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Hu X, Yuan S, Wen A, Chen Q, Yu H, Guo Y, Cheng Y, Yao W. New insights into the interactions between the antibiotic enrofloxacin and fish protein by spectroscopic, thermodynamic, and theoretical simulation approaches. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2025; 330:125658. [PMID: 39733711 DOI: 10.1016/j.saa.2024.125658] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/11/2024] [Revised: 12/18/2024] [Accepted: 12/21/2024] [Indexed: 12/31/2024]
Abstract
In this study, myofibrillar proteins (MPs) from crucian carp were utilized as a model to investigate the binding mechanism between fish proteins and antibiotic residues. Fluorescence quenching confirmed the static quenching (Ksv = 1.89 × 104 M-1 s-1, Kq = 1.89 × 1012 M-1 s-1) and effective binding (Kb = 5.66 × 106 M-1) of Enrofloxacin (ENRO) to MPs. Fourier-transform infrared spectroscopy and circular dichroism spectroscopy revealed that ENRO binding altered the secondary structure of MPs. The interaction mechanism, primarily driven by hydrogen bonding, electrostatic, and hydrophobic interactions (ΔH0 < 0, ΔS0 > 0), was elucidated using isothermal titration calorimetry. The ΔH0, -TΔS0 and ΔG0 values of the binding reaction between MPs and ENRO were -5.98 kJ/mol, -32.57 kJ/mol and -38.55kJ/mol. Molecular docking further verified the interaction forces, identifying key amino acid residues (Phe-40, His-93, and Lys-42) involved in ENRO binding. Additionally, protein carbonylation results demonstrated that even at maximum residue limits, ENRO accelerated MPs oxidation, further confirming the binding of the two. This study can provide theoretical support for the research of the dissipation fate of bound state residues in aquatic products.
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Affiliation(s)
- Xinyuan Hu
- State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, Jiangsu Province, China; School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu Province, China
| | - Shaofeng Yuan
- State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, Jiangsu Province, China; School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu Province, China.
| | - Aying Wen
- State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, Jiangsu Province, China; School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu Province, China
| | - Qingmin Chen
- College of Ocean Food and Biological Engineering, Jimei University, Xiamen 361021, China
| | - Hang Yu
- State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, Jiangsu Province, China; School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu Province, China
| | - Yahui Guo
- State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, Jiangsu Province, China; School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu Province, China
| | - Yuliang Cheng
- State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, Jiangsu Province, China; School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu Province, China
| | - Weirong Yao
- State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, Jiangsu Province, China; School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu Province, China
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Rupa SA, Moni MR, Patwary MAM, Mahmud MM, Haque MA, Uddin J, Abedin SMT. Synthesis of Novel Tritopic Hydrazone Ligands: Spectroscopy, Biological Activity, DFT, and Molecular Docking Studies. Molecules 2022; 27:1656. [PMID: 35268756 PMCID: PMC8911750 DOI: 10.3390/molecules27051656] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Revised: 02/27/2022] [Accepted: 03/01/2022] [Indexed: 02/06/2023] Open
Abstract
Polytopic organic ligands with hydrazone moiety are at the forefront of new drug research among many others due to their unique and versatile functionality and ease of strategic ligand design. Quantum chemical calculations of these polyfunctional ligands can be carried out in silico to determine the thermodynamic parameters. In this study two new tritopic dihydrazide ligands, N’2, N’6-bis[(1E)-1-(thiophen-2-yl) ethylidene] pyridine-2,6-dicarbohydrazide (L1) and N’2, N’6-bis[(1E)-1-(1H-pyrrol-2-yl) ethylidene] pyridine-2,6-dicarbohydrazide (L2) were successfully prepared by the condensation reaction of pyridine-2,6-dicarboxylic hydrazide with 2-acetylthiophene and 2-acetylpyrrole. The FT-IR, 1H, and 13C NMR, as well as mass spectra of both L1 and L2, were recorded and analyzed. Quantum chemical calculations were performed at the DFT/B3LYP/cc-pvdz/6-311G+(d,p) level of theory to study the molecular geometry, vibrational frequencies, and thermodynamic properties including changes of ∆H, ∆S, and ∆G for both the ligands. The optimized vibrational frequency and (1H and 13C) NMR obtained by B3LYP/cc-pvdz/6-311G+(d,p) showed good agreement with experimental FT-IR and NMR data. Frontier molecular orbital (FMO) calculations were also conducted to find the HOMO, LUMO, and HOMO−LUMO gaps of the two synthesized compounds. To investigate the biological activities of the ligands, L1 and L2 were tested using in vitro bioassays against some Gram-negative and Gram-positive bacteria and fungus strains. In addition, molecular docking was used to study the molecular behavior of L1 and L2 against tyrosinase from Bacillus megaterium. The outcomes revealed that both L1 and L2 can suppress microbial growth of bacteria and fungi with variable potency. The antibacterial activity results demonstrated the compound L2 to be potentially effective against Bacillus megaterium with inhibition zones of 12 mm while the molecular docking study showed the binding energies for L1 and L2 to be −7.7 and −8.8 kcal mol−1, respectively, with tyrosinase from Bacillus megaterium.
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Affiliation(s)
- Sharmin Akther Rupa
- Department of Chemistry, Comilla University, Cumilla 3506, Bangladesh; (S.A.R.); (M.R.M.)
| | - Md. Rassel Moni
- Department of Chemistry, Comilla University, Cumilla 3506, Bangladesh; (S.A.R.); (M.R.M.)
| | | | - Md. Mayez Mahmud
- Faculty of Pharmaceutical Science, Tokushima University, Tokushima Shi 770-0026, Japan;
| | - Md. Aminul Haque
- Department of Chemistry, Jagannath University, Dhaka 1100, Bangladesh;
| | - Jamal Uddin
- Department of Natural Sciences, Center for Nanotechnology, Coppin State University, Baltimore, MD 21216, USA
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Khan A, Siddique AM, Shaikh M, Khan IA, Shafi S. Microwave-assisted solvent-free tandem cross-metathesis/intramolecular isomerization-cyclization reaction for the synthesis of N-substituted pyrroles: It’s computational analysis. SYNTHETIC COMMUN 2022. [DOI: 10.1080/00397911.2022.2039710] [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)
- Arif Khan
- Department of Chemistry, School of Chemical and Life Sciences, New Delhi, India
| | - Asher M. Siddique
- Department of Chemistry, School of Chemical and Life Sciences, New Delhi, India
| | - Majeed Shaikh
- Natural product and Medicinal Chemistry Division, CSIR-Indian Institute of Integrative Medicine, Jammu, India
| | - Imran A. Khan
- Department of Chemistry, School of Chemical and Life Sciences, New Delhi, India
| | - Syed Shafi
- Department of Chemistry, School of Chemical and Life Sciences, New Delhi, India
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Shukla AK, Chaudhary AP, Pandey J. Synthesis, spectral analysis, molecular docking and DFT studies of 3-(2, 6-dichlorophenyl)-acrylamide and its dimer through QTAIM approach. Heliyon 2020; 6:e05016. [PMID: 33033758 PMCID: PMC7533364 DOI: 10.1016/j.heliyon.2020.e05016] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Revised: 07/29/2020] [Accepted: 09/18/2020] [Indexed: 11/23/2022] Open
Abstract
In this paper, an experimental study of (E)-3-(2,6-dichlorophenyl)-acrylamide and its associated dimer were analysed with molecular docking, DFT and QTAIM approach. To spot, describe, and measure the non-covalent interactions (NCIs) of the atoms in the molecules of the monomer and its dimer, some important topological parameters of the charge densities, ρ(r) acquired from the Bader's QTAIM tool are determined, quantitatively. The bond paths are shown to persist for a range of five types of NCIs such as weak conventional (C-H···Cl) and nonconventional (C-O···C and N-O···Cl), medium (N-H···Cl) and strong O-H···O NCIs revealed by the existence of BCPs (ranging from 1.921 - 3.259 Å). A comprehensive explanation of the spectroscopic data like vibrational, electronic, and NMR spectra is reported along with the NLO, reactivity. Hydroxamic acid exhibited an excellent nonlinear optical activity (β0 = 14.8098 × 10−30). To predict the various reactive sites in the molecule, molecular electrostatic potential diagrams were displayed.
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Affiliation(s)
- Akhilesh Kumar Shukla
- Department of Chemistry, Babasaheb Bhimrao Ambedkar University (A Central University), Lucknow 226025, Uttar Pradesh, India
| | - Aniruddh Prasad Chaudhary
- Department of Chemistry, Udai Pratap College (An Autonomous Institution) Varanasi, Uttar Pradesh, India 221002
| | - Jyoti Pandey
- Department of Chemistry, Babasaheb Bhimrao Ambedkar University (A Central University), Lucknow 226025, Uttar Pradesh, India
- Corresponding author.
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Sasikala V, Sajan D, Joseph L, Balaji J, Prabu S, Srinivasan P. Spectroscopic and DFT-based computational studies on the molecular electronic structural characteristics and the third-order nonlinear property of an organic NLO crystal: ( E )- N ′-(4-chlorobenzylidene)-4-methylbenzenesulfonohydrazide. Chem Phys Lett 2017. [DOI: 10.1016/j.cplett.2017.02.039] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Singh M, Kumar A, Srivastava G, Deepak D, Singh M. Isolation, structure elucidation and DFT study on two novel oligosaccharides from yak milk. J Mol Struct 2016. [DOI: 10.1016/j.molstruc.2016.03.065] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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