The structural parameters such as bond length and bond angle have been obtained by DFT/B3LYP/6-311++G(d,p) basis set to know the geometry and orientation of 6N3DB. The molecule has been characterized by FT-IR and FT-Raman spectroscopic techniques to predict the functional groups, vibrational modes and aromatic nature of 6N3DB. The chemical shifts of 1H and 13C have been obtained experimentally and compared with the theoretical data. The parameters such as the band gap between HOMO-LUMO orbitals, λmax, and electron transition probability in frontier orbitals have been estimated to know the NLO and corrosion inhibition activity. HOMO-LUMO orbital diagram has been obtained for different energy levels and their band gap energies have been compared with UV-vis band gap values. The chemical significance of the molecule has been explained using ELF, LOL, and RDG. The binding energy and intermolecular energy values indicate that the title compound possesses anti-cancer property through hydrolase inhibition activity.
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Affiliation(s)
- Aayisha Shafi
- Research and Development Centre, Bharathiar University, Coimbatore, 641046, Tamilnadu, India; Department of Physics, Meenakshi College for Women, Chennai, 600024, Tamilnadu, India
| | | | - Janani Seetharaman
- Department of Physics, Queen Mary's College, Chennai, 600005, Tamilnadu, India
| | - Muthu Sambanthan
- Department of Physics, Arignar Anna Govt.Arts College, Cheyyar, 604407, Tamilnadu, India.
| | - Raja Murugesan
- Department of Physics, Govt. Thirumagal Mill's College, Gudiyattam, 632602, Tamilnadu, India
| | - Sevvanthi Sundaram
- Department of Physics, Arignar Anna Govt.Arts College, Cheyyar, 604407, Tamilnadu, India
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Kuruvilla TK, Muthu S, Prasana JC, George J, Sara Saji R, Geoffrey B, Host Antony David R. Molecular docking, spectroscopic studies on 4-[2-(Dipropylamino) ethyl]-1,3-dihydro-2H-indol-2-one and QSAR study of a group of dopamine agonists by density functional method. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 222:117185. [PMID: 31177005 DOI: 10.1016/j.saa.2019.117185] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2019] [Revised: 05/02/2019] [Accepted: 05/26/2019] [Indexed: 06/09/2023]
Abstract
Density functional theory is one of the most popular accepted computational quantum mechanical techniques used in the analysis of molecular structure and vibrational spectra. Experimental and theoretical investigations of the molecular structure, electronic and vibrational characteristics of 4-[2-(Dipropylamino) ethyl]-1,3-dihydro-2H-indol-2-one are presented in this work. The title compound was characterized using FT-IR, FT-Raman and UV-Vis spectroscopic techniques. The results were compared with the theoretical calculations obtained using DFT/B3LYP with 6-311++G(d,p) as basis sets and was found to be in good agreement. The complete optimization of the molecular geometry of the title compound was carried out. Further, the vibrational assignments and calculation of potential energy distribution (PED) were reported. NLO has emerged as a key factor in recent researches. Materials showing nonlinear optical properties form the basis of nonlinear optics and development of such materials plays an important role in the present scenario. The current work provides sufficient justification for the title compound to be selected as a good non-linear optical (NLO) candidate. The electronic properties were reported using TD-DFT approach. The HOMO (EHOMO = -5.96 eV), LUMO (ELUMO = -0.80 eV) energies, energy gap and electrophilicity (2.22) was calculated in order to understand the stability, reactivity and bioactivity of the compound under investigation. To comprehend the bonding interactions we have performed the total (TDOS), partial (PDOS) and overlap population or COOP (Crystal Orbital Overlap Population) density of states. The drug likeness values were analyzed to evaluate the potential of the title compound to be an active pharmaceutical component. As a positive proof the paper further explains the molecular docking studies of the said compound. In addition, the stereochemistry of the protein structure was checked using Ramachandran plot. The title compound is a directly acting dopamine D2 agonist. In order to establish relationship between molecular descriptors of compound and its biological activity, QSAR studies have been done within the framework of DFT for 10 dopamine agonist including the title compound. Hence, the research exploration provides requisite information pertaining to the geometry, stability, reactivity and bioactivity of the compound through spectroscopic and quantum chemical methods.
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Affiliation(s)
- Tintu K Kuruvilla
- Department of Physics, Madras Christian College, East Tambaram 600059, Tamil Nadu, India
| | - S Muthu
- Department of Physics, Arignar Anna Govt. Arts College, Cheyyar 604407, Tamil Nadu, India.
| | | | - Jacob George
- Department of Physics, Madras Christian College, East Tambaram 600059, Tamil Nadu, India
| | - Rinnu Sara Saji
- Department of Physics, Madras Christian College, East Tambaram 600059, Tamil Nadu, India
| | - Ben Geoffrey
- Department of Physics, Madras Christian College, East Tambaram 600059, Tamil Nadu, India
| | - R Host Antony David
- Bioinformatics Infrastructure Facility for BITSnet, Madras Christian College, East Tambaram 600059, Tamil Nadu, India
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18
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Spectroscopic investigation, fungicidal activity and molecular dynamics simulation on benzimidazol-2-yl carbamate derivatives. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2018.08.092] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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19
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Spectroscopic (FT-IR, FT-Raman), quantum mechanical and docking studies on methyl[(3S)-3-(naphthalen-1-yloxy)-3-(thiophen-2-yl)propyl]amine. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2018.07.097] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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20
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Komrovsky F, Sperandeo NR, Vera DMA, Caira MR, Mazzieri MR. X-ray, DFT, FTIR and thermal study of the antimicrobial N-benzenesulfonyl-1H-1,2,3-benzotriazole. J Mol Struct 2018. [DOI: 10.1016/j.molstruc.2018.03.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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21
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Işık Büyükekşi S, Erkısa M, Şengül A, Ulukaya E, Yılmaztepe Oral A. Structural studies and cytotoxic activity of a new dinuclear coordination compound of palladium(II)-2,2′:6′,2″-terpyridine with rigid dianionic 1,2,4-triazole-3-sulfonate linker. Appl Organomet Chem 2018. [DOI: 10.1002/aoc.4406] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- Sebile Işık Büyükekşi
- Department of Chemistry, Faculty of Arts and Sciences; Bülent Ecevit University; 67100 Zonguldak Turkey
| | - Merve Erkısa
- Department of Clinical Biochemistry; Medical School of Istinye University; 34010 Istanbul Turkey
| | - Abdurrahman Şengül
- Department of Chemistry, Faculty of Arts and Sciences; Bülent Ecevit University; 67100 Zonguldak Turkey
| | - Engin Ulukaya
- Department of Clinical Biochemistry; Medical School of Istinye University; 34010 Istanbul Turkey
| | - Arzu Yılmaztepe Oral
- Department of Medical Biochemistry; Medical School of Uludağ University; 16059 Görükle Bursa Turkey
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Sureshkumar B, Sheena Mary Y, Panicker CY, Resmi K, Suma S, Armaković S, Armaković SJ, Van Alsenoy C. Spectroscopic analysis of 8-hydroxyquinoline-5-sulphonic acid and investigation of its reactive properties by DFT and molecular dynamics simulations. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2017.09.014] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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23
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Sheeja Mol GP, Arul Dhas DD, Hubert Joe I, Balachandran S. Normal coordinate analysis and fungicidal activity study on anilazine and its related compound using spectroscopic techniques. Chem Phys Lett 2016. [DOI: 10.1016/j.cplett.2016.05.004] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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24
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Mendoza-Huizar L, Salgado-Morán G, Ramirez-Tagle R, Glossman-Mitnik D. A theoretical quantum study of the intramolecular interactions and chemical reactivity of polymorphs A and B of famotidine in the gas, DMSO, and aqueous phases. COMPUT THEOR CHEM 2016. [DOI: 10.1016/j.comptc.2015.11.007] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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25
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Renuga Devi TS, Sharmi kumar J, Ramkumaar GR. DFT analysis on the molecular structure, vibrational and electronic spectra of 2-(cyclohexylamino)ethanesulfonic acid. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 137:761-777. [PMID: 25262144 DOI: 10.1016/j.saa.2014.08.121] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2014] [Revised: 08/12/2014] [Accepted: 08/24/2014] [Indexed: 06/03/2023]
Abstract
The FTIR and FT-Raman spectra of 2-(cyclohexylamino)ethanesulfonic acid were recorded in the regions 4000-400 cm(-1) and 4000-50 cm(-1) respectively. The structural and spectroscopic data of the molecule in the ground state were calculated using Hartee-Fock and Density functional method (B3LYP) with the correlation consistent-polarized valence double zeta (cc-pVDZ) basis set and 6-311++G(d,p) basis set. The most stable conformer was optimized and the structural and vibrational parameters were determined based on this. The complete assignments were performed based on the Potential Energy Distribution (PED) of the vibrational modes, calculated using Vibrational Energy Distribution Analysis (VEDA) 4 program. With the observed FTIR and FT-Raman data, a complete vibrational assignment and analysis of the fundamental modes of the compound were carried out. Thermodynamic properties and Atomic charges were calculated using both Hartee-Fock and density functional method using the cc-pVDZ basis set and compared. The calculated HOMO-LUMO energy gap revealed that charge transfer occurs within the molecule. (1)H and (13)C NMR chemical shifts of the molecule were calculated using Gauge Including Atomic Orbital (GIAO) method and were compared with experimental results. Stability of the molecule arising from hyperconjugative interactions, charge delocalization have been analyzed using Natural Bond Orbital (NBO) analysis. The first order hyperpolarizability (β) and Molecular Electrostatic Potential (MEP) of the molecule was computed using DFT calculations. The electron density based local reactivity descriptor such as Fukui functions were calculated to explain the chemical reactivity site in the molecule.
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Affiliation(s)
- T S Renuga Devi
- Department of Physics, Women's Christian College, College Road, Chennai 600006, TN, India.
| | - J Sharmi kumar
- P.G. Department of Physics, Women's Christian College, College Road, Chennai 600006, TN, India; Department of Physics, Periyar University, Salem 636011, TN, India
| | - G R Ramkumaar
- Department of Physics, C. Kandaswami Naidu College for Men in Anna Nagar East, Chennai 600102, TN, India
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Renuga Devi TS, Sharmi Kumar J, Ramkumaar GR. Quantum chemical studies on structural, vibrational, NBO and hyperpolarizability of N-(1,1-Dimethyl-2-hydroxyethyl)-3-amino-2-hydroxypropanesulfonic acid. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 136 Pt C:1500-1514. [PMID: 25459712 DOI: 10.1016/j.saa.2014.10.042] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2014] [Revised: 10/09/2014] [Accepted: 10/15/2014] [Indexed: 06/04/2023]
Abstract
The FTIR and FT-Raman spectra of N-(1,1-Dimethyl-2-hydroxyethyl)-3-amino-2-hydroxypropanesulfonic acid were recorded in the regions 4000-400cm(-1) and 4000-50cm(-1) respectively. The structural and spectroscopic data of the molecule in the ground state were calculated using Hartee-Fock and density functional method (B3LYP) with the correlation consistent-polarized valence double zeta (cc-pVDZ) basis set. The most stable conformer was optimized and the structural and vibrational parameters were determined based on this. With the observed FTIR and FT-Raman data, a complete vibrational assignment and analysis of the fundamental modes of the compound were carried out. Thermodynamic properties and Mulliken charges were calculated using both Hartee-Fock and density functional method using the cc-pVDZ basis set and compared. The calculated HOMO-LUMO energy gap revealed that charge transfer occurs within the molecule. (1)H and (13)C NMR chemical shifts of the molecule were calculated using Gauge Including Atomic Orbital (GIAO) method and were compared with experimental results. Stability of the molecule arising from hyperconjugative interactions and charge delocalization has been analyzed using Natural Bond Orbital (NBO) analysis. The first order hyperpolarizability (β) and Molecular Electrostatic Potential (MEP) of the molecule was computed using DFT calculations. The electron density based local reactivity descriptor such as Fukui functions were calculated to explain the chemical reactivity site in the molecule.
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Affiliation(s)
- T S Renuga Devi
- Department of Physics, Women's Christian College, College Road, Chennai 600006, TN, India.
| | - J Sharmi Kumar
- P.G. Department of Physics, Women's Christian College, College Road, Chennai 600006, TN, India; Department of Physics, Periyar University, Salem 636011, TN, India
| | - G R Ramkumaar
- Department of Physics, C. Kandaswami Naidu College for Men in Anna Nagar East, Chennai 600102, TN, India
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Li L, Cai T, Wang Z, Zhou Z, Geng Y, Sun T. Study on molecular structure, spectroscopic investigation (IR, Raman and NMR), vibrational assignments and HOMO-LUMO analysis of L-sodium folinate using DFT: a combined experimental and quantum chemical approach. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2013; 120:106-118. [PMID: 24177877 DOI: 10.1016/j.saa.2013.10.011] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2013] [Revised: 09/19/2013] [Accepted: 10/04/2013] [Indexed: 06/02/2023]
Abstract
In the present work, an exhaustive conformational search of N-[4-[[(2-amino-5-formyl-(6S)-3,4,5,6,7,8-hexahydro-4-oxo-6-pteridinyl)methyl]amino]benzoyl]-L-glutamic acid disodium salt (L-SF) has been preformed. The optimized structure of the molecule, vibrational frequencies and NMR spectra studies have been calculated by density functional theory (DFT) using B3LYP method with the 6-311++G (d, p) basis set. IR and FT-Raman spectra for L-SF have been recorded in the region of 400-4000 cm(-1) and 100-3500 cm(-1), respectively. 13C and 1H NMR spectra were recorded and 13C and 1H nuclear magnetic resonance chemical shifts of the molecule were calculated based on the gauge-independent atomic orbital (GIAO) method. Finally all of the calculation results were applied to simulate IR, Raman, 1H NMR and 13C NMR spectrum of the title compound which showed excellent agreement with observed spectrum. Furthermore, reliable vibrational assignments which have been made on the basis of potential energy distribution (PED) and characteristic vibratinonal absorption bands of the title compound in IR and Raman have been figured out. HOMO-LUMO energy and Mulliken atomic charges have been evaluated, either.
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Affiliation(s)
- Linwei Li
- Key Laboratory of Structure-Based Drug Design and Discovery, Shenyang Pharmaceutical University, Ministry of Education, Shenyang 110016, PR China
| | - Tiancheng Cai
- Key Laboratory of Structure-Based Drug Design and Discovery, Shenyang Pharmaceutical University, Ministry of Education, Shenyang 110016, PR China
| | - Zhiqiang Wang
- Key Laboratory of Structure-Based Drug Design and Discovery, Shenyang Pharmaceutical University, Ministry of Education, Shenyang 110016, PR China
| | - Zhixu Zhou
- Key Laboratory of Structure-Based Drug Design and Discovery, Shenyang Pharmaceutical University, Ministry of Education, Shenyang 110016, PR China
| | - Yiding Geng
- Key Laboratory of Structure-Based Drug Design and Discovery, Shenyang Pharmaceutical University, Ministry of Education, Shenyang 110016, PR China
| | - Tiemin Sun
- Key Laboratory of Structure-Based Drug Design and Discovery, Shenyang Pharmaceutical University, Ministry of Education, Shenyang 110016, PR China.
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