1
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Babayan-Mashhadi F, Rezvani-Noghani A, Mokaberi P, Amiri-Tehranizadeh Z, Saberi MR, Chamani J. Exploring the binding behavior mechanism of vitamin B 12 to α-Casein and β-Casein: multi-spectroscopy and molecular dynamic approaches. J Biomol Struct Dyn 2024; 42:5995-6012. [PMID: 37403294 DOI: 10.1080/07391102.2023.2230295] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Accepted: 06/21/2023] [Indexed: 07/06/2023]
Abstract
The aim of this study was to investigate the behavior interaction of α-Casein-B12 and β-Casein-B12 complexes as binary systems through the methods of multiple spectroscopic, zeta potential, calorimetric, and molecular dynamics (MD) simulation. Fluorescence spectroscopy denoted the role ofB12as a quencher in both cases of α-Casein and β-Casein fluorescence intensities, which also verifies the existence of interactions. The quenching constants of α-Casein-B12 and β-Casein-B12 complexes at 298 K in the first set of binding sites were 2.89 × 104 and 4.41 × 104 M-1, while the constants of second set of binding sites were 8.56 × 104 and 1.58 × 105 M-1, respectively. The data of synchronized fluorescence spectroscopy at Δλ = 60 nm were indicative of the closer location of β-Casein-B12 complex to the Tyr residues. Additionally, the binding distance between B12 and the Trp residues of α-Casein and β-Casein were obtained in accordance to the Förster's theory of nonradioactive energy transfer to be 1.95 nm and 1.85 nm, respectively. Relatively, the RLS results demonstrated the production of larger particles in both systems, while the outcomes of zeta potential confirmed the formation of α-Casein-B12 and β-Casein-B12 complexes and approved the existence of electrostatic interactions. We also evaluated the thermodynamic parameters by considering the fluorescence data at three varying temperatures. According to the nonlinear Stern-Volmer plots of α-Casein and β-Casein in the presence of B12 in binary systems, the two sets of binding sites indicated the detection of two types of interaction behaviors. Time-resolved fluorescence results revealed that the fluorescence quenching of complexes are static mechanism. Furthermore, the outcomes of circular dichroism (CD) represented the occurrence of conformational changes in α-Casein and β-Casein upon their binding to B12 as the binary system. The experimental results that were obtained throughout the binding of α-Casein-B12 and β-Casein-B12 complexes were confirmed by molecular modeling.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
| | | | - Parisa Mokaberi
- Department of Biology, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Zeinab Amiri-Tehranizadeh
- Department of Medicinal Chemistry, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Mohammad Reza Saberi
- Department of Medicinal Chemistry, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Jamshidkhan Chamani
- Department of Biology, Mashhad Branch, Islamic Azad University, Mashhad, Iran
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2
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Mikaelian G, Megariotis G, Theodorou DN. Interactions of a Novel Anthracycline with Oligonucleotide DNA and Cyclodextrins in an Aqueous Environment. J Phys Chem B 2024; 128:6291-6307. [PMID: 38899795 PMCID: PMC11228990 DOI: 10.1021/acs.jpcb.4c02213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2024] [Revised: 06/07/2024] [Accepted: 06/11/2024] [Indexed: 06/21/2024]
Abstract
Berubicin, a chemotherapy medication belonging to the class of anthracyclines, is simulated in double-stranded DNA sequences and cyclodextrins in an aqueous environment via full-atom molecular dynamics simulations on the time scale of microseconds. The drug is studied in both the neutral and protonated states so as to better comprehend the role of its charge in the formed complexes. The noncovalent berubicin-DNA and berubicin-cyclodextrin complexes are investigated in detail, paying special attention to their thermodynamic description by employing the double decoupling method, the solvent balance method, the weighted solvent accessible surface model, and the linear interaction energy method. A novel approach for extracting the desolvation thermodynamics of the binding process is also presented. Both the binding and desolvation Gibbs energies are decomposed into entropic and enthalpic contributions so as to elucidate the nature of complexation and its driving forces. Selected structural and geometrical properties of all the complexes, which are all stable, are analyzed. Both cyclodextrins under consideration are widely utilized for drug delivery purposes, and a comparative investigation between their bound states with berubicin is carried out.
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Affiliation(s)
- Georgios Mikaelian
- School
of Chemical Engineering, National Technical
University of Athens (NTUA), 9 Heroon Polytechniou Street, Zografou Campus, 15780 Athens, GR ,Greece
| | - Grigorios Megariotis
- School
of Chemical Engineering, National Technical
University of Athens (NTUA), 9 Heroon Polytechniou Street, Zografou Campus, 15780 Athens, GR ,Greece
- School
of Engineering, Department of Mineral Resources Engineering, University of Western Macedonia, 50100 Kozani, Greece
| | - Doros N. Theodorou
- School
of Chemical Engineering, National Technical
University of Athens (NTUA), 9 Heroon Polytechniou Street, Zografou Campus, 15780 Athens, GR ,Greece
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3
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Li Y, Li Z, Yun P, Sun D, Niu Y, Yao B, Wang K. Studying the Effects and Competitive Mechanisms of YOYO-1 on the Binding Characteristics of DOX and DNA Molecules Based on Surface-Enhanced Raman Spectroscopy and Molecular Docking Techniques. Int J Mol Sci 2024; 25:3804. [PMID: 38612614 PMCID: PMC11011392 DOI: 10.3390/ijms25073804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2024] [Revised: 03/21/2024] [Accepted: 03/26/2024] [Indexed: 04/14/2024] Open
Abstract
Revealing the interaction mechanisms between anticancer drugs and target DNA molecules at the single-molecule level is a hot research topic in the interdisciplinary fields of biophysical chemistry and pharmaceutical engineering. When fluorescence imaging technology is employed to carry out this kind of research, a knotty problem due to fluorescent dye molecules and drug molecules acting on a DNA molecule simultaneously is encountered. In this paper, based on self-made novel solid active substrates NpAA/(ZnO-ZnCl2)/AuNPs, we use a surface-enhanced Raman spectroscopy method, inverted fluorescence microscope technology, and a molecular docking method to investigate the action of the fluorescent dye YOYO-1 and the drug DOX on calf thymus DNA (ctDNA) molecules and the influencing effects and competitive relationships of YOYO-1 on the binding properties of the ctDNA-DOX complex. The interaction sites and modes of action between the YOYO-1 and the ctDNA-DOX complex are systematically examined, and the DOX with the ctDNA-YOYO-1 are compared, and the impact of YOYO-1 on the stability of the ctDNA-DOX complex and the competitive mechanism between DOX and YOYO-1 acting with DNA molecules are elucidated. This study has helpful experimental guidance and a theoretical foundation to expound the mechanism of interaction between drugs and biomolecules at the single-molecule level.
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Affiliation(s)
- Yanjie Li
- Key Laboratory of Photoelectric Technology of Shaanxi Province, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
| | - Zhiwei Li
- Key Laboratory of Photoelectric Technology of Shaanxi Province, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
| | - Penglun Yun
- Key Laboratory of Photoelectric Technology of Shaanxi Province, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
| | - Dan Sun
- Key Laboratory of Photoelectric Technology of Shaanxi Province, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
| | - Yong Niu
- Key Laboratory of Photoelectric Technology of Shaanxi Province, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
| | - Baoli Yao
- State Key Laboratory of Transient Optics and Photonics, Xi’an Institute of Optics and Precision Mechanics, Chinese Academy of Sciences, Xi’an 710119, China
| | - Kaige Wang
- Key Laboratory of Photoelectric Technology of Shaanxi Province, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
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4
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Yao L, Li Y, Zuo Z, Gong Z, Zhu J, Feng X, Sun D, Wang K. Studying the Interaction between Bendamustine and DNA Molecule with SERS Based on AuNPs/ZnCl 2/NpAA Solid-State Substrate. Int J Mol Sci 2023; 24:13517. [PMID: 37686321 PMCID: PMC10487454 DOI: 10.3390/ijms241713517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Revised: 08/14/2023] [Accepted: 08/25/2023] [Indexed: 09/10/2023] Open
Abstract
Bendamustine (BENDA) is a bifunctional alkylating agent with alkylating and purinergic antitumor activity, which exerts its anticancer effects by direct binding to DNA, but the detailed mechanism of BENDA-DNA interaction is poorly understood. In this paper, the interaction properties of the anticancer drug BENDA with calf thymus DNA (ctDNA) were systematically investigated based on surface-enhanced Raman spectroscopy (SERS) technique mainly using a novel homemade AuNPs/ZnCl2/NpAA (NpAA: nano porous anodic alumina) solid-state substrate and combined with ultraviolet-visible spectroscopy and molecular docking simulation to reveal the mechanism of their interactions. We experimentally compared and studied the SERS spectra of ctDNA, BENDA, and BENDA-ctDNA complexes with different molar concentrations (1:1, 2:1, 3:1), and summarized their important characteristic peak positions, their peak position differences, and hyperchromic/hypochromic effects. The results showed that the binding modes include covalent binding and hydrogen bonding, and the binding site of BENDA to DNA molecules is mainly the N7 atom of G base. The results of this study help to understand and elucidate the mechanism of BENDA at the single-molecule level, and provide guidance for the further development of effective new drugs with low toxicity and side effects.
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Affiliation(s)
| | | | | | | | | | - Xiaoqiang Feng
- State Key Laboratory of Cultivation Base for Photoelectric Technology and Functional Materials, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Key Laboratory of Photoelectronic Technology of Shaanxi Province, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
| | | | - Kaige Wang
- State Key Laboratory of Cultivation Base for Photoelectric Technology and Functional Materials, National Center for International Research of Photoelectric Technology & Nano-Functional Materials and Application, Key Laboratory of Photoelectronic Technology of Shaanxi Province, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710127, China (D.S.)
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5
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Izadyar A, Mansouri-Torshizi H, Dehghanian E, Shahraki S. Spectroscopy, docking and molecular dynamics studies on the interaction between cis and trans palladium-alanine complexes with calf-thymus DNA and antitumor activities. J COORD CHEM 2023. [DOI: 10.1080/00958972.2023.2192331] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/03/2023]
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6
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Behjati Hosseini S, Asadzadeh-Lotfabad M, Erfani M, Babayan-Mashhadi F, Mokaberi P, Amiri-Tehranizadeh Z, Saberi MR, Chamani J. A novel vision into the binding behavior of curcumin with human serum albumin-holo transferrin complex: molecular dynamic simulation and multi-spectroscopic perspectives. J Biomol Struct Dyn 2022; 40:11154-11172. [PMID: 34328379 DOI: 10.1080/07391102.2021.1957713] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
In this work, we investigated the simultaneous binding of curcumin (CUR) to human serum albumin (HSA) and human-holo transferrin (HTF) in the roles of binary and ternary systems. The binding affinity and binding site of protein-protein interaction were studied by the methods of multiple spectroscopic and molecular dynamics (MD) simulation. According to the results, the measurements for binding constant of HSA-CUR, HTF-CUR and (HSA-HTF) CUR complexes were observed to be 1.51 × 105, 7.93 × 104 and 1.44 × 105 M-1 respectively. Thermodynamic parameters were considered to be set at three varying temperatures including 298, 303, and 308 K. In conformity to the negative values of ΔH0 and ΔS0 the significant roles of hydrogen binding and van der-Waals forces in the formation of complexes are quiet evident. The binding distance between Trp residues of HSA, HTF and HSA-HTF upon interaction with CUR, were acquired by applying the Förster's theory of non-radioactive energy transfer and reported to be 2.04 nm, 1.78 nm, and 1.86 nm, respectively. In accordance with the conductometry and Resonance light scattering (RLS) results, there were different interaction behaviors among the HSA-HTF complex and CUR in ternary system when being compared to the outcomes of binary system. The secondary structure of all three cases increased as the CUR concentration was intensified, which confirmed the inducement of proteins conformational changes through the application of circular dichroism (CD) technique. The experimental results that were acquired throughout the binding of HSA-CUR, HTF-CUR, and (HSA-HTF) CUR complexes were approved by molecular modeling.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Soroush Behjati Hosseini
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | | | - Maryam Erfani
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Fatemeh Babayan-Mashhadi
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Parisa Mokaberi
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Zeinab Amiri-Tehranizadeh
- Department of Medical Chemistry, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Mohammad Reza Saberi
- Department of Medical Chemistry, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Jamshidkhan Chamani
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
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7
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A couple of antitumor Pd(II) complexes make DNA-refolding and HSA-unfolding: Experimental and docking studies. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118450] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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8
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Bindu Ramesan A, Vittala SK, Joseph J. DNA condensation and formation of ultrathin nanosheets via DNA assisted self-assembly of an amphiphilic fullerene derivative. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY. B, BIOLOGY 2022; 226:112352. [PMID: 34798504 DOI: 10.1016/j.jphotobiol.2021.112352] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 10/26/2021] [Accepted: 10/29/2021] [Indexed: 12/17/2022]
Abstract
DNA nanotechnology propose various assembly strategies to develop novel functional nanostructures utilizing unique interactions of DNA with small molecules, nanoparticles, polymers, and other biomolecules. Although, well defined nanostructures of DNA and amphiphilic small molecules were achieved through hybridization of covalently modified DNA, attaining precise organization of functional moieties through non-covalent interactions remain as a challenging task. Herein, we report mutually assisted assembly of an amphiphilic fullerene derivative and various DNA structures through non-covalent interactions, which leads to initial DNA condensation and subsequent assembly yielding ordered fullerene-DNA nanosheets. The molecular design of the cationic, amphiphilic fullerene derivative (FPy) ensures molecular solubility in the 10% DMSO-PBS buffer system and facile interactions with DNA through groove binding and electrostatic interactions of fullerene moiety and positively charged pyridinium moiety, respectively. The formation of FPy/DNA nanostructures were thoroughly investigated in the presence of λ-DNA, pBR322 plasmid DNA, and single and double stranded 20-mer oligonucleotides using UV-visible spectroscopy, AFM and TEM analysis. λ-DNA and pBR322 plasmid DNA readily condense in presence of FPy leading to micrometer sized few layer nanosheets with significant crystallinity due to ordered arrangement of fullerenes. Similarly, single and double stranded 20-mer oligonucleotides also interact efficiently with FPy and form highly crystalline nanosheets, signifying the role of electrostatic interaction and subsequent charge neutralization in the condensation triggered assembly. However, there is significant differences in the crystallinity and ordered arrangements of fullerenes between these two cases, where longer DNA form condensed structures and less ordered nanosheets while short oligonucleotides lead to more ordered and highly crystalline nanosheets, which could be attributed to the differential DNA condensation. Finally, we have demonstrated the addressability of the assembly using a cyanine modified single strand DNA, which also forms highly crystalline nanosheets and exhibit efficient quenching of the cyanine fluorescence upon self-assembly. These results open up new prospects in the development of functional DNA nanostructures through non-covalent interactions and hence have potential applications in the context of DNA nanotechnology.
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Affiliation(s)
- Anjali Bindu Ramesan
- Photosciences and Photonics Section, CSIR-National Institute for Interdisciplinary Science and Technology, Thiruvananthapuram 695 019, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Sandeepa Kulala Vittala
- Photosciences and Photonics Section, CSIR-National Institute for Interdisciplinary Science and Technology, Thiruvananthapuram 695 019, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Joshy Joseph
- Photosciences and Photonics Section, CSIR-National Institute for Interdisciplinary Science and Technology, Thiruvananthapuram 695 019, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India.
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9
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Butnarasu C, Barbero N, Viscardi G, Visentin S. Unveiling the interaction between PDT active squaraines with ctDNA: A spectroscopic study. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 250:119224. [PMID: 33257241 DOI: 10.1016/j.saa.2020.119224] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2020] [Revised: 11/05/2020] [Accepted: 11/10/2020] [Indexed: 06/12/2023]
Abstract
Squaraine dyes are potential photosensitizers in photodynamic therapy (PDT) due to their ability to release reactive oxygen species (ROS) and cause DNA damage. For this reason, the evaluation and determination of the type of interaction between squaraines and DNA is of the utmost importance. In this study different spectroscopic techniques such as UV-Vis and fluorescence spectroscopies were used to investigate the type of interaction that occurs between two photosensitizers (halogenated squaraines, i.e. Br-C4 and I-C4) and calf thymus DNA (ctDNA). Squaraines were found to bind ctDNA externally following a minor groove binding as they were able to replace Hoechst (a classic groove binder) from the groove of DNA. This binding mode was further supported by iodide quenching studies, ionic strength assay and Florescence Resonance Energy Transfer. Moreover, association (KA) and dissociation (KD) constants were obtained and compared with constants of well-known groove binders.
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Affiliation(s)
- Cosmin Butnarasu
- University of Torino, Department of Molecular Biotechnology and Health Science, Via Quarello15, 10135 Torino, Italy
| | - Nadia Barbero
- University of Torino, Department of Chemistry and NIS Interdepartmental Centre, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Guido Viscardi
- University of Torino, Department of Chemistry and NIS Interdepartmental Centre, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Sonja Visentin
- University of Torino, Department of Molecular Biotechnology and Health Science, Via Quarello15, 10135 Torino, Italy.
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10
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Ionophoric polyphenols are permeable to the blood–brain barrier, interact with human serum albumin and Calf Thymus DNA, and inhibit AChE enzymatic activity. Med Chem Res 2020. [DOI: 10.1007/s00044-020-02615-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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11
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DNA/BSA binding of a new oxovanadium (IV) complex of glycylglycine derivative Schiff base ligand. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128664] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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12
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El Hag R, Abdusalam MM, Acilan C, Kayı H, Özalp-Yaman Ş. Radicalic cleavage pathway and DNA docking studies of novel chemotherapic platinum agent of 5,6-di-2-ithienyl-2,3-dihydropyrazine. Polyhedron 2019. [DOI: 10.1016/j.poly.2019.04.054] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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13
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Exploration of synthetic antioxidant flavonoid analogs as acetylcholinesterase inhibitors: an approach towards finding their quantitative structure–activity relationship. Med Chem Res 2019. [DOI: 10.1007/s00044-019-02330-8] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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14
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Mansouri-Torshizi H, Zareian-Jahromi S, Abdi K, Saeidifar M. Nonionic but water soluble, [Glycine-Pd-Alanine] and [Glycine-Pd-Valine] complexes. Their synthesis, characterization, antitumor activities and rich DNA/HSA interaction studies. J Biomol Struct Dyn 2018; 37:3566-3582. [PMID: 30284510 DOI: 10.1080/07391102.2018.1520647] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Abstract
Two novel, neutral and water soluble Pd(II) complexes of formula [Pd(Gly)(Ala)] (1) and [Pd(Gly)(Val)] (2) (Gly, Ala, and Val are anionic forms of glycine, alanine, and valine amino acids, respectively) have been synthesized and characterized by FT-IR, UV-Vis, 1H-NMR, elemental analysis, and molar conductivity measurement. The data revealed that each amino acid binds to Pd(II) through the nitrogen of -NH2 and the oxygen of -COO- groups and acts as a bidentate chelate. These complexes have been assayed against leukemia cells (K562) using MTT method. The results indicated that both of the complexes display more cytotoxicity than the well-known anticancer drug, cisplatin. The interaction of the compounds with calf thymus DNA (CT-DNA) and human serum albumin (HSA) were assayed by a series of experimental techniques including electronic absorption, fluorescence, viscometry, gel electrophoresis, and FT-IR. The results indicated that the two complexes have interesting binding propensities toward CT-DNA as well as HSA and the binding affinity of (1) is more than (2). The fluorescence data indicated that both complexes strongly quench the fluorescence of ethidium bromide-DNA system as well as the intrinsic fluorescence of HSA via static quenching procedures. The thermodynamic parameters (ΔH°, ΔS°, and ΔG°) calculated from the fluorescence studies showed that hydrogen bonds and van der Waals interactions play a major role in the binding of the complexes to DNA and HSA. We suggest that both of the Pd(II) complexes exhibit the groove binding mode with CT-DNA and interact with the main binding pocket of HSA. Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Hassan Mansouri-Torshizi
- a Department of Chemistry, Faculty of Science , University of Sistan and Baluchestan , Zahedan , Iran
| | - Sareh Zareian-Jahromi
- a Department of Chemistry, Faculty of Science , University of Sistan and Baluchestan , Zahedan , Iran
| | - Khatereh Abdi
- a Department of Chemistry, Faculty of Science , University of Sistan and Baluchestan , Zahedan , Iran
| | - Maryam Saeidifar
- b Department of Nanotechnology and Advanced Materials , Materials and Energy Research Center , Karaj , Iran
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15
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Mallick T, Karmakar A, Batuta S, Ahamed G, Das S, Alam MN, Mukherjee M, Das N, Mandal D, Begum NA. Fluorescent Small Molecules Are BIG Enough To Sense Biomacromolecule: Synthesis of Aromatic Thioesters and Understanding Their Interactions with ctDNA. ACS OMEGA 2018; 3:334-348. [PMID: 30023778 PMCID: PMC6044905 DOI: 10.1021/acsomega.7b01933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2017] [Accepted: 12/25/2017] [Indexed: 06/08/2023]
Abstract
The visible fluorescent chromophoric moiety present in the water-soluble photoactive yellow protein (PYP) of Ectothiorhodospira halophila is p-hydroxycinnamic acid linked to the cysteine residue (Cys-69) by a thioester bond and it controls the key photoinduced biological processes of the host organism. In the present work, we have synthesized and characterized three structurally different thiophenyl esters [viz., p-hydroxycinnamic-thiophenyl ester (1), p-N,N-dimethylaminocinnamic-thiophenyl ester (2), and S-phenyl-3-(4-chlorophenyl)-3-(phenylthio)propanethioate (3)] in addition to a novel (to the best of our knowledge) stilbene-type olefinic compound, N1,N1,N2,N2-tetramethyl-1,2-bis(phenylthio)ethene-1,2-diamine (4), under the same reaction condition. All of these four compounds showed characteristic and distinguishable chromophoric/fluorophoric behavior in ethanol and also at pH 7.4. However, we have observed that the intrinsic chromophoric/fluorophoric activities of (1) and (2) were greatly influenced during their interactions with calf-thymus DNA, studied by a range of spectroscopic and physicochemical measurements. We have also applied density functional theory [B3LYP, 6-311G+(d,p)]-based method to get optimized structures of (1) and (2), which were explored further for molecular docking studies to understand their mode of interaction with DNA. The present study opens up their possible applications as fluorescence probes for biomacromolecules like DNA in future.
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Affiliation(s)
- Tamanna Mallick
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
| | - Abhijit Karmakar
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
| | - Shaikh Batuta
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
| | - Giasuddin Ahamed
- Department
of Chemistry, University College of Science and Technology, University of Calcutta, 92, Acharya Prafulla Chandra Road, Kolkata 700009, India
| | - Sreeparna Das
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
| | - Md. Niharul Alam
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
| | - Madhumathan Mukherjee
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
| | - Nilanjana Das
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
| | - Debabrata Mandal
- Department
of Chemistry, University College of Science and Technology, University of Calcutta, 92, Acharya Prafulla Chandra Road, Kolkata 700009, India
| | - Naznin Ara Begum
- Department
of Chemistry and Department of Biotechnology, Visva-Bharati
(Central University), Santiniketan 731235, India
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16
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Tian Z, Wang Z, Han X, Wang N, Wang R. Study on the interaction between cannabinol and DNA using acridine orange as a fluorescence probe. J Mol Recognit 2017; 31. [DOI: 10.1002/jmr.2682] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Revised: 09/01/2017] [Accepted: 09/28/2017] [Indexed: 02/04/2023]
Affiliation(s)
- Zhengshan Tian
- School of Chemistry and Environmental Engineering; Pingdingshan University; Pingdingshan China
| | - Zechun Wang
- College of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou China
| | - Xinxin Han
- College of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou China
| | - Ning Wang
- College of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou China
| | - Ruiyong Wang
- College of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou China
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17
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Shahabadi N, Mahdavi M, Taherpour A(A, Ghasemhezaveh F. Synthesis, characterization and in vitro DNA binding studies of a new copper(II) complex containing antioxidant ferulic acid. J COORD CHEM 2017. [DOI: 10.1080/00958972.2017.1363890] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Nahid Shahabadi
- Faculty of Chemistry, Department of Inorganic Chemistry, Razi University, Kermanshah, Iran
- Medical Biology Research Center (MBRC) Kermanshah University of Medical Sciences, Kermanshah, Iran
| | - Maryam Mahdavi
- Faculty of Chemistry, Department of Inorganic Chemistry, Razi University, Kermanshah, Iran
- Medical Biology Research Center (MBRC) Kermanshah University of Medical Sciences, Kermanshah, Iran
| | - Avat (Arman) Taherpour
- Medical Biology Research Center (MBRC) Kermanshah University of Medical Sciences, Kermanshah, Iran
- Faculty of Chemistry, Department of Organic Chemistry, Razi University, Kermanshah, Iran
| | - Fatemeh Ghasemhezaveh
- Faculty of Chemistry, Department of Organic Chemistry, Razi University, Kermanshah, Iran
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18
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de Oliveira JF, Lima TS, Vendramini-Costa DB, de Lacerda Pedrosa SCB, Lafayette EA, da Silva RMF, de Almeida SMV, de Moura RO, Ruiz ALTG, de Carvalho JE, de Lima MDCA. Thiosemicarbazones and 4-thiazolidinones indole-based derivatives: Synthesis, evaluation of antiproliferative activity, cell death mechanisms and topoisomerase inhibition assay. Eur J Med Chem 2017; 136:305-314. [DOI: 10.1016/j.ejmech.2017.05.023] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2017] [Revised: 05/04/2017] [Accepted: 05/06/2017] [Indexed: 12/13/2022]
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19
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Zhang S, Yuan H, Tian L. Synthesis and spectroscopic DNA binding investigations of dibutyltin N-(5-chlorosalicylidene)-leucinate. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2016.11.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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20
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He D, Wang L, Wang L, Li X, Xu Y. Spectroscopic studies on the interactions between novel bisnaphthalimide derivatives and calf thymus DNA. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2017; 166:333-340. [DOI: 10.1016/j.jphotobiol.2016.12.003] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2016] [Revised: 11/10/2016] [Accepted: 12/05/2016] [Indexed: 12/21/2022]
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21
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Assaran Darban R, Shareghi B, Asoodeh A, Chamani J. Multi-spectroscopic and molecular modeling studies of interaction between two different angiotensin I converting enzyme inhibitory peptides from gluten hydrolysate and human serum albumin. J Biomol Struct Dyn 2016; 35:3648-3662. [PMID: 27897084 DOI: 10.1080/07391102.2016.1264892] [Citation(s) in RCA: 66] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
The present study was carried out to characterize Angiotensin-converting enzyme (ACE) inhibitory peptides which are released from the trypsin hydrolysate of wheat gluten protein. The binding of two inhibitory peptide (P4 and P6) to human serum albumin (HSA) under physiological conditions has been investigated by multi-spectroscopic in combination with molecular modeling techniques. Time-resolved and quenching fluorescence spectroscopies results revealed that the quenching of HSA fluorescence by P4 and P6 in the binary and ternary systems caused HSA-peptides complexes formation. The results indicated that both peptides quenched the fluorescence intensity of HSA through a static mechanism. The binding affinities and number of binding sites were obtained for the HSA-peptides complexes. The circular dichroism (CD) data revealed that the presence of both peptides increased the α-helix content of HSA and induced the remarkable folding of the polypeptide of the protein. Therefore, the CD data determined that the protein structure has been stabilized in the percent of ACE inhibitory peptides in binary and ternary systems. The binding distances between HSA and both peptides were estimated by the Forster theory, and it was revealed that nonradiative energy transfer from HSA to peptides occurred with a high probability. ITC experiments reveal that, in the absence and presence of P6, the dominant forces are electrostatic in binary and ternary systems. Furthermore, molecular modeling studies confirmed the experimental results. Molecular modeling investigation suggested that P4 bound to the site IA and IIA of HSA in binary and ternary systems, respectively. This study on the interaction of peptides with HSA should prove helpful for realizing the distribution and transportation of food compliments and drugs in vivo, elucidating the action mechanism and dynamics of food compliments and drugs at the molecular level. It should moreover be of great use for understanding the pharmacokinetic and pharmacodynamic mechanism of the food compliments and drugs.
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Affiliation(s)
- Reza Assaran Darban
- a Department of Biology, Faculty of Science , University of Shahrekord , P.O. Box 115 , Shahrekord , Iran
| | - Behzad Shareghi
- a Department of Biology, Faculty of Science , University of Shahrekord , P.O. Box 115 , Shahrekord , Iran
| | - Ahmad Asoodeh
- b Department of Chemistry, Faculty of Sciences , Ferdowsi University of Mashhad , Mashhad , Iran
| | - Jamshidkhan Chamani
- c Department of Biochemistry and Biophysics, Faculty of Sciences , Mashhad Branch, Islamic Azad University , Mashhad , Iran
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22
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Hemachandran H, Anantharaman A, Priya RR, Doss GP, Siva R. Interaction of Catechu Dye with DNA: Spectroscopic and In Silico Approach. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2016; 35:195-210. [PMID: 26913965 DOI: 10.1080/15257770.2015.1124997] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Catechin, a yellow colored molecule obtained from the wood of Acacia catechu was analyzed for its interaction with synthetic DNA duplexes using spectroscopic analysis. UV-Visible spectroscopic analysis revealed the non-intercalative binding mode. Fourier Transform Infrared spectroscopy (FTIR) analysis expose chemical shift indicated by various vibrational stretches and an increase in the intensity of base stacking was observed by Circular Dichroism (CD), respectively. This inference was further confirmed through nuclear staining technique and also in electrophoretic technique; the dye quenches the fluorescent intensity of ethidium bromide. The result of fluorescence spectroscopy was in concordance with the electrophoretic technique. In addition, the spectroscopic results were in accordance with the molecular docking studies of specific catechin compound from the catechu dye with CT-DNA. This kind of site specificity is a gain in the medicinal field as the drug can be DNA targeted for cancer therapeutics. The present work reveals that catechu dye has a noteworthy application in the field of medical bioscience.
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Affiliation(s)
- Hridya Hemachandran
- a School of Bio Sciences and Technology, VIT University , Vellore , 632014 , Tamil Nadu , India
| | - Amrita Anantharaman
- a School of Bio Sciences and Technology, VIT University , Vellore , 632014 , Tamil Nadu , India
| | - Rajendra Rao Priya
- a School of Bio Sciences and Technology, VIT University , Vellore , 632014 , Tamil Nadu , India
| | - George Priya Doss
- a School of Bio Sciences and Technology, VIT University , Vellore , 632014 , Tamil Nadu , India
| | - Ramamoorthy Siva
- a School of Bio Sciences and Technology, VIT University , Vellore , 632014 , Tamil Nadu , India
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23
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A computational approach to the resonance Raman spectrum of doxorubicin in aqueous solution. Theor Chem Acc 2016. [DOI: 10.1007/s00214-015-1781-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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24
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Zhou X, Zhang C, Zhang G, Liao Y. Intercalation of the daphnetin–Cu(ii) complex with calf thymus DNA. RSC Adv 2016. [DOI: 10.1039/c5ra22274e] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
The daphnetin–Cu(ii) complex binds to the A–T bases region of ctDNA and causes cleavage of plasmid DNA.
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Affiliation(s)
- Xiaoyue Zhou
- State Key Laboratory of Food Science and Technology
- Nanchang University
- Nanchang 330047
- China
| | - Cen Zhang
- State Key Laboratory of Food Science and Technology
- Nanchang University
- Nanchang 330047
- China
| | - Guowen Zhang
- State Key Laboratory of Food Science and Technology
- Nanchang University
- Nanchang 330047
- China
| | - Yijing Liao
- State Key Laboratory of Food Science and Technology
- Nanchang University
- Nanchang 330047
- China
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25
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Probing the binding of trypsin to glutathione-stabilized gold nanoparticles in aqueous solution. Colloids Surf B Biointerfaces 2015; 135:261-266. [DOI: 10.1016/j.colsurfb.2015.07.063] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2015] [Revised: 07/21/2015] [Accepted: 07/22/2015] [Indexed: 11/22/2022]
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26
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Wu D, Chen Z. Study on the interaction between ginsenoside Rh2 and calf thymus DNA by spectroscopic techniques. LUMINESCENCE 2015; 30:1212-8. [DOI: 10.1002/bio.2883] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Revised: 01/18/2015] [Accepted: 01/19/2015] [Indexed: 12/11/2022]
Affiliation(s)
- Dudu Wu
- School of Pharmacy, Guangdong Medical College; Dongguan 523808 People's Republic of China
| | - Zhi Chen
- School of Pharmacy, Guangdong Medical College; Dongguan 523808 People's Republic of China
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27
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The role of encapsulation by β-cyclodextrin in the interaction of raloxifene with macromolecular targets: a study by spectroscopy and molecular modeling. J Biol Phys 2014; 40:347-67. [PMID: 25073419 DOI: 10.1007/s10867-014-9355-y] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2013] [Accepted: 05/21/2014] [Indexed: 10/25/2022] Open
Abstract
We report the binding of the drug raloxifene with Calf thymus DNA (ctDNA) and bovine serum albumin (BSA) in the presence and absence of β-cyclodextrin (β-CD) and explain the influence of β-cyclodextrin on the binding of the drug to macromolecules. UV-Vis absorption, fluorescence, proton nuclear magnetic resonance and two-dimensional rotating-frame nuclear overhauser effect spectroscopic techniques are used to study the stoichiometry and the binding strength of the complexes. Molecular modeling is used in combination with other techniques to propose the structure of the inclusion complex and the interaction with ctDNA. The Stern-Volmer quenching constants of the interaction of raloxifene with ctDNA in aqueous and in β-CD solution are compared. The competition for binding of ctDNA with raloxifene and Methylene Blue is studied. The apparent binding constant and the number of binding sites for the binding of raloxifene with BSA in aqueous solution are significantly different from those in the presence of β-CD. The influence of β-CD on the binding of the small molecules with biological macromolecules is discussed. We infer that the binding strengths between raloxifene and macromolecules, viz., ctDNA and BSA are influenced by the β-CD encapsulation. These results may suggest new ways to tune the drug binding to biomacromolecules by encapsulating specific moieties of drugs.
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28
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Copper(II/I) complexes of 5-pyridin-2-yl-[1,3]dioxolo[4,5-g]isoquinoline: Synthesis, crystal structure, antitumor activity and DNA interaction. Eur J Med Chem 2013; 70:640-8. [DOI: 10.1016/j.ejmech.2013.10.031] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2013] [Revised: 10/11/2013] [Accepted: 10/12/2013] [Indexed: 11/22/2022]
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29
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Zhang S, Sun X, Qu F, Kong R. Molecular spectroscopic studies on the interaction of ferulic acid with calf thymus DNA. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2013; 112:78-83. [PMID: 23659953 DOI: 10.1016/j.saa.2013.04.006] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2013] [Revised: 03/30/2013] [Accepted: 04/01/2013] [Indexed: 06/02/2023]
Abstract
The interaction between ferulic acid and calf thymus deoxyribonucleic acid (ctDNA) under physiological conditions (Tris-HCl buffer solutions, pH 7.4) was investigated by UV-Vis spectroscopy, fluorescence spectroscopy, DNA melting techniques, and viscosity measurements. Results indicated that a complex of ferulic acid with ctDNA was formed with a binding constant of K(290K)=7.60×10(4) L mol(-1) and K(310K)=4.90×10(4) L mol(-1). The thermodynamic parameters enthalpy change (ΔH°), entropy change (ΔS°) and Gibbs free energy (ΔG°) were calculated to be -1.69×10(4) J mol(-1), 35.36 J K(-1) mol(-1) and -2.79×10(4) J mol(-1) at 310 K, respectively. The acting forces between ferulic acid and DNA mainly included hydrophobic interaction and hydrogen bonds. Acridine orange displacement studies revealed that ferulic acid can substitute for AO probe in the AO-DNA complex which was indicative of intercalation binding. Thermal denaturation study suggested that the interaction of ferulic acid with DNA could result in the increase of the denaturation temperature, which indicated that the stabilization of the DNA helix was increased in the presence of ferulic acid. Spectroscopic techniques together with melting techniques and viscosity determination provided evidences of intercalation mode of binding for the interaction between ferulic acid and ctDNA.
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Affiliation(s)
- Shufang Zhang
- College of Chemistry and Chemical Engineering, Qufu Normal University, Shandong, Qufu 273165, People's Republic of China.
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30
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Wang J, Dong B, Chen B, Xu S, Zhang S, Yu W, Xu C, Song H. Glutathione modified gold nanorods with excellent biocompatibility and weak protein adsorption, targeting imaging and therapy toward tumor cells. Dalton Trans 2013; 42:11548-58. [DOI: 10.1039/c3dt51246k] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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31
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Zhang S, Ling B, Qu F, Sun X. Investigation on the interaction between luteolin and calf thymus DNA by spectroscopic techniques. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2012; 97:521-525. [PMID: 22842132 DOI: 10.1016/j.saa.2012.06.040] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2012] [Revised: 06/19/2012] [Accepted: 06/25/2012] [Indexed: 06/01/2023]
Abstract
The interaction of luteolin with calf thymus deoxyribonucleic acid (ctDNA) under physiological conditions (Tris-HCl buffer solutions, pH 7.4) was studied by UV-Vis spectroscopy, fluorescence spectroscopy and viscosity measurement method, respectively. The results indicated that a complex of luteolin with ctDNA can be formed. Spectroscopic techniques together with viscosity determination provided evidences of intercalation mode of binding for the interaction between luteolin and ctDNA. The binding constant of luteolin to DNA calculated based on UV-Vis spectroscopy data was found to be 4.52×10(4)L mol(-1) at 310 K. The thermodynamic parameters of the complex were calculated by a double reciprocal method: Δ(r)H(m)(s)=-8.9×10(3)J mol(-1),Δ(r)S(m)(s)=60.5 JK(-1)mol(-1) and Δ(r)G(m)(s)=-2.76×10(4)J mol(-1) (310 K). The interacting forces between luteolin and DNA mainly included hydrophobic interactions and hydrogen bonds. The acridine orange displacement studies revealed that luteolin had significant effect for acridine orange bounded on DNA, which was indicative of intercalation binding.
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Affiliation(s)
- Shufang Zhang
- College of Chemistry and Chemical Engineering, Qufu Normal University, Shandong, Qufu 273165, PR China.
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32
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Ma Y, Zhang G, Pan J. Spectroscopic studies of DNA interactions with food colorant indigo carmine with the use of ethidium bromide as a fluorescence probe. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2012; 60:10867-10875. [PMID: 23057637 DOI: 10.1021/jf303698k] [Citation(s) in RCA: 96] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The interaction of indigo carmine (IC) with calf thymus DNA in physiological buffer (pH 7.4), using ethidium bromide (EB) dye as a fluorescence probe, was investigated by ultraviolet-visible absorption, fluorescence, and circular dichroism (CD) spectroscopy, coupled with viscosity measurements and DNA-melting studies. Hypochromicity of the absorption spectra of IC and enhancement in fluorescence polarization of IC were observed with the addition of DNA. Moreover, the binding of IC to DNA was able to decrease iodide and single-stranded DNA (ssDNA) quenching effects, increase the melting temperature and relative viscosity of DNA, and induce the changes in CD spectra of DNA. All of the evidence indicated that IC interacted with DNA in the mode of intercalative binding. Furthermore, the three-way synchronous fluorescence spectra data obtained from the interaction between IC and DNA-EB were resolved by parallel factor analysis (PARAFAC), and the results provided simultaneously the concentration information and the pure spectra for the three reaction components (IC, EB, and DNA-EB) of the system at equilibrium. This PARAFAC demonstrated that the intercalation of IC molecules into DNA proceeded by substituting for EB in the DNA-EB complex. The calculated thermodynamic parameters, ΔH° and ΔS°, suggested that both hydrophobic interactions and hydrogen bonds played a predominant role in the binding of IC to DNA.
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Affiliation(s)
- Yadi Ma
- State Key Laboratory of Food Science and Technology, Nanchang University, Number 235, Nanjing East Road, Nanchang 330047, Jiangxi, People's Republic of China
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33
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Kizek R, Adam V, Hrabeta J, Eckschlager T, Smutny S, Burda JV, Frei E, Stiborova M. Anthracyclines and ellipticines as DNA-damaging anticancer drugs: Recent advances. Pharmacol Ther 2012; 133:26-39. [DOI: 10.1016/j.pharmthera.2011.07.006] [Citation(s) in RCA: 101] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2011] [Accepted: 07/22/2011] [Indexed: 12/21/2022]
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34
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Sanei H, Asoodeh A, Hamedakbari-Tusi S, Chamani J. Multi-spectroscopic Investigations of Aspirin and Colchicine Interactions with Human Hemoglobin: Binary and Ternary Systems. J SOLUTION CHEM 2011. [DOI: 10.1007/s10953-011-9766-3] [Citation(s) in RCA: 59] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
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35
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Zhang S, Sun X, Jing Z, Qu F. Spectroscopic analysis on the resveratrol-DNA binding interactions at physiological pH. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2011; 82:213-216. [PMID: 21856217 DOI: 10.1016/j.saa.2011.07.037] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2010] [Revised: 02/28/2011] [Accepted: 07/13/2011] [Indexed: 05/31/2023]
Abstract
The interaction of resveratrol with calf thymus deoxyribonucleic acid (ctDNA) under physiological conditions (Tris-HCl buffer solutions, pH 7.4) was studied by spectroscopy, fluorescence spectroscopy and viscosity measurement method, respectively. Results indicated that a complex of resveratrol with ctDNA was formed with a binding constant of K(17°C) = 5.49×10(3) L mol(-1) and K(37°C) = 1.90×10(4) L mol(-1). The fluorescence quenching mechanism of acridine orange (AO)-ctDNA by resveratrol was shown to be a static quenching type. The thermodynamic parameters of the complex were calculated by a double reciprocal method: Δ(r)H(m)(s) = 4.64×10(4) J mol(-1), Δ(r)S(m)(s) = 231.8 J K(-1) mol(-1) and Δ(r)G(m)(s) = -2.54×10(4) J mol(-1) (37°C). Spectroscopic techniques together with viscosity determination provided evidences of intercalation mode of binding for the interaction between resveratrol and ctDNA.
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Affiliation(s)
- Shufang Zhang
- College of Chemistry and Chemical Engineering, Qufu Normal University, Shandong, Qufu 273165, People's Republic of China.
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36
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Cui F, Huo R, Hui G, Lv X, Jin J, Zhang G, Xing W. Study on the interaction between aglycon of daunorubicin and calf thymus DNA by spectroscopy. J Mol Struct 2011. [DOI: 10.1016/j.molstruc.2011.06.024] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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37
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Wang G, Wang D, Li X, Lu Y. Exploring the binding mechanism of dihydropyrimidinones to human serum albumin: Spectroscopic and molecular modeling techniques. Colloids Surf B Biointerfaces 2011; 84:272-9. [DOI: 10.1016/j.colsurfb.2011.01.016] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2010] [Accepted: 01/13/2011] [Indexed: 10/18/2022]
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