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A comprehensive in vitro exploration into the interaction mechanism of coumarin derivatives with bovine hemoglobin: Spectroscopic and computational methods. J Photochem Photobiol A Chem 2022. [DOI: 10.1016/j.jphotochem.2022.114425] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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2
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Sarkar O, Roy M, Biswal D, Ranjan Pramanik N, Paul S, Drew MGB, Chakrabarti S. Structural Exploration and Protein Binding Efficiencies of Binuclear Dioxidomolybdenum(VI) Complexes Constructed from ONO Chelator and Linear N−N Ditopic Spacer. ChemistrySelect 2022. [DOI: 10.1002/slct.202201412] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Oiendrilla Sarkar
- Department of Chemistry University College of Science 92, Acharya Prafulla Chandra Road Kolkata 700009, West Bengal India
| | - Malini Roy
- Department of Chemistry University College of Science 92, Acharya Prafulla Chandra Road Kolkata 700009, West Bengal India
| | - Debanjana Biswal
- Department of Chemistry University College of Science 92, Acharya Prafulla Chandra Road Kolkata 700009, West Bengal India
| | - Nikhil Ranjan Pramanik
- Department of Chemistry Bidhannagar College EB-2 Sector-1, Salt Lake, Kolkata 700064 India
| | - Suvendu Paul
- Department of Chemistry BITS-Pilani Hyderabad Campus Shameerpet Hyderabad 500078, Telangana India
| | - Michael G. B. Drew
- Department of Chemistry The University of Reading Whiteknights Reading RG66AD UK
| | - Syamal Chakrabarti
- Department of Chemistry University College of Science 92, Acharya Prafulla Chandra Road Kolkata 700009, West Bengal India
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3
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Vicente-Escobar JO, García-Sánchez MÁ, Serratos IN, Millán-Pacheco C, Tello-Solís SR. Binding of Two Tetrasulfophthalocyanines (Fe(III) and Metal-Free) to Lysozyme: Fluorescence Spectroscopic and Computational Approach. J Fluoresc 2021; 31:787-796. [PMID: 33665743 DOI: 10.1007/s10895-021-02710-7] [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: 12/26/2020] [Accepted: 02/18/2021] [Indexed: 10/22/2022]
Abstract
The interactions between tetrasulfophthalocyanines and lysozyme were studied using fluorescence spectroscopic and computational analyses. Lysozyme has been found to be widely studied as an anticancer agent, however, there are few reports of its interaction with phthalocyanines. Fe(III) tetrasulfophthalocyanine (FeTSPc) and free base tetrasulfophthalocyanine (TSPc) used in this study, were synthesized by our research group. Experimental results suggested that the metalled complex FeTSPc has a much higher affinity than TSPc. The binding stoichiometry between each tetrasulfophthalocyanine and lysozyme was 1:1. Stern-Volmer analysis suggested that the fluorescence quenching proceedes through a static process. Binding thermodynamics (ΔG, ΔH and ΔS) confirmed that mainly hydrogen bonds, van der Waals, and electrostatic forces are responsible for the binding process. We carried out molecular dynamics simulations, molecular docking, and binding energy calculations. Molecular dynamics simulations yielded the most populated cluster of lysozyme structures, and a representative structure from this cluster was used for the docking studies with these phthalocyanines. 1000 poses were generated for each ligand. The strudtures of the resulting complexes revealed that Arg 73 and Arg 112 are important for the binding affinity of the tetrasulfophthalocyanines, generating mainly an electrostatic favorable environment for the SO3- groups. In addition, hydrophobic contacts were involved with Trp 62, Trp 63 and Trp 108, explaining the fluorescence quenching observed experimentally. Binding energies were determined for these models, confirming that the interactions with lysozyme were more favorable for FeTSPc compared to TSPc. The understanding of the molecular mechanisms is relevant to characterize the nature of tetrasulfophthalocyanines in photodynamic therapy.
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Affiliation(s)
- Jonathan Osiris Vicente-Escobar
- Departamento de Química, Universidad Autónoma Metropolitana-Iztapalapa, Avenida San Rafael Atlixco 186, Colonia Vicentina, 09340 Iztapalapa, Ciudad de México, México
| | - Miguel Ángel García-Sánchez
- Departamento de Química, Universidad Autónoma Metropolitana-Iztapalapa, Avenida San Rafael Atlixco 186, Colonia Vicentina, 09340 Iztapalapa, Ciudad de México, México
| | - Iris N Serratos
- Departamento de Química, Universidad Autónoma Metropolitana-Iztapalapa, Avenida San Rafael Atlixco 186, Colonia Vicentina, 09340 Iztapalapa, Ciudad de México, México
| | - César Millán-Pacheco
- Facultad de Farmacia, Universidad Autónoma del Estado de Morelos, Cuernavaca, Morelos, México
| | - Salvador Ramón Tello-Solís
- Departamento de Química, Universidad Autónoma Metropolitana-Iztapalapa, Avenida San Rafael Atlixco 186, Colonia Vicentina, 09340 Iztapalapa, Ciudad de México, México.
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4
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Revisiting magnetic field effects in homogeneous medium and bio-mimicking environments with emphasis on acridine derivatives. J INDIAN CHEM SOC 2021. [DOI: 10.1016/j.jics.2021.100057] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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5
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Krawczyk P. 4-(4-Chloro-2-oxo-3(1H-phenanthro[9,10-d]imidazol-2-yl)-2H-chromen-6-yl) benzaldehyde as a fluorescent probe for medical imaging: linear and nonlinear optical properties. Photochem Photobiol Sci 2020; 19:473-484. [PMID: 32159189 DOI: 10.1039/c9pp00478e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This study presents the full theoretical optical and biological characteristics of a new fluorescent probe based on the phenanthroimidazole backbone (PB5). The aldehyde group was selected as the active group to bind to the protein during conjugation. The new fluorescent probe is based on the phenanthroimidazole backbone; however, unlike previously presented works, as the chromophore part, it contains the first introduction of the 4-chloro-2H-chromen-2-one part. In order to achieve the best cognitive aspect, the study included not only the dye itself but also the concanavalin A conjugate. The linear and non-linear optical properties and biological activities described in this study clearly indicate that the presented dye is a promising material as a fluorescent probe in medical imaging.
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Affiliation(s)
- Przemystaw Krawczyk
- Nicolaus Copernicus University, Collegium Medicum, Faculty of Pharmacy, Department of Physical Chemistry, Kurpińskiego 5, Bydgoszcz, 85-950, Poland.
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6
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Elucidation of the association of potential chemotherapeutic alkaloid chelerythrine with bovine hemoglobin by experimental probing and molecular docking simulation. Int J Biol Macromol 2019; 138:57-69. [DOI: 10.1016/j.ijbiomac.2019.07.069] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Revised: 06/26/2019] [Accepted: 07/09/2019] [Indexed: 12/30/2022]
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7
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Krawczyk P, Czeleń P, Cysewski P. Reactive group effects on the photophysical and biological properties of 2-phenyl-1H-phenanthro[9,10-d]imidazole derivatives as fluorescent markers. Org Biomol Chem 2019; 16:3788-3800. [PMID: 29737356 DOI: 10.1039/c8ob00729b] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
The presented research focuses on the theoretical design and procedures for preparing protein conjugates with markers. For this purpose a series of phenanthroimidazole (PhI) analogous compounds was designed and investigated by means of first principle methods. Through the judicious choice of cross-linking reagents and the selection of reactive groups, five target fluorescent probes were selected, one of which was previously described using in vitro tests. For the best cognitive purpose and understanding of the nature of the protein conjugation, the studies describe the impact of the reactive group on the solvatochromism, the polarity of the charge transfer of the excited states, the Stokes' shift, ECD spectra and two-photon cross sections. The research is also extended to an analysis of PhI-Concanavalin A biocomplexes and changes in photophysical properties after conjugation. In order to identify valuable alternatives to commercial probes designed for cellular labelling in biological and biomedical imaging, biological properties were described such as ecotoxicity, log P and log BCF, and dye-protein binding was quantified by means of AutoDock and molecular dynamics simulations. The study showed that for phenanthroimidazole derivatives the factor which limits the possibility of their use in medical imaging is the presence of a pyridyl disulfide group, while the introduction of an N-hydroxysuccinimide ester may be used to create stable and valuable fluorescent probes with a wide spectrum for applications in biomedical imaging.
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Affiliation(s)
- Przemysław Krawczyk
- Nicolaus Copernicus University, Collegium Medicum, Faculty of Pharmacy, Department of Physical Chemistry, Kurpińskiego 5, 85-950 Bydgoszcz, Poland.
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Manjubaashini N, Kesavan MP, Rajesh J, Daniel Thangadurai T. Multispectroscopic and bioimaging approach for the interaction of rhodamine 6G capped gold nanoparticles with bovine serum albumin. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2018; 183:374-384. [PMID: 29763760 DOI: 10.1016/j.jphotobiol.2018.05.005] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2018] [Revised: 04/30/2018] [Accepted: 05/04/2018] [Indexed: 02/06/2023]
Abstract
Binding interaction of Bovine Serum Albumin (BSA) with newly prepared rhodamine 6G-capped gold nanoparticles (Rh6G-Au NPs) under physiological conditions (pH 7.2) was investigated by a wide range of photophysical techniques. Rh6G-Au NPs caused the static quenching of the intrinsic fluorescence of BSA that resulted from the formation of ground-state complex between BSA and Rh6G-Au NPs. The binding constant from fluorescence quenching method (Ka = 1.04 × 104 L mol-1; LoD = 14.0 μM) is in accordance with apparent association constant (Kapp = 1.14 × 101 M-1), which is obtained from absorption spectral studies. Förster resonance energy transfer (FRET) efficiency between the tryptophan (Trp) residue of BSA and fluorophore of Rh6G-Au NPs during the interaction was calculated to be 90%. The free energy change (ΔG = -23.07 kJ/mol) of BSA-Rh6G-Au NPs complex was calculated based on modified Stern-Volmer Plot. The time-resolved fluorescence analysis confirmed that quenching of BSA follows static mechanism through the formation of ground state complex. Furthermore, synchronous and three-dimensional fluorescence measurement, Raman spectral analysis and Circular Dichroism spectrum results corroborate the strong binding between Rh6G-Au NPs and BSA, which causes the conformational changes on BSA molecule. In addition, fluorescence imaging experiments of BSA in living human breast cancer (HeLa) cells was successfully demonstrated, which articulated the value of Rh6G-Au NPs practical applications in biological systems.
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Affiliation(s)
- N Manjubaashini
- Department of Nanoscience and Technology, Sri Ramakrishana Engineering College, Coimbatore, Tamilnadu 641 022, India
| | | | | | - T Daniel Thangadurai
- Department of Nanoscience and Technology, Sri Ramakrishana Engineering College, Coimbatore, Tamilnadu 641 022, India.
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9
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Das S, Ghosh P, Koley S, Singha Roy A. Binding of naringin and naringenin with hen egg white lysozyme: A spectroscopic investigation and molecular docking study. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 192:211-221. [PMID: 29145059 DOI: 10.1016/j.saa.2017.11.015] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2017] [Revised: 10/27/2017] [Accepted: 11/06/2017] [Indexed: 06/07/2023]
Abstract
The interactions of naringenin (NG) and naringin (NR) with Hen Egg White Lysozyme (HEWL) in aqueous medium have been investigated using UV-vis spectroscopy, steady-state fluorescence, circular dichroism (CD), Fourier Transform infrared spectroscopy (FT-IR) and molecular docking analyses. Both NG and NR can quench the intrinsic fluorescence of HEWL via static quenching mechanism. At 300K, the value of binding constant (Kb) of HEWL-NG complex (5.596±0.063×104M-1) was found to be greater than that of HEWL-NR complex (3.404±0.407×104M-1). The negative ΔG° values in cases of both the complexes specify the spontaneous binding. The binding distance between the donor (HEWL) and acceptor (NG/NR) was estimated using the Försters theory and the possibility of non-radiative energy transfer from HEWL to NG/NR was observed. The presence of metal ions (Ca2+, Cu2+ and Fe2+) decreased the binding affinity of NG/NR towards HEWL. Synchronous fluorescence studies indicate the change in Trp micro-environment due to the incorporation of NG/NR into HEWL. CD and FT-IR studies indicated that the α-helicity of the HEWL was slightly enhanced due to ligand binding. NG and NR inhibited the enzymatic activity of HEWL and exhibited their affinity for the active site of HEWL. Molecular docking studies revealed that both NG and NR bind in the close vicinity of Trp 62 and Trp 63 residues which is vital for the catalytic activity.
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Affiliation(s)
- Sourav Das
- Department of Chemistry, National Institute of Technology, Meghalaya, Shillong 793003, India
| | - Pooja Ghosh
- Department of Chemistry, Indian Institute of Technology, Kharagpur 721302, India
| | - Sudipta Koley
- Department of Physics, North Eastern Hill University, Shillong 793022, Meghalaya, India
| | - Atanu Singha Roy
- Department of Chemistry, National Institute of Technology, Meghalaya, Shillong 793003, India.
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10
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Krawczyk P, Jędrzejewska B, Cysewski P, Janek T. Synthesis, photophysical and biological properties of a new oxazolone fluorescent probe for bioimaging: an experimental and theoretical study. Org Biomol Chem 2018; 15:8952-8966. [PMID: 29043360 DOI: 10.1039/c7ob02439h] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
In this study, a new oxazolone derivative 4-{N,N-bis[2-phenyl-4-benzylidene-1,3-oxazol-5(4H)-one]amino}benzaldehyde (PB3) was synthesized and investigated as a fluorescent dye. The spectroscopic properties in different solvents were thoroughly studied. The experimental data were supported by quantum-chemical calculations using density functional theory. Measurements and theoretical calculations showed that the PB3 dye is characterized by non-monotonic solvatochromism, a strongly polar charge transfer excited state, a large Stokes' shift, a high fluorescence quantum yield and a high fluorescence lifetime. Bioconjugate complexes (PB3-concanavalin A) were studied by circular dichroism (CD) spectroscopy. The results showed that the secondary structure of concanavalin A was not significantly influenced by the PB3-fluorophore. Conventional fluorescence microscopy imaging of Candida albicans cells, incubated with the PB3-concanavalin A, was demonstrated. The results from cytochemistry experiments demonstrate that the PB3 dye has valuable advantages compared to the other long-wavelength dyes in typical fluorescence-based cell labeling applications. In vitro tolerance was evaluated by the MTT method in the human colon adenocarcinoma cell line HT29. The PB3 and bioconjugate complexes (PB3-concanavalin A), in the range of concentrations tested, were not considerably toxic. The AutoDock simulations showed LYS46 as the most likely active site for covalent bond formation during PB3-concanavalin A conjugation. In addition, theoretical studies have shown that PB3 is characterized by good bioavailability and absorption/transmission across the cell membrane. This molecule will not bioaccumulate in living organisms and should be excreted in urine without interacting with other drugs. This work provided promising results for the red fluorescent probe (PB3) as a valuable alternative to commercial probes designed for cellular labeling in biological and biomedical research.
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Affiliation(s)
- Przemysław Krawczyk
- Nicolaus Copernicus University, Collegium Medicum, Faculty of Pharmacy, Chair and Department of Physical Chemistry, Kurpińskiego 5, 85-950 Bydgoszcz, Poland.
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11
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Study on preparation and inclusion behavior of inclusion complexes between β-cyclodextrin derivatives with benzophenone. J INCL PHENOM MACRO 2018. [DOI: 10.1007/s10847-018-0787-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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12
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Das S, Karn A, Sarmah R, Rohman MA, Koley S, Ghosh P, Roy AS. Characterization of non-covalent binding of 6-hydroxyflavone and 5,7-dihydroxyflavone with bovine hemoglobin: Multi-spectroscopic and molecular docking analyses. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2018; 178:40-52. [DOI: 10.1016/j.jphotobiol.2017.10.021] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2017] [Revised: 10/19/2017] [Accepted: 10/24/2017] [Indexed: 11/25/2022]
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13
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Krawczyk P, Czeleń P, Szefler B, Cysewski P. Theoretical studies on the interaction between chalcone dyes and Concanavalin A—The reactive group effects on the photophysical and biological properties of the fluorescence probe. J Photochem Photobiol A Chem 2017. [DOI: 10.1016/j.jphotochem.2017.06.024] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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14
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Krawczyk P, Jędrzejewska B, Pietrzak M, Janek T. Synthesis, photophysical properties and systematic evaluations of new phenanthroimidazole fluorescent probe for bioimaging: Experimental and theoretical study. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2017; 166:74-85. [DOI: 10.1016/j.jphotobiol.2016.11.008] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2016] [Revised: 09/22/2016] [Accepted: 11/05/2016] [Indexed: 12/11/2022]
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15
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Krawczyk P, Jędrzejewska B, Pietrzak M, Janek T. Synthesis, spectroscopic, physicochemical properties and binding site analysis of 4-(1H-phenanthro[9,10-d]-imidazol-2-yl)-benzaldehyde fluorescent probe for imaging in cell biology: Experimental and theoretical study. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2016; 164:112-122. [DOI: 10.1016/j.jphotobiol.2016.07.044] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2016] [Accepted: 07/27/2016] [Indexed: 12/23/2022]
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16
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Hemalatha K, Madhumitha G, Ravi L, Khanna VG, Al-Dhabi NA, Arasu MV. Binding mode of dihydroquinazolinones with lysozyme and its antifungal activity against Aspergillus species. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2016; 161:71-9. [PMID: 27214045 DOI: 10.1016/j.jphotobiol.2016.05.005] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2016] [Accepted: 05/03/2016] [Indexed: 11/28/2022]
Abstract
Aspergillosis is one of the infectious fungal diseases affecting mainly the immunocompromised patients. The scarcity of the antifungal targets has identified the importance of N-myristoyl transferase (NMT) in the regulation of fungal pathway. The dihydroquinazolinone molecules were designed on the basis of fragments responsible for binding with the target enzyme. The aryl halide, 1(a-g), aryl boronic acid and potassium carbonate were heated together in water and dioxane mixture to yield new CC bond formation in dihydroquinazolinone. The bis(triphenylphosphine)palladium(II) dichloride was used as catalyst for the CC bond formation. The synthesized series were screened for their in vitro antifungal activity against Aspergillus niger and Aspergillus fumigatus. The binding interactions of the active compound with lysozyme were explored using multiple spectroscopic studies. Molecular docking study of dihydroquinazolinones with the enzyme revealed the information regarding various binding forces involved in the interaction.
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Affiliation(s)
- K Hemalatha
- Chemistry of Heterocycles & Natural Product Research Laboratory, Department of Chemistry, School of Advanced Sciences, VIT University, Vellore 632 014, Tamil Nadu, India
| | - G Madhumitha
- Chemistry of Heterocycles & Natural Product Research Laboratory, Department of Chemistry, School of Advanced Sciences, VIT University, Vellore 632 014, Tamil Nadu, India.
| | - Lokesh Ravi
- Division of Bio-medical Sciences, School of Biosciences and Technology, VIT University, Vellore 632 014, Tamil Nadu, India
| | - V Gopiesh Khanna
- Division of Bio-medical Sciences, School of Biosciences and Technology, VIT University, Vellore 632 014, Tamil Nadu, India
| | - Naif Abdullah Al-Dhabi
- Department of Botany and Microbiology, Addiriyah Chair for Environmental Studies, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Mariadhas Valan Arasu
- Department of Botany and Microbiology, Addiriyah Chair for Environmental Studies, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
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Mitra P, Pal U, Chandra Maiti N, Ghosh A, Bhunia A, Basu S. Identification of modes of interactions between 9-aminoacridine hydrochloride hydrate and serum proteins by low and high resolution spectroscopy and molecular modeling. RSC Adv 2016. [DOI: 10.1039/c6ra04140j] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
Photophysical studies on binding interactions of 9-aminoacridine hydrochloride hydrate (9AA-HCl) with serum proteins using low and high resolution spectroscopic techniques in conjunction with molecular modeling.
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Affiliation(s)
- Piyali Mitra
- Chemical Sciences Division
- Saha Institute of Nuclear Physics
- Kolkata 700064
- India
| | - Uttam Pal
- Structural Biology & Bioinformatics Division
- CSIR-Indian Institute of Chemical Biology
- Kolkata 700032
- India
| | - Nakul Chandra Maiti
- Structural Biology & Bioinformatics Division
- CSIR-Indian Institute of Chemical Biology
- Kolkata 700032
- India
| | - Anirban Ghosh
- Department of Biophysics
- Bose Institute
- Kolkata 700054
- India
| | - Anirban Bhunia
- Department of Biophysics
- Bose Institute
- Kolkata 700054
- India
| | - Samita Basu
- Chemical Sciences Division
- Saha Institute of Nuclear Physics
- Kolkata 700064
- India
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18
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Zhan M, Guo M, Jiang Y, Wang X. Characterization of the Interaction between Gallic Acid and Lysozyme by Molecular Dynamics Simulation and Optical Spectroscopy. Int J Mol Sci 2015; 16:14786-807. [PMID: 26140374 PMCID: PMC4519872 DOI: 10.3390/ijms160714786] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2015] [Revised: 06/08/2015] [Accepted: 06/17/2015] [Indexed: 01/29/2023] Open
Abstract
The binding interaction between gallic acid (GA) and lysozyme (LYS) was investigated and compared by molecular dynamics (MD) simulation and spectral techniques. The results from spectroscopy indicate that GA binds to LYS to generate a static complex. The binding constants and thermodynamic parameters were calculated. MD simulation revealed that the main driving forces for GA binding to LYS are hydrogen bonding and hydrophobic interactions. The root-mean-square deviation verified that GA and LYS bind to form a stable complex, while the root-mean-square fluctuation results showed that the stability of the GA-LYS complex at 298 K was higher than that at 310 K. The calculated free binding energies from the molecular mechanics/Poisson-Boltzmann surface area method showed that van der Waals forces and electrostatic interactions are the predominant intermolecular forces. The MD simulation was consistent with the spectral experiments. This study provides a reference for future study of the pharmacological mechanism of GA.
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Affiliation(s)
- Minzhong Zhan
- School of Science, Zhejiang Agricultural & Forestry University, Lin'an 311300, China.
| | - Ming Guo
- School of Science, Zhejiang Agricultural & Forestry University, Lin'an 311300, China.
| | - Yanke Jiang
- Research Center of Medical Chemistry & Chemical Biology, Chongqing Technology and Business University, Chongqing 400067, China.
| | - Xiaomeng Wang
- School of Science, Zhejiang Agricultural & Forestry University, Lin'an 311300, China.
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The structural and functional role of the three tryptophan residues in Pin1. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2015; 146:58-67. [DOI: 10.1016/j.jphotobiol.2015.03.006] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/24/2014] [Revised: 02/25/2015] [Accepted: 03/12/2015] [Indexed: 11/23/2022]
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20
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Ratnaparkhi A, Muthu SA, Shiriskar SM, Pissurlenkar RR, Choudhary S, Ahmad B. Effects of hesperidin, a flavanone glycoside interaction on the conformation, stability, and aggregation of lysozyme: multispectroscopic and molecular dynamic simulation studies? J Biomol Struct Dyn 2014; 33:1866-79. [DOI: 10.1080/07391102.2014.975746] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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21
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Koley Seth B, Ray A, Biswas S, Basu S. NiII–Schiff base complex as an enzyme inhibitor of hen egg white lysozyme: a crystallographic and spectroscopic study. Metallomics 2014; 6:1737-47. [DOI: 10.1039/c4mt00098f] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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22
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Peng W, Ding F, Peng YK, Jiang YT, Zhang L. Binding patterns and structure-affinity relationships of food azo dyes with lysozyme: a multitechnique approach. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2013; 61:12415-12428. [PMID: 24319998 DOI: 10.1021/jf4039327] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Food dyes serve to beguile consumers: they are often used to imitate the presence of healthful, colorful food produce such as fruits and vegetables. But considering the hurtful impact of these chemicals on the human body, it is time to thoroughly uncover the toxicity of these food dyes at the molecular level. In the present contribution, we have examined the molecular reactions of protein lysozyme with model food azo compound Color Index (C.I.) Acid Red 2 and its analogues C.I. Acid Orange 52, Solvent Yellow 2, and the core structure of azobenzene using a combination of biophysical methods at physiological conditions. Fluorescence, circular dichroism (CD), time-resolved fluorescence, UV-vis absorption as well as computer-aided molecular modeling were used to analyze food dye affinity, binding mode, energy transfer, and the effects of food dye complexation on lysozyme stability and conformation. Fluorescence emission spectra indicate complex formation at 10(-5) M dye concentration, and this corroborates time-resolved fluorescence results showing the diminution in the tryptophan (Trp) fluorescence mainly via a static type (KSV = 1.505 × 10(4) M(-1)) and Förster energy transfer. Structural analysis displayed the participation of several amino acid residues in food dye protein adducts, with hydrogen bonds, π-π and cation-π interactions, but the conformation of lysozyme was unchanged in the process, as derived from fluorescence emission, far-UV CD, and synchronous fluorescence spectra. The overall affinity of food dye is 10(4) M(-1) and there exists only one kind of binding domain in protein for food dye. These data are consistent with hydrophobic probe 8-anilino-1-naphthalenesulfonic acid (ANS) displacement, and molecular modeling manifesting the food dye binding patch was near to Trp-62 and Trp-63 residues of lysozyme. On the basis of the computational analyses, we determine that the type of substituent on the azobenzene structure has a powerful influence on the toxicity of food dyes. Results from this work testify that model protein, though an indirect method, provides a more comprehensive profile of the essence of toxicity evaluation of food dyes.
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Affiliation(s)
- Wei Peng
- College of Food Science & Engineering, Northwest A&F University , Yangling 712100, China
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