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Asim S, Mansha A, Aslam S, Shahzad A. Study of Interactions Between 3-benzoyl-4-hydroxy-2-methyl-2H-1, 2-benzothiazine and Human DNA by Theoretical, Spectroscopic and Viscometric measurements. J Fluoresc 2023; 33:311-326. [PMID: 36414920 DOI: 10.1007/s10895-022-03045-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Accepted: 10/15/2022] [Indexed: 11/24/2022]
Abstract
From the last few years mode of interactions between drugs and DNA is an attractive research area as it bridges chemistry, molecular biology and medicinal science. Interactions between small heterocyclic molecules and human DNA is a noteworthy feature in pharmacology for investigation of drugs mechanism and designing of more effective and target specific drugs with fewer side effects. The present research work focuses on the theoretical investigations of 3-benzoyl-4-hydroxy-2-methyl-2H-1, 2-benzothiazine (SASA) by using Gaussian (16 W) software to predict optimized geometry, HOMO-LUMO gap, bond length, bond angle, dihedral angle, electronic and vibrational spectra. Possible reaction site observed in SASA was C7, C9 and C18 as these atoms show maximum charge density. Later the interactions of SASA with human DNA was explored spectroscopic investigations and viscometric investigations at physiological buffers of pH of 4.7 (stomach pH) and 7.4 (blood pH) respectively. Maximum absorbance between SASA-DNA complex was observed in buffer solution of pH 3.4 at wavelength of 370 nm, whereas at 7.4 has maximim absorbance between. Spectroscopic results reflects the bathochromic and hyperchromic shift succeeding the addition of human DNA. During viscosity measurement, intercalation and electrostatic mode of interaction were detected at low and high concentration of drug in solution respectively. Increase in the value of rate constant was observed with the increase in concentration of drug. Larger values of rate constant were observed at pH 7.4 in comparison to pH 3.5. Rate constant, thermodynamic parameters and viscometric analysis prefers the intake of SASA via blood.
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Affiliation(s)
- Sadia Asim
- Department of Chemistry, Government College Women University, Faisalabad, Pakistan.
| | - Asim Mansha
- Department of Chemistry, Government College University, Faisalabad, Pakistan
| | - Sana Aslam
- Department of Chemistry, Government College Women University, Faisalabad, Pakistan
| | - Alina Shahzad
- Department of Chemistry, Government College Women University, Faisalabad, Pakistan
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2
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Pansare AV, Pansare SV, Pansare PV, More BP, Nagarkar AA, Barbezat M, Donde KJ, Patil VR, Terrasi GP. Economical gold recovery cycle from bio-sensing AuNPs: an application for nanowaste and COVID-19 testing kits. Dalton Trans 2022; 51:14686-14699. [PMID: 36098266 DOI: 10.1039/d2dt01405j] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
We report the controlled growth of biologically active compounds: gold nanoparticles (AuNPs) in various shapes, including their green synthesis, characterization, and studies of their applications towards biological, degradation and recycling. Using spectroscopic methods, studies on responsive binding mechanisms of AuNPs with biopolymers herring sperm deoxyribonucleic acid (hsDNA), bovine serum albumin (BSA), dyes degradation study, and exquisitely gold separation studies/recovery from nanowaste, COVID-19 testing kits, and pregnancy testing kits are discussed. The sensing ability of the AuNPs with biopolymers was investigated via various analytical techniques. The rate of degradation of various dyes in the presence and absence of AuNPs was studied by deploying stirring, IR, solar, and UV-Vis methods. AuNPs were found to be the most active cytotoxic agent against human breast cancer cell lines such as MCF-7 and MDAMB-468. Furthermore, an economical process for the recovery of gold traces from nanowaste, COVID-19 detection kits, and pregnancy testing kits was developed using inexpensive and eco-friendly α-cyclodextrin sugar. This method was found to be easy and safest in comparison with the universally accepted cyanidation process. In the future, small gold jewelry makers and related industries would benefit from the proposed gold-recycling process and it might contribute to their socio-economic growth. The methodologies proposed are also beneficial for trace-level forensic investigation.
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Affiliation(s)
- Amol V Pansare
- Composite group, Mechanical Systems Engineering, Swiss Federal Laboratories for Materials Science and Technology-Empa, 8600 Dübendorf, Switzerland.
| | - Shubham V Pansare
- Department of Chemistry, University of Mumbai, Santacruz (E), Mumbai 400098, India.
| | - Priyanka V Pansare
- Ramnarain Ruia Autonomous College, University of Mumbai, Matunga (E), India.
| | - Bhausaheb P More
- Directorate of Forensic Science Laboratories Mumbai, Home Department, Government of Maharashtra-98, India
| | - Amit A Nagarkar
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, MA, 02138 USA
| | - Michel Barbezat
- Composite group, Mechanical Systems Engineering, Swiss Federal Laboratories for Materials Science and Technology-Empa, 8600 Dübendorf, Switzerland.
| | - Kamini J Donde
- Ramnarain Ruia Autonomous College, University of Mumbai, Matunga (E), India.
| | - Vishwanath R Patil
- Department of Chemistry, University of Mumbai, Santacruz (E), Mumbai 400098, India.
| | - Giovanni P Terrasi
- Composite group, Mechanical Systems Engineering, Swiss Federal Laboratories for Materials Science and Technology-Empa, 8600 Dübendorf, Switzerland.
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Zhang Q, Liu L, Zhu Z, Ni Y. Functionalization of Fe 3O 4/rGO magnetic nanoparticles with resveratrol and in vitro DNA interaction. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 273:121032. [PMID: 35231761 DOI: 10.1016/j.saa.2022.121032] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2021] [Revised: 01/13/2022] [Accepted: 02/10/2022] [Indexed: 06/14/2023]
Abstract
Based on the previous research, we found that the magnetic nanocomposite Fe3O4/rGO (reduced graphene oxide) has a good drug loading effect. Therefore, in this paper, we studied the positive role of Fe3O4/rGO as a drug carrier in the interaction between resveratrol (RES) and calf-thymus DNA (ct-DNA). The fluorescence experiment is used to evaluate by the Stern-Volmer equation, the quenching constant of RES - ct-DNA system with and without Fe3O4/rGO decreases with the increasing temperature. It was found the quenching mode of RES - ct-DNA and Fe3O4/rGO - RES - ct-DNA systems were all static quenching, but the binding constant of RES -ct-DNA increased from 4.14 ± 0.21 × 104 L mol-1 to 10.12 ± 0.02 × 104 L mol-1. It was found that Fe3O4/rGO formed a ternary complex with RES and ct-DNA by ultraviolet spectrum (UV-vis), resonance light scattering experiments (RLS) and scanning electron microscope (SEM). Meanwhile, Fourier transform infrared (FT-IR) and circular dichroism (CD) experiments show that Fe3O4/rGO and Fe3O4/rGO loaded with RES have effect on the secondary structure of ct-DNA and change the conformation of ct-DNA. On the cellular level, the comet assay shows that Fe3O4/rGO and Fe3O4/rGO - RES could not cause DNA strand break to the mouse hepatocytes after 24 co-incubation. These results confirm that Fe3O4/rGO nanocomposites have good application potential, which can be used as a good drug carrier in a wide range of therapeutic methods.
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Affiliation(s)
- Qiulan Zhang
- School of Chemistry, Nanchang University, Nanchang 330031, China; Jiangxi Province Key Laboratory of Modern Analytical Science, Nanchang University, Nanchang 330031, China; State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha 410082, China.
| | - Linghong Liu
- School of Chemistry, Nanchang University, Nanchang 330031, China
| | - Zhi Zhu
- School of Chemistry, Nanchang University, Nanchang 330031, China
| | - Yongnian Ni
- School of Chemistry, Nanchang University, Nanchang 330031, China
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Askari A, Mokaberi P, Dareini M, Medalian M, Pejhan M, Erfani M, Asadzadeh-Lotfabad M, Saberi MR, Chamani J. Impact of linker histone in the formation of ambochlorin-calf thymus DNA complex: Multi-spectroscopic, stopped-flow, and molecular modeling approaches. IRANIAN JOURNAL OF BASIC MEDICAL SCIENCES 2021; 24:1568-1582. [PMID: 35317121 PMCID: PMC8917854 DOI: 10.22038/ijbms.2021.58829.13070] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/07/2021] [Accepted: 09/01/2021] [Indexed: 12/15/2022]
Abstract
Objective(s): This study aimed to evaluate the role of the linker histone (H1) in the binding interaction between ambochlorin (Amb), and calf thymus DNA (ctDNA) as binary and ternary systems. Materials and Methods: The project was accomplished through the means of absorbance, fluorescence, stopped-flow circular dichroism spectroscopy, viscosity, thermal melting, and molecular modeling techniques. Results: Spectroscopic analysis revealed that although Amb was strongly bound to both ctDNA and ctDNA-H1, it showed a greater tendency to ctDNA in the presence of the linker histone. The obtained thermodynamic parameters revealed that both Amb-ctDNA and Amb-ctDNA-H1 interactions were spontaneous, endothermic, and entropy-favored, and hydrophobic interactions played the main role in the formation and stabilization of complexes. Analysis of the stopped-flow circular dichroism results revealed that the binding process of Amb-ctDNA and Amb-ctDNA-H1 required a time of more than 150 milliseconds to complete. Moreover, Amb-ctDNA complex formation was marginally decelerated in the presence of the linker histone. The docking results suggested that the presence of the linker histone may alter the binding sites of Amb from ctDNA minor grooves to major grooves. Conclusion: All quenching processes were governed by a dynamic mechanism. Additionally, Amb did not stabilize or induce considerable conformational changes in ctDNA and ctDNA-H1 complex upon binding. In silico molecular docking results confirmed that Amb was bound to the double-helical ctDNA and ctDNA-H1 via ctDNA grooves. In summary, some binding properties of the interactions between Amb and ctDNA change in the presence of the linker histone.
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Affiliation(s)
- Azam Askari
- 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
| | - Maryam Dareini
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Morvarid Medalian
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Mahtab Pejhan
- 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
| | | | - Mohammad Reza Saberi
- Medical Chemistry Department, 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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Huang S, Luo H, Liu Y, Su W, Xiao Q. Comparable investigation of binding interactions between three arene ruthenium(II) thiosemicarbazone complexes and calf thymus DNA. Polyhedron 2020. [DOI: 10.1016/j.poly.2020.114864] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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Maurya N, Imtiyaz K, Alam Rizvi MM, Khedher KM, Singh P, Patel R. Comparative in vitro cytotoxicity and binding investigation of artemisinin and its biogenetic precursors with ctDNA. RSC Adv 2020; 10:24203-24214. [PMID: 35516214 PMCID: PMC9055135 DOI: 10.1039/d0ra02042g] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Accepted: 05/22/2020] [Indexed: 12/16/2022] Open
Abstract
Artemisinin (ART) and its biogenetic precursors artemisinic acid (AA) and dihydroartemisinic acid (DHAA) are important traditional medicinal herb compounds with tumor growth inhibition properties. Herein, we have studied the cytotoxicity of ART, AA, and DHAA on different cancer cell lines (H1299, A431, and HCT 116) and investigated in detail their binding mechanisms with ctDNA by using spectroscopy, cyclic voltammetry, and computational methods. The UV absorbance, cyclic voltammetry, DNA helix melting, competition binding, and circular dichroism studies suggested that the complex formation of ART-ctDNA and AA-ctDNA occurs through groove binding. However, in the case of DHAA-ctDNA interaction, electrostatic interaction plays a major role. The thermodynamic parameters, viz., ΔG 0, ΔH 0, and ΔS 0 were calculated, which showed the involvement of hydrogen bonds and van der Waals interactions for drug-ctDNA interaction. FTIR and molecular docking results suggested that ART, AA, and DHAA were bound to the A-T rich region in the minor groove of ctDNA.
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Affiliation(s)
- Neha Maurya
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia New Delhi-110025 India +91 11 26983409 +91 8860634100
| | - Khalid Imtiyaz
- Department of Biosciences, Jamia Millia Islamia New Delhi-110025 India
| | | | - Khaled Mohamed Khedher
- Department of Civil Engineering, College of Engineering, King Khalid University Abha 6421 Saudi Arabia
- Department of Civil Engineering, ISET, DGET Nabeul Tunisia
| | - Prashant Singh
- Department of Chemistry, ARSD College, University of Delhi New Delhi-110021 India
| | - Rajan Patel
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia New Delhi-110025 India +91 11 26983409 +91 8860634100
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Ayoib A, Hashim U, Gopinath SC. Automated, high-throughput DNA extraction protocol for disposable label free, microfluidics integrating DNA biosensor for oil palm pathogen, Ganoderma boninense. Process Biochem 2020. [DOI: 10.1016/j.procbio.2020.02.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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8
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Dareini M, Amiri Tehranizadeh Z, Marjani N, Taheri R, Aslani-Firoozabadi S, Talebi A, NayebZadeh Eidgahi N, Saberi MR, Chamani J. A novel view of the separate and simultaneous binding effects of docetaxel and anastrozole with calf thymus DNA: Experimental and in silico approaches. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 228:117528. [PMID: 31718965 DOI: 10.1016/j.saa.2019.117528] [Citation(s) in RCA: 65] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Revised: 09/12/2019] [Accepted: 09/12/2019] [Indexed: 06/10/2023]
Abstract
DNA stands as the primary purpose of many anticancer drugs and according to the performed research on this field, some certain changes contain crucial functionalities in the regulated transcription of DNA. Therefore, the interaction between anticancer drugs and DNA play an important role in understanding their function and also provide a better groundwork for producing more efficient and newer drugs. Here, the interaction between Docetaxel (DO) and calf thymus DNA (ct DNA), in the presence and absence of Anastrozole (AN), has been examined through the usage of different methods that include isothermal titration calorimetry, multi-spectroscopic, viscometry, and molecular docking techniques. Interaction studies have been performed by preparing different molar ratios of DO with the constant ct DNA and AN concentration at pH = 6.8. The binding constants have been calculated to be 7.93 × 104 M-1 and 6.27 × 104 M-1, which indicate the strong binding of DO with ct DNA double helix in the absence and presence of AN, respectively. Thermodynamic parameters, which were obtained from fluorescence spectroscopy and isothermal titration calorimetry, have suggested that the binding of DO and AN to ct DNA as binary and ternary systems have been mainly driven by the electrostatic interactions. The relative viscosity of ct DNA has increased upon the addition of DO and AN, which confirms the interaction mode. A competitive binding study has reported that the enhanced emission intensity of ethidium bromide (EB) and acridine orange (AO), in the presence of ct DNA, have been quenched through the addition of DO and Anastrozole as binary and ternary systems. As it is indicated by these findings, DO is capable of displacing EB and AO from their binding site in ct DNA; hence, it can be concluded that DO and AN are able to intercalate into the base pairs of ct DNA in binary and ternary systems. Molecular docking studies have corroborated the mentioned experimental results.
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Affiliation(s)
- Maryam Dareini
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Zeinab Amiri Tehranizadeh
- Medicinal Chemistry Department, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran.
| | - Narges Marjani
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Reza Taheri
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | | | - Atiye Talebi
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Negar NayebZadeh Eidgahi
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Mohammad Reza Saberi
- Medicinal Chemistry Department, 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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Mukhija A, Kishore N. Thermodynamic insights into interaction of protein coated gold nanoclusters with DNA and influence of coating on drug binding. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2019.03.117] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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10
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Charak S, Shandilya M, Mehrotra R. RNA targeting by an anthracycline drug: spectroscopic and in silico evaluation of epirubicin interaction with tRNA. J Biomol Struct Dyn 2019; 38:1761-1771. [PMID: 31084352 DOI: 10.1080/07391102.2019.1617786] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
Anthracyclines are putative anticancer agents used to treat a wide range of cancers. Among these anthracyclines, epirubicin is derived from the doxorubicin by the subtle difference in the orientation of C4-hydroxyl group at sugar molecule. Epirubicin has great significance as it has propitious anticancer potential with lesser cardiotoxicity and faster elimination from the body. The present study is done to understand the molecular aspect of epirubicin binding to tRNA. We have used various spectroscopic techniques like Fourier transform infrared spectroscopy (FTIR), absorption spectroscopy and circular dichroism to illustrate the binding sites, the extent of binding and conformational changes associated with tRNA after interacting with epirubicin. From infrared studies, we infer that epirubicin interacts with guanine and uracil bases of tRNA. Results obtained from infrared and CD studies suggest that epirubicin complexation with tRNA does not result in any conformational change in tRNA structure. Binding constant (2.1 × 103 M-1) calculated from the absorbance data illustrates that epirubicin has a weak interaction with tRNA molecule. These spectroscopic results like the binding site of epirubicin and binding energy of epirubicin-tRNA complex were also verified by the molecular docking. Results of the present study provide information that aids in the development of efficient RNA targeted drugs from the existing drugs by certain chemical modification in their structure resulting in lesser side effects and better efficacy.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Sonika Charak
- Physico Mechanical Metrology Division, CSIR-National Physical Laboratory, New Delhi, India
| | - Manish Shandilya
- Amity School of Applied Sciences, Amity University Haryana, Gurgaon, India
| | - Ranjana Mehrotra
- Physico Mechanical Metrology Division, CSIR-National Physical Laboratory, New Delhi, India
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Oliveira R, Amaro F, Azevedo M, Vale N, Gonçalves H, Antunes C, Rego R. New voltammetric and spectroscopic studies to quinacrine-DNA-Cdots interaction. Electrochim Acta 2019. [DOI: 10.1016/j.electacta.2019.03.068] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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12
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Cytarska J, Anisiewicz A, Baranowska-Łączkowska A, Sikora A, Wietrzyk J, Misiura K, Łączkowski KZ. Triazene salts: Design, synthesis, ctDNA interaction, lipophilicity determination, DFT calculation, and antiproliferative activity against human cancer cell lines. Saudi Pharm J 2019; 27:303-311. [PMID: 30976172 PMCID: PMC6438848 DOI: 10.1016/j.jsps.2018.11.012] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2018] [Accepted: 11/22/2018] [Indexed: 11/26/2022] Open
Abstract
Synthesis, characterization and investigation of antiproliferative activity of nine triazene salts against human cancer cells lines (MV-4-11, MCF-7, JURKAT, HT-29, Hep-G2, HeLa, Du-145 and DAUDI), and normal human mammary epithelial cell line (MCF7-10A) is presented. The structures of novel compounds were determined using 1H and 13C NMR, and GC-APCI-MS analyses. Among the derivatives, compound 2c, 2d, 2e and 2f has very strong activity against biphenotypic B myelomonocytic leukemia MV4-11, with IC50 values from 5.42 to 7.69 µg/ml. The cytotoxic activity of compounds 2c-2f against normal human mammary gland epithelial cells MCF-10A is 6–11 times lower than against cancer cell lines. Our results also show that compounds 2c and 2f have very strong activity against DAUDI and HT-29 with IC50 4.91 µg/ml and 5.59 µg/ml, respectively. Their lipophilicity was determined using reversed-phase ultra-performance liquid chromatography and correlated with antiproliferative activity. Our UV–Vis spectroscopic results indicate also that triazene salts tends to interact with negatively charged DNA phosphate chain. To support the experiment, theoretical calculations of the 1H NMR shifts were carried out within the Density Functional Theory.
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Affiliation(s)
- Joanna Cytarska
- Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland
| | - Artur Anisiewicz
- Institute of Immunology and Experimental Therapy, Polish Academy of Sciences, Rudolfa Weigla 12, 53-114 Wrocław, Poland
| | | | - Adam Sikora
- Department of Analytical Chemistry, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland
| | - Joanna Wietrzyk
- Institute of Immunology and Experimental Therapy, Polish Academy of Sciences, Rudolfa Weigla 12, 53-114 Wrocław, Poland
| | - Konrad Misiura
- Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland
| | - Krzysztof Z Łączkowski
- Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland
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Chen X, Wang B, Zhou K, Lou Y, Kou S, Lin Z, Shi J. Characterizing the Binding Interaction between Erlotinib and Calf Thymus DNA In Vitro Using Multi‐Spectroscopic Methodologies and Viscosity Measurement Combined with Molecular Docking and DFT Calculation. ChemistrySelect 2019. [DOI: 10.1002/slct.201900089] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Xue‐Jun Chen
- College of Pharmaceutical ScienceZhejiang University of Technology 18, Chaowang Road, Hangzhou P.R.China
| | - Bao‐Li Wang
- College of Pharmaceutical ScienceZhejiang University of Technology 18, Chaowang Road, Hangzhou P.R.China
| | - Kai‐Li Zhou
- College of Pharmaceutical ScienceZhejiang University of Technology 18, Chaowang Road, Hangzhou P.R.China
| | - Yan‐Yue Lou
- College of Pharmaceutical ScienceZhejiang University of Technology 18, Chaowang Road, Hangzhou P.R.China
| | - Song‐Bo Kou
- College of Pharmaceutical ScienceZhejiang University of Technology 18, Chaowang Road, Hangzhou P.R.China
| | - Zhen‐Yi Lin
- College of Pharmaceutical ScienceZhejiang University of Technology 18, Chaowang Road, Hangzhou P.R.China
| | - Jie‐Hua Shi
- College of Pharmaceutical ScienceZhejiang University of Technology 18, Chaowang Road, Hangzhou P.R.China
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Mehdipour M, Dehghan G, Yekta R, Hanifeh Ahagh M, Mahdavi M, Ghasemi Z, Fathi Z. DNA-binding affinity, cytotoxicity, apoptosis, cell cycle inhibition and molecular docking studies of a new stilbene derivative. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2019; 38:101-118. [PMID: 30931800 DOI: 10.1080/15257770.2018.1498517] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
Stilbene derivatives have been found to possess promising anticancer activities against human cancer cell lines in vitro. In the present study, we have investigated cytotoxic, apoptosis induction and DNA binding activity of new stilbene derivative, (E)-1-(4-Chlorophenyl)-4,5-diphenyl-2-[4-(4-methoxystryl)phenyl]-1H-imidazol (STIM) on K562 chronic myeloid leukemia cell line. Via MTT assay STIM demonstrated cytotoxic activity against K562 cell line with IC50 value of 150 µM. Apoptosis, as the mechanism of cell death, was evaluated by morphological study and flow cytometric analysis. In vitro DNA binding property of STIM has been studied by vital spectroscopic techniques, which indicated that STIM interact with ctDNA through groove binding mode and binding constant (Kb) was estimated to be 6.9 × 104 M-1. Docking studies revealed that hydrophobic is the most important interaction in STIM-DNA complex, and that the ligand (STIM) interacts with DNA via groove binding mode and the bindiyspng energy was calculated as -13.37 kcal/mol. Taken together, the present study suggests that STIM exhibits anticancer effect on K562 cell line through the induction of apoptosis as well as cell cycle arrest at Sub-G1 phase and also can bind to double helix DNA in vitro.
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Affiliation(s)
- Maryam Mehdipour
- a Department of Biology, Faculty of Natural Science s, University of Tabriz , Tabriz , Iran
| | - Gholamreza Dehghan
- a Department of Biology, Faculty of Natural Science s, University of Tabriz , Tabriz , Iran
| | - Reza Yekta
- a Department of Biology, Faculty of Natural Science s, University of Tabriz , Tabriz , Iran
| | - Mina Hanifeh Ahagh
- a Department of Biology, Faculty of Natural Science s, University of Tabriz , Tabriz , Iran
| | - Majid Mahdavi
- a Department of Biology, Faculty of Natural Science s, University of Tabriz , Tabriz , Iran
| | - Zarrin Ghasemi
- b Department of Organic Chemistry and Biochemistry, Faculty of Chemistry , University of Tabriz , Tabriz , Iran
| | - Zahra Fathi
- b Department of Organic Chemistry and Biochemistry, Faculty of Chemistry , University of Tabriz , Tabriz , Iran
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Shahabadi N, Momeni BZ, Zendehcheshm S. Studies on the Interaction of [SnMe 2Cl 2(bu 2bpy)] Complex with ct-DNA Using Multispectroscopic, Atomic Force Microscopy (AFM) and Molecular Docking. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2019; 38:157-182. [PMID: 31044667 DOI: 10.1080/15257770.2018.1506885] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
The interaction of SnMe2Cl2(bu2bpy)complex with calf thymus DNA (ct-DNA) has been explored following, using spectroscopic methods, viscosity measurements, Atomic force microscopy, Thermal denaturation and Molecular docking. It was found that Sn(IV) complex could bind with DNA via intercalation mode as evidenced by hyperchromism and bathochromic in UV-Vis spectrum; these spectral characteristics suggest that the Sn(IV) complex interacts with DNA most likely through a mode that involves a stacking interaction between the aromatic chromophore and the base pairs of DNA. In addition, the fluorescence emission spectra of intercalated methylene blue (MB) with increasing concentrations of SnMe2Cl2(bu2bpy) represented a significant increase of MB intensity as to release MB from MB-DNA system. Positive values of ΔH and ΔS imply that the complex is bound to ct-DNA mainly via the hydrophobic attraction. Large complexes contain the DNA chains with an average size of 859 nm were observed by using AFM for Sn(IV) Complex-DNA. The Fourier transform infrared study showed a major interaction of Sn(IV) complex with G-C and A-T base pairs and a minor perturbation of the backbone PO2 group. Addition of the Sn(IV)complex results in a noticeable rise in the Tm of DNA. In addition, the results of viscosity measurements suggest that SnMe2Cl2(bu2bpy) complex may bind with the classical intercalative mode. From spectroscopic and hydrodynamic studies, it has been found that Sn(IV)complex interacts with DNA by intercalation mode. Optimized docked model of DNA-complex mixture confirmed the experimental results.
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Affiliation(s)
- Nahid Shahabadi
- a Department of Inorganic Chemistry, Faculty of Chemistry , Razi University , Kermanshah , Iran.,b Medical Biology Research Center (MBRC) , Kermanshah University of Medical Sciences , Kermanshah , Iran
| | - Badri Z Momeni
- c Department of Chemistry , K. N. Toosi University of Technology , Tehran , Iran
| | - Saba Zendehcheshm
- a Department of Inorganic Chemistry, Faculty of Chemistry , Razi University , Kermanshah , Iran
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Jaleel JA, Ashraf SM, Rathinasamy K, Pramod K. Carbon dot festooned and surface passivated graphene-reinforced chitosan construct for tumor-targeted delivery of TNF-α gene. Int J Biol Macromol 2019; 127:628-636. [PMID: 30708020 DOI: 10.1016/j.ijbiomac.2019.01.174] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2018] [Revised: 01/18/2019] [Accepted: 01/28/2019] [Indexed: 12/11/2022]
Abstract
Gene therapy is a promising alternative that ensures effective treatment and cure for cancer. Here, we report graphene-reinforced chitosan (CS) construct based non-viral vector for tumor-targeted gene therapy. The therapeutic gene, pDNA-TNF-α, was loaded on to chitosan-carboxylated graphene oxide (CS-CGO) construct via electrostatic interaction. The pDNA-TNF-α-CS-CGO thus obtained was further passivated with 4,7,10-trioxa-1,13-tridecanediamine for protecting the vector from the mononuclear phagocyte system that contributes to the prolongation of circulation half-life. The surface passivated carrier (PEG-pDNA-TNF-α-CS-CGO) then festooned with the folic acid derived carbon dots (C-dots) for targeting folate receptors that are overexpressed in most of the cancer cells. The results of TEM images and zeta potential values ensured the occurrence of desired changes in each stage of C-dot-PEG-pDNA-TNF-α-CS-CGO formulation. After 14 days of incubation, the anti-angiogenesis effect was observed for final formulation in the chorioallantoic membrane. The results of in vitro gene expression study in cancer cell line show a comparatively higher transfection efficacy of the developed system (C-dot-PEG-pDNA-TNF-α-CS-CGO) than pDNA-TNF-α. The efficiency of the developed gene delivery system was further confirmed using a developed and validated artificial tumor cell apparatus.
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Affiliation(s)
- Jumana Abdul Jaleel
- College of Pharmaceutical Sciences, Govt. Medical College, Kozhikode, Kerala, India
| | - Shabeeba M Ashraf
- School of Biotechnology, National Institute of Technology Calicut, Calicut, India
| | - Krishnan Rathinasamy
- School of Biotechnology, National Institute of Technology Calicut, Calicut, India
| | - K Pramod
- College of Pharmaceutical Sciences, Govt. Medical College, Kozhikode, Kerala, India.
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Ray B, Gupta B, Mehrotra R. Binding of platinum derivative, oxaliplatin to deoxyribonucleic acid: structural insight into antitumor action. J Biomol Struct Dyn 2018; 37:3838-3847. [PMID: 30282523 DOI: 10.1080/07391102.2018.1531059] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Platinum-derived chemodrugs constitute an active class in cancer therapeutics. Besides being potent against various solid tumors, oxaliplatin has been recognized as the first platinum compound to be approved for the treatment of colorectal cancer. Structurally, oxaliplatin consists of a platinum metal complexed to oxalate and diaminocyclohexane (DACH) and exert its anticancer action by inhibiting DNA replication and transcription. The present study highlights the binding properties of oxaliplatin with calf thymus DNA using spectroscopic methods to comprehend its binding mechanism at molecular level to overcome associated cellular resistance and side effects. Attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopic outcomes confirm that oxaliplatin is a covalent binding agent and also provide sequence specificity in DNA molecule. Infrared spectral results further indicate that oxaliplatin alkylates purine nitrogenous bases majorly guanine residues (G) in the major groove via formation of either interstrand or intrastrand guanine-guanine d(GpG) and guanine-adenine d(GpA) (N7 position) crosslinks accompanied with a slight external binding to sugar-phosphate backbone. Again, circular dichroism (CD) spectroscopic results suggest subtle conformational changes in DNA molecule due to its complexation with oxaliplatin and duplex attains an intermediate conformational state, having characteristics of both B- and C-forms. Further, a moderate binding strength of 4.12 ± 0.2 × 104 M-1 for the interaction has been estimated via ultraviolet-visible spectroscopy. The inferences obtained from these investigations are encouraging and can form the basis for further exploration in the field of rational drug development based on platinum compounds possessing preferential binding for nucleic acid with improved competence. Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Bhumika Ray
- a Physico Mechanical Metrology Division, CSIR-National Physical Laboratory , New Delhi , India
| | - Bhumika Gupta
- a Physico Mechanical Metrology Division, CSIR-National Physical Laboratory , New Delhi , India
| | - Ranjana Mehrotra
- a Physico Mechanical Metrology Division, CSIR-National Physical Laboratory , New Delhi , India
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18
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Karthick T, Tandon P, Srivastava K, Singh S. Evaluation of non-covalent interactions of chlorambucil (monomer and dimer) and its interaction with biological targets: Vibrational frequency shift, electron density topological and automated docking analysis. ARAB J CHEM 2018. [DOI: 10.1016/j.arabjc.2017.10.012] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
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Khajeh MA, Dehghan G, Dastmalchi S, Shaghaghi M, Iranshahi M. Spectroscopic profiling and computational study of the binding of tschimgine: A natural monoterpene derivative, with calf thymus DNA. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 192:384-392. [PMID: 29195192 DOI: 10.1016/j.saa.2017.11.042] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2017] [Revised: 10/23/2017] [Accepted: 11/19/2017] [Indexed: 06/07/2023]
Abstract
DNA is a major target for a number of anticancer substances. Interaction studies between small molecules and DNA are essential for rational drug designing to influence main biological processes and also introducing new probes for the assay of DNA. Tschimgine (TMG) is a monoterpene derivative with anticancer properties. In the present study we tried to elucidate the interaction of TMG with calf thymus DNA (CT-DNA) using different spectroscopic methods. UV-visible absorption spectrophotometry, fluorescence and circular dichroism (CD) spectroscopies as well as molecular docking study revealed formation of complex between TMG and CT-DNA. Binding constant (Kb) between TMG and DNA was 2.27×104M-1, that is comparable to groove binding agents. The fluorescence spectroscopic data revealed that the quenching mechanism of fluorescence of TMG by CT-DNA is static quenching. Thermodynamic parameters (ΔH<0 and ΔS<0) at different temperatures indicated that van der Waals forces and hydrogen bonds were involved in the binding process of TMG with CT-DNA. Competitive binding assay with methylene blue (MB) and Hoechst 33258 using fluorescence spectroscopy displayed that TMG possibly binds to the minor groove of CT-DNA. These observations were further confirmed by CD spectral analysis, viscosity measurements and molecular docking.
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Affiliation(s)
| | - Gholamreza Dehghan
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran.
| | - Siavoush Dastmalchi
- Biotechnology Research Center, School of Pharmacy, Tabriz University of Medical Sciences, Tabriz, Iran
| | - Masoomeh Shaghaghi
- Department of Chemistry, Payame Noor University, P. O. Box 19395-3697, Tehran, Iran
| | - Mehrdad Iranshahi
- Biotechnology Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran
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20
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Comparative studies on DNA-binding and in vitro antitumor activity of enantiomeric ruthenium(II) complexes. J Inorg Biochem 2018; 180:54-60. [DOI: 10.1016/j.jinorgbio.2017.11.024] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2017] [Revised: 10/31/2017] [Accepted: 11/26/2017] [Indexed: 02/07/2023]
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21
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Łączkowski KZ, Anusiak J, Świtalska M, Dzitko K, Cytarska J, Baranowska-Łączkowska A, Plech T, Paneth A, Wietrzyk J, Białczyk J. Synthesis, molecular docking, ctDNA interaction, DFT calculation and evaluation of antiproliferative and anti- Toxoplasma gondii activities of 2,4-diaminotriazine-thiazole derivatives. Med Chem Res 2018; 27:1131-1148. [PMID: 29576720 PMCID: PMC5854716 DOI: 10.1007/s00044-018-2136-6] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2017] [Accepted: 01/13/2018] [Indexed: 01/23/2023]
Abstract
Synthesis, characterization, and investigation of antiproliferative activities against human cancer cell lines (MV4-11, MCF-7, and A549) and Toxoplasma gondii parasite of twelve novel 2,4-diaminotriazine-thiazoles are presented. The toxicity of the compounds was studied at three different cell types, normal mouse fibroblast (Balb/3T3), mouse fibroblast (L929), and human VERO cells. The structures of novel compounds were determined using 1H and 13C NMR, FAB(+)-MS, and elemental analyses. Among the derivatives, 4a–k showed very high activity against MV4-11 cell line with IC50 values between 1.13 and 3.21 µg/ml. Additionally, the cytotoxic activity of compounds 4a–k against normal mouse fibroblast Balb/3T3 cells is about 20–100 times lower than against cancer cell lines. According to our results, compounds 4a, 4b, 4d, and 4i have very strong activity against human breast carcinoma MCF-7, with IC50 values from 3.18 to 4.28 µg/ml. Moreover, diaminotriazines 4a–l showed significant anti-Toxoplasma gondii activity, with IC50 values 9–68 times lower than those observed for sulfadiazine. Molecular docking studies indicated DNA-binding site of hTopoI and hTopoII as possible anticancer targets and purine nucleoside phosphorylase as possible anti-toxoplasmosis target. Our UV–Vis spectroscopic results indicate also that diaminotriazine-thiazoles tends to interact with DNA by intercalation. Additionally, the structure and the interaction and binding energies of a model complex formed by compound 4a and two thymine molecules are investigated using quantum mechanical methods.
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Affiliation(s)
- Krzysztof Z Łączkowski
- 1Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland
| | - Joanna Anusiak
- 1Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland
| | - Marta Świtalska
- 2Institute of Immunology and Experimental Therapy, Polish Academy of Sciences, Rudolfa Weigla 12, 53-114 Wrocław, Poland
| | - Katarzyna Dzitko
- 3Department of Immunoparasitology, University of Lodz, Banacha 12/16, 90-237 Lodz, Poland
| | - Joanna Cytarska
- 1Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland
| | | | - Tomasz Plech
- 5Department of Pharmacology, Faculty of Health Sciences, Medical University of Lublin, Chodźki 4a, 20-093 Lublin, Poland
| | - Agata Paneth
- 6Department of Organic Chemistry, Faculty of Pharmacy, Medical University of Lublin, Chodźki 4a, 20-093 Lublin, Poland
| | - Joanna Wietrzyk
- 1Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland.,2Institute of Immunology and Experimental Therapy, Polish Academy of Sciences, Rudolfa Weigla 12, 53-114 Wrocław, Poland.,3Department of Immunoparasitology, University of Lodz, Banacha 12/16, 90-237 Lodz, Poland.,4Institute of Physics, Kazimierz Wielki University, Plac Weyssenhoffa 11, 85-072 Bydgoszcz, Poland.,5Department of Pharmacology, Faculty of Health Sciences, Medical University of Lublin, Chodźki 4a, 20-093 Lublin, Poland.,6Department of Organic Chemistry, Faculty of Pharmacy, Medical University of Lublin, Chodźki 4a, 20-093 Lublin, Poland
| | - Joanna Białczyk
- 1Department of Chemical Technology and Pharmaceuticals, Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University, Jurasza 2, 85-089 Bydgoszcz, Poland.,2Institute of Immunology and Experimental Therapy, Polish Academy of Sciences, Rudolfa Weigla 12, 53-114 Wrocław, Poland.,3Department of Immunoparasitology, University of Lodz, Banacha 12/16, 90-237 Lodz, Poland.,4Institute of Physics, Kazimierz Wielki University, Plac Weyssenhoffa 11, 85-072 Bydgoszcz, Poland.,5Department of Pharmacology, Faculty of Health Sciences, Medical University of Lublin, Chodźki 4a, 20-093 Lublin, Poland.,6Department of Organic Chemistry, Faculty of Pharmacy, Medical University of Lublin, Chodźki 4a, 20-093 Lublin, Poland
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22
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Pansare AV, Kulal DK, Shedge AA, Patil VR. hsDNA groove binding, photocatalytic activity, and in vitro breast and colon cancer cell reducing function of greener SeNPs. Dalton Trans 2018; 45:12144-55. [PMID: 27402164 DOI: 10.1039/c6dt01457g] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Selenium nanoparticles (SeNPs) have attracted great attention because of their superior optical properties and wide utilization in biological and biomedical studies. This paper reports an environmentally benign procedure of greener monodispersible SeNP synthesis using the reducing power of Trigonella foenum-graecum extract, characterization and their protective effect against unfolded (Herring sperm DNA) hsDNA. We investigated the anti-cancer activity of SeNPs against MCF-7, MDA MB 435 and COLO-205 cells. The photocatalytic activity of SeNPs was investigated for the degradation of a Sunset Yellow FCF (SYFCF) dye using ultraviolet-B light. The reduction of the Se ion to SeNPs was monitored by ultraviolet-visible spectroscopy (UV-vis). The size and morphology of the SeNPs were characterized by high resolution transmission electron microscopy (HRTEM), X-ray diffraction (XRD), and Dynamic Light Scattering (DLS). The SeNPs were stable, and the diameter was homogeneous at around 5-12 nm. Interactions of various concentrations of SeNPs with hsDNA were systematically investigated by UV-vis, fluorescence, circular dichroism (CD), polarimetry and FTIR spectroscopy under physiological conditions. The results from fluorescence spectroscopy indicated that SeNPs quenched the fluorescence intensity of hsDNA with increasing concentrations. The modified Stern-Volmer quenching rate constant Ksv, binding constant K and binding sites n at different temperatures and the corresponding thermodynamic parameters ΔH°, ΔG° and ΔS° were calculated. Hoechst 33258 and methyl green (MG) site markers, melting experiment (Tm), viscosity measurements and sequence specificity verification by DNA bases clarified that SeNPs bind to hsDNA via a groove site. The rate of photocatalytic degradation of the SYFCF dye in the presence and absence of photocatalysts (SeNPs) was studied using UV-vis, the results showed appreciable degradation of the SYFCF dye. Our results suggested that nano Se can be used as a promising selenium species with potential application in cancer treatment. These nanoparticles were found to be the most active cytotoxic agent prepared in a new green synthesis manner, causing >50% inhibition of MCF-7, MDA MB-435 and COLO-205 cell proliferation at concentrations <10(-7) M. Hence these SeNPs could be recognized as promising materials for biomedical applications.
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Affiliation(s)
- Amol V Pansare
- Department of Chemistry, University of Mumbai, Santacruz (E), Mumbai 400098, India.
| | - Dnyaneshwar K Kulal
- Department of Chemistry, University of Mumbai, Santacruz (E), Mumbai 400098, India.
| | - Amol A Shedge
- Department of Chemistry, University of Mumbai, Santacruz (E), Mumbai 400098, India.
| | - Vishwanath R Patil
- Department of Chemistry, University of Mumbai, Santacruz (E), Mumbai 400098, India.
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Moghadam NH, Salehzadeh S, Shahabadi N. Spectroscopic and molecular docking studies on the interaction of antiviral drug nevirapine with calf thymus DNA. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2017; 36:553-570. [PMID: 28786740 DOI: 10.1080/15257770.2017.1346800] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
The interaction of calf thymus DNA with nevirapine at physiological pH was studied by using absorption, circular dichroism, viscosity, differential pulse voltammetry, fluorescence techniques, salt effect studies and computational methods. The drug binds to ct-DNA in a groove binding mode, as shown by slight variation in the viscosity of ct-DNA. Furthermore, competitive fluorimetric studies with Hoechst 33258 indicate that nevirapine binds to DNA via groove binding. Moreover, the structure of nevirapine was optimized by DFT calculations and was used for the molecular docking calculations. The molecular docking results suggested that nevirapine prefers to bind on the minor groove of ct-DNA.
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Affiliation(s)
| | | | - Nahid Shahabadi
- b Department of Chemistry, Faculty of Science , Razi University , Kermanshah , Iran.,c Medical Biology Research Center (MBRC) Kermanshah University of Medical Sciences , Kermanshah , Iran
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24
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Ma L, Wang J, Zhang Y. Probing the Characterization of the Interaction of Aflatoxins B1 and G1 with Calf Thymus DNA In Vitro. Toxins (Basel) 2017; 9:E209. [PMID: 28671585 PMCID: PMC5535156 DOI: 10.3390/toxins9070209] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2017] [Revised: 06/20/2017] [Accepted: 06/28/2017] [Indexed: 11/16/2022] Open
Abstract
The binding characterization of aflatoxins with calf thymus DNA (ctDNA) under physiological conditions was investigated. Multispectroscopic techniques, ctDNA melting, viscosity measurements, and molecular docking techniques were employed to elucidate the binding mechanism of the aflatoxins with DNA. The fluorescence results indicated that both aflatoxin B1 (AFB1) and aflatoxin G1 (AFG1) bound to the ctDNA, forming complexes through hydrogen bonding. The binding constants of AFB1 and AFG1 with ctDNA reached up to 10³ L·mol-1 and 10⁴ L·mol-1, respectively, and AFG1 exhibited a higher binding propensity than that of AFB1. Furthermore, both AFB1 and AFG1 bound to the ctDNA through groove binding, as evidenced by the results of the spectroscopic, iodide quenching effect, viscosity, and ctDNA melting measurements. Changes in the circular dichroism signal manifested that both AFB1 and AFG1 induced an increase in the right-handed helicity, but only minimally influenced the base stacking of the DNA. A molecular docking study of the aflatoxin's binding with the DNA revealed a groove binding mode, which was driven mainly by hydrogen bonding. This study of aflatoxin-ctDNA interaction may provide novel insights into the toxicological effect of the mycotoxins.
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Affiliation(s)
- Liang Ma
- College of Food Science, Southwest University, Beibei District, Chongqing 400715, China.
| | - Jiaman Wang
- College of Food Science, Southwest University, Beibei District, Chongqing 400715, China.
| | - Yuhao Zhang
- College of Food Science, Southwest University, Beibei District, Chongqing 400715, China.
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25
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Experimental and molecular modeling studies on the DNA-binding of diazacyclam-based acrocyclic copper complex. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2017; 167:7-14. [DOI: 10.1016/j.jphotobiol.2016.12.023] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2015] [Accepted: 12/19/2016] [Indexed: 01/03/2023]
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26
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Bonsaii M, Gholivand K, Khosravi M, Abdi K. Negative hyperconjugation effect on the reactivity of phosphoramide mustard derivatives as a DNA alkylating agent: theoretical and experimental insights. NEW J CHEM 2017. [DOI: 10.1039/c7nj01402c] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this work we suggest new factors affecting the reactivity of compounds similar to cyclophosphamide; as their reactivity mainly relies on the frontier molecular orbitals, the factors causing changes in the frontier molecular orbitals, alter the reactivity of these compounds too.
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Affiliation(s)
- Mahyar Bonsaii
- Department of Chemistry
- Islamic Azad University
- North Tehran Branch
- Tehran
- Iran
| | | | - Morteza Khosravi
- Department of Chemistry
- Islamic Azad University
- North Tehran Branch
- Tehran
- Iran
| | - Khosrou Abdi
- Department of Medicinal Chemistry and Radiopharmacy
- Tehran University of Medical Sciences
- Tehran
- Iran
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27
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Lohani N, Singh HN, Rajeswari MR. Assessment of binding properties of Actinomycin-D to 21nt DNA segment of hmgb1 gene promoter using spectroscopic and calorimetric techniques. J Biomol Struct Dyn 2016; 36:504-511. [PMID: 28033959 DOI: 10.1080/07391102.2016.1278037] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Neelam Lohani
- a Department of Biochemistry , All India Institute of Medical Sciences , New Delhi , India
| | - Himanshu Narayan Singh
- a Department of Biochemistry , All India Institute of Medical Sciences , New Delhi , India
| | - Moganty R Rajeswari
- a Department of Biochemistry , All India Institute of Medical Sciences , New Delhi , India
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28
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Structural aspects of the interaction of anticancer drug Actinomycin-D to the GC rich region of hmgb1 gene. Int J Biol Macromol 2016; 87:433-42. [DOI: 10.1016/j.ijbiomac.2016.02.060] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2015] [Revised: 02/22/2016] [Accepted: 02/23/2016] [Indexed: 12/18/2022]
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29
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Huang S, Liang Y, Huang C, Su W, Lei X, Liu Y, Xiao Q. Systematical investigation of binding interaction between novel ruthenium(II) arene complex with curcumin analogs and ctDNA. LUMINESCENCE 2016; 31:1384-1394. [DOI: 10.1002/bio.3119] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2015] [Revised: 01/17/2016] [Accepted: 01/24/2016] [Indexed: 12/25/2022]
Affiliation(s)
- Shan Huang
- College of Chemistry and Material Science; Guangxi Teachers Education University; Nanning 530001 People's Republic of China
- Collaborative Innovation Center of Southwest Ethnic Medicine; Guangxi Normal University; Guilin 541004 People's Republic of China
| | - Yu Liang
- College of Chemistry and Material Science; Guangxi Teachers Education University; Nanning 530001 People's Republic of China
| | - Chusheng Huang
- College of Chemistry and Material Science; Guangxi Teachers Education University; Nanning 530001 People's Republic of China
- Collaborative Innovation Center of Southwest Ethnic Medicine; Guangxi Normal University; Guilin 541004 People's Republic of China
| | - Wei Su
- College of Chemistry and Material Science; Guangxi Teachers Education University; Nanning 530001 People's Republic of China
- Collaborative Innovation Center of Southwest Ethnic Medicine; Guangxi Normal University; Guilin 541004 People's Republic of China
| | - Xiaolin Lei
- College of Chemistry and Material Science; Guangxi Teachers Education University; Nanning 530001 People's Republic of China
| | - Yi Liu
- State Key Laboratory of Virology; Wuhan University; Wuhan 430072 People's Republic of China
| | - Qi Xiao
- College of Chemistry and Material Science; Guangxi Teachers Education University; Nanning 530001 People's Republic of China
- Collaborative Innovation Center of Southwest Ethnic Medicine; Guangxi Normal University; Guilin 541004 People's Republic of China
- State Key Laboratory of Virology; Wuhan University; Wuhan 430072 People's Republic of China
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30
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Ray B, Agarwal S, Lohani N, Rajeswari MR, Mehrotra R. Structural, conformational and thermodynamic aspects of groove-directed-intercalation of flavopiridol into DNA. J Biomol Struct Dyn 2016; 34:2518-35. [DOI: 10.1080/07391102.2015.1118708] [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]
Affiliation(s)
- Bhumika Ray
- Academy of Scientific & Innovative Research (AcSIR), CSIR-National Physical Laboratory Campus, New Delhi 110012, India
- Quantum Phenomena and Applications, CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Shweta Agarwal
- Academy of Scientific & Innovative Research (AcSIR), CSIR-National Physical Laboratory Campus, New Delhi 110012, India
- Quantum Phenomena and Applications, CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Neelam Lohani
- Department of Biochemistry, All India Institute of Medical Sciences, Ansari Nagar, New Delhi 110029, India
| | - Moganty R. Rajeswari
- Department of Biochemistry, All India Institute of Medical Sciences, Ansari Nagar, New Delhi 110029, India
| | - Ranjana Mehrotra
- Academy of Scientific & Innovative Research (AcSIR), CSIR-National Physical Laboratory Campus, New Delhi 110012, India
- Quantum Phenomena and Applications, CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
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Bonsaii M, Gholivand K, Abdi K, Valmoozi AAE, Khosravi M. A combined experimental and computational study on the interaction of nitrogen mustards with DNA. MEDCHEMCOMM 2016. [DOI: 10.1039/c6md00264a] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
In the present work, we suggest that the role of water in the reaction of nitrogen mustards with DNA is more than what was thought before. Nitrogen mustards become activated when they are hydrated by water.
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Affiliation(s)
- Mahyar Bonsaii
- Department of Chemistry
- Islamic Azad University
- Tehran
- Iran
| | | | - Khosrou Abdi
- Department of Medicinal Chemistry and Radiopharmacy
- Tehran University of Medical Sciences
- Tehran
- Iran
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Topkaya SN, Serindere G, Ozder M. Determination of DNA Hypermethylation Using Anti-cancer Drug-Temozolomide. ELECTROANAL 2015. [DOI: 10.1002/elan.201501027] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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Huang YM, Zheng SJ, Yan J, Yang HQ, Wu D, Wang Q, Li H. Investigation on the interaction of letrozole with herring sperm DNA through spectroscopic and modeling methods. LUMINESCENCE 2015; 31:1077-84. [DOI: 10.1002/bio.3074] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2015] [Revised: 11/11/2015] [Accepted: 11/12/2015] [Indexed: 01/18/2023]
Affiliation(s)
- Yan-Mei Huang
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Shou-Jun Zheng
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Jin Yan
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Hong-Qin Yang
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Di Wu
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Qing Wang
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Hui Li
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
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Farajzadeh Dehkordi M, Dehghan G, Mahdavi M, Hosseinpour Feizi MA. Investigation on the Binding Mode of 3, 4-Dihydropyrano[c]Chromene Derivative with Double Strand DNA. Adv Pharm Bull 2015; 5:477-81. [PMID: 26819919 DOI: 10.15171/apb.2015.065] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Revised: 06/14/2015] [Accepted: 06/27/2015] [Indexed: 11/09/2022] Open
Abstract
PURPOSE The study on the interaction between small molecules and DNA has been very useful for investigating the structure and physical properties of DNA, elucidating the damage mechanism of DNA and significant in the design of new drugs targeted to DNA. This article describes an interaction of native calf thymus DNA (ctDNA) with a new 3, 4-dihydropyrano[c]chromene derivative, 2-amino-4-(4- chlorophenyl)-5-oxo-4H, 5H-pyrano-[3, 2-c] chromene-3-carbonitrile (4-CC) by using spectroscopic and viscometric techniques. METHODS The interaction between 4-CC and ctDNA is realized from the UV absorption spectrophotometry, viscosimetry, circular dichroism and fluorescence spectroscopic techniques which shows that the successive interaction of 4-CC with ctDNA occurs. RESULTS The experimental results revealed that 4-CC can interact with DNA through non- intercalative mode and the intrinsic binding constant (Kb) for 4-CC with DNA was estimated to 2.37 (±0.001) ×103 M-1. Methylene blue (MB) displacement studies revealed that 4-CC did not have any effect on MB bound DNA which is indicative of groove binding mode. Furthermore, 4-CC induces detectable changes in the CD spectrum of ctDNA as well as changes in its viscosity study corroborate the above experimental results. CONCLUSION These results further advance our knowledge on the molecular aspects on the interaction of 4-CC to nucleic acids.
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Affiliation(s)
| | - Gholamreza Dehghan
- Department of Biology, Faculty of Natural Science, University of Tabriz, Tabriz, Iran
| | - Majid Mahdavi
- Department of Biology, Faculty of Natural Science, University of Tabriz, Tabriz, Iran
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Dorraji PS, Jalali F. Spectral, electrochemical, and molecular docking evaluation of the interaction of the anti-hyperthyroid drug methimazole with DNA. CAN J CHEM 2015. [DOI: 10.1139/cjc-2014-0594] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The interaction of native calf thymus DNA with the anti-hyperthyroid drug methimazole was investigated by different spectroscopic (UV-Vis spectrophotometry, spectroflourimetry, and circular dichroism), electrochemical (cyclic voltammetry and chronoamperometry) methods, and molecular docking calculations. The binding constant (Kb) obtained from the spectrophotometric method was 9.67 × 103 L mol−1, comparable with that of groove binding molecules. The binding mode was further investigated by following the competition between Hoechst 33258 and methimazole for DNA grooves by spectrofluorimetry. Consistent results were obtained from all experimental methods used in this study. Finally, theoretical calculations using the molecular docking method confirmed the experimental results.
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Affiliation(s)
- Parisa S. Dorraji
- Department of Chemistry, Razi University, 67346 Kermanshah, Iran
- Department of Chemistry, Razi University, 67346 Kermanshah, Iran
| | - Fahimeh Jalali
- Department of Chemistry, Razi University, 67346 Kermanshah, Iran
- Department of Chemistry, Razi University, 67346 Kermanshah, Iran
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Shi JH, Chen J, Wang J, Zhu YY. Binding interaction between sorafenib and calf thymus DNA: spectroscopic methodology, viscosity measurement and molecular docking. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 136 Pt B:443-450. [PMID: 25311519 DOI: 10.1016/j.saa.2014.09.056] [Citation(s) in RCA: 118] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2014] [Revised: 08/27/2014] [Accepted: 09/18/2014] [Indexed: 06/04/2023]
Abstract
The binding interaction of sorafenib with calf thymus DNA (ct-DNA) was studied using UV-vis absorption spectroscopy, fluorescence emission spectroscopy, circular dichroism (CD), viscosity measurement and molecular docking methods. The experimental results revealed that there was obvious binding interaction between sorafenib and ct-DNA. The binding constant (Kb) of sorafenib with ct-DNA was 5.6×10(3) M(-1) at 298 K. The enthalpy and entropy changes (ΔH(0) and ΔS(0)) in the binding process of sorafenib with ct-DNA were -27.66 KJ mol(-1) and -21.02 J mol(-1) K(-1), respectively, indicating that the main binding interaction forces were van der Waals force and hydrogen bonding. The docking results suggested that sorafenib preferred to bind on the minor groove of A-T rich DNA and the binding site of sorafenib was 4 base pairs long. The conformation change of sorafenib in the sorafenib-DNA complex was obviously observed and the change was close relation with the structure of DNA, implying that the flexibility of sorafenib molecule played an important role in the formation of the stable sorafenib-ct-DNA complex.
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Affiliation(s)
- Jie-Hua Shi
- College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou 310032, China; State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, Zhejiang University of Technology, Hangzhou 310032, China.
| | - Jun Chen
- College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou 310032, China
| | - Jing Wang
- College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou 310032, China
| | - Ying-Yao Zhu
- College of Pharmaceutical Science, Zhejiang University of Technology, Hangzhou 310032, China
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Chen CB, Chen J, Wang J, Zhu YY, Shi JH. Combined spectroscopic and molecular docking approach to probing binding interactions between lovastatin and calf thymus DNA. LUMINESCENCE 2015; 30:1004-10. [DOI: 10.1002/bio.2851] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2014] [Revised: 12/03/2014] [Accepted: 12/29/2014] [Indexed: 01/21/2023]
Affiliation(s)
- C.-B. Chen
- College of Pharmaceutical Science; Zhejiang University of Technology; Hangzhou 310032 China
| | - J. Chen
- College of Pharmaceutical Science; Zhejiang University of Technology; Hangzhou 310032 China
| | - J. Wang
- College of Pharmaceutical Science; Zhejiang University of Technology; Hangzhou 310032 China
| | - Y.-Y. Zhu
- College of Pharmaceutical Science; Zhejiang University of Technology; Hangzhou 310032 China
| | - J.-H. Shi
- College of Pharmaceutical Science; Zhejiang University of Technology; Hangzhou 310032 China
- State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology; Zhejiang University of Technology; Hangzhou 310032 China
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Cui HF, Xu TB, Sun YL, Zhou AW, Cui YH, Liu W, Luong JHT. Hairpin DNA as a Biobarcode Modified on Gold Nanoparticles for Electrochemical DNA Detection. Anal Chem 2015; 87:1358-65. [DOI: 10.1021/ac504206n] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Affiliation(s)
- Hui-Fang Cui
- Bioengineering
Department, School of Life Sciences, Zhengzhou University, 100# Science
Avenue, Zhengzhou, 450001, People’s Republic of China
| | - Tai-Bin Xu
- Bioengineering
Department, School of Life Sciences, Zhengzhou University, 100# Science
Avenue, Zhengzhou, 450001, People’s Republic of China
| | - Yu-Long Sun
- Bioengineering
Department, School of Life Sciences, Zhengzhou University, 100# Science
Avenue, Zhengzhou, 450001, People’s Republic of China
| | - An-Wei Zhou
- Bioengineering
Department, School of Life Sciences, Zhengzhou University, 100# Science
Avenue, Zhengzhou, 450001, People’s Republic of China
| | - Yu-Han Cui
- Bioengineering
Department, School of Life Sciences, Zhengzhou University, 100# Science
Avenue, Zhengzhou, 450001, People’s Republic of China
| | - Wei Liu
- Bioengineering
Department, School of Life Sciences, Zhengzhou University, 100# Science
Avenue, Zhengzhou, 450001, People’s Republic of China
| | - John H. T. Luong
- Innovative Chromatography
Group, Irish Separation Science Cluster, Department of
Chemistry and Analytical, Biological Chemistry Research
Facility, University College Cork, Cork, Ireland
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Rehman SU, Sarwar T, Ishqi HM, Husain MA, Hasan Z, Tabish M. Deciphering the interactions between chlorambucil and calf thymus DNA: A multi-spectroscopic and molecular docking study. Arch Biochem Biophys 2015; 566:7-14. [DOI: 10.1016/j.abb.2014.12.013] [Citation(s) in RCA: 79] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2014] [Revised: 11/25/2014] [Accepted: 12/09/2014] [Indexed: 11/29/2022]
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Chen M, Zhu X, Yan D. A controlled release system for simultaneous promotion of gene transfection and antitumor effects. RSC Adv 2014. [DOI: 10.1039/c4ra10447a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
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Intercalation binding of food antioxidant butylated hydroxyanisole to calf thymus DNA. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2014; 141:253-61. [PMID: 25463675 DOI: 10.1016/j.jphotobiol.2014.10.011] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/13/2014] [Revised: 09/26/2014] [Accepted: 10/22/2014] [Indexed: 12/28/2022]
Abstract
The binding properties of food antioxidant butylated hydroxyanisole (BHA) associated with calf thymus DNA (ctDNA) in physiological buffer (pH 7.4) were investigated. Experimental results based on fluorescence, UV-vis absorption, circular dichroism (CD), viscosity measurements and autodocking techniques confirmed the intercalation binding between BHA and ctDNA. The changes in Fourier transform infrared spectra of ctDNA induced by BHA suggested that BHA was more prone to bind to G-C rich region of ctDNA, which was further ascertained with the molecular docking studies. Analysis of the CD spectra indicated that this binding interaction led to a transformation from B-like DNA structure toward A-like conformation. The complexation of BHA with ctDNA was driven mainly by hydrogen bonds and hydrophobic forces. The binding constants of the BHA-ctDNA complex were calculated to be 2.03 × 10(4), 1.92 × 10(4) and 1.59 × 10(4)L mol(-1) at 298, 304 and 310 K, respectively. Gel electrophoresis results suggested that intercalated BHA molecules did not significantly affect plasmid DNA. Moreover, the concentration profiles and the spectra for the three reaction components (BHA, ctDNA, and BHA-ctDNA complex) of the system by resolving the augmented UV-vis spectral data matrix with the use of multivariate curve resolution-alternating least squares approach provided quantitative data to estimate the progress of BHA-ctDNA interaction. This study is expected to provide new insights into the mechanism of interaction between BHA and ctDNA.
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Lohani N, Narayan Singh H, Agarwal S, Mehrotra R, Rajeswari MR. Interaction of adriamycin with a regulatory element ofhmgb1: spectroscopic and calorimetric approach. J Biomol Struct Dyn 2014; 33:1612-23. [DOI: 10.1080/07391102.2014.967301] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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Zhang H, Wei K, Zhang M, Liu R, Chen Y. Assessing the mechanism of DNA damage induced by lead through direct and indirect interactions. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2014; 136:46-53. [DOI: 10.1016/j.jphotobiol.2014.04.020] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/08/2014] [Revised: 04/22/2014] [Accepted: 04/24/2014] [Indexed: 01/19/2023]
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Agarwal S, Jangir DK, Singh P, Mehrotra R. Spectroscopic analysis of the interaction of lomustine with calf thymus DNA. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2014; 130:281-6. [DOI: 10.1016/j.jphotobiol.2013.11.017] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2013] [Revised: 11/09/2013] [Accepted: 11/16/2013] [Indexed: 11/30/2022]
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Synthesis, chemical characterization, DNA binding and antioxidant studies of ferrocene incorporated selenoure. J Mol Struct 2013. [DOI: 10.1016/j.molstruc.2013.06.004] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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Charak S, Mehrotra R. Structural investigation of idarubicin–DNA interaction: Spectroscopic and molecular docking study. Int J Biol Macromol 2013; 60:213-8. [DOI: 10.1016/j.ijbiomac.2013.05.027] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2012] [Revised: 05/05/2013] [Accepted: 05/25/2013] [Indexed: 10/26/2022]
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Determination of acetamiprid partial-intercalative binding to DNA by use of spectroscopic, chemometrics, and molecular docking techniques. Anal Bioanal Chem 2013; 405:8871-83. [DOI: 10.1007/s00216-013-7294-2] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2013] [Revised: 08/05/2013] [Accepted: 08/06/2013] [Indexed: 01/07/2023]
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Zhang Y, Zhang G, Li Y, Hu Y. Probing the binding of insecticide permethrin to calf thymus DNA by spectroscopic techniques merging with chemometrics method. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2013; 61:2638-2647. [PMID: 23448177 DOI: 10.1021/jf400017f] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The binding of permethrin (PE) with calf thymus DNA (ctDNA) in physiological buffer (pH 7.4) was investigated by ultraviolet-visible (UV-vis) absorption, fluorescence, circular dichroism (CD), and Fourier transform infrared (FT-IR) spectroscopy merging with multivariate curve resolution-alternating least-squares (MCR-ALS) chemometrics approach. The MCR-ALS was applied to resolve the combined spectroscopic data matrix, which was obtained by UV-vis and fluorescence methods. The concentration profiles of PE, ctDNA, and PE-ctDNA complex and their pure spectra were then successfully obtained. The PE molecular was found to be able to intercalate into the base pairs of ctDNA as evidenced by decreases in resonance light-scattering signal and iodide-quenching effect and increase in ctDNA viscosity. The results of FT-IR spectra indicated that PE was prone to bind to G-C base pairs of ctDNA, and the molecular docking studies were used to validate and clarify the specific binding. The observed changes in CD signals revealed that the DNA turned into a more highly wound form of B-conformation. The calculated thermodynamic parameters, enthalpy change (ΔH°) and entropy change (ΔS°), suggested that hydrogen bonds and van der Waals forces played a predominant role in the binding of PE to ctDNA.
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Affiliation(s)
- Yue Zhang
- State Key Laboratory of Food Science and Technology, Nanchang University , No. 235, Nanjing East Road, Nanchang 330047, Jiangxi, China
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Johnson IM, Prakash H, Prathiba J, Raghunathan R, Malathi R. Spectral analysis of naturally occurring methylxanthines (theophylline, theobromine and caffeine) binding with DNA. PLoS One 2012; 7:e50019. [PMID: 23236361 PMCID: PMC3517612 DOI: 10.1371/journal.pone.0050019] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2012] [Accepted: 10/17/2012] [Indexed: 12/13/2022] Open
Abstract
Nucleic acids exist in a dynamic equilibrium with a number of molecules that constantly interact with them and regulate the cellular activities. The inherent nature of the structure and conformational integrity of these macromolecules can lead to altered biological activity through proper targeting of nucleic acids binding ligands or drug molecules. We studied the interaction of naturally occurring methylxanthines such as theophylline, theobromine and caffeine with DNA, using UV absorption and Fourier transform infrared (FTIR) spectroscopic methods, and especially monitored their binding affinity in the presence of Mg(2+) and during helix-coil transitions of DNA by temperature (T(m)) or pH melting profiles. The study indicates that all these molecules effectively bind to DNA in a dose dependent manner. The overall binding constants of DNA-theophylline = 3.5×10(3) M(-1), DNA-theobromine = 1.1×10(3) M(-1), and DNA-Caffeine = 3.8×10(3) M(-1). On the other hand T(m)/pH melting profiles showed 24-35% of enhanced binding activity of methylxanthines during helix-coil transitions of DNA rather than to its native double helical structure. The FTIR analysis divulged that theophylline, theobromine and caffeine interact with all the base pairs of DNA (A-T; G-C) and phosphate group through hydrogen bond (H-bond) interaction. In the presence of Mg(2+), methylxanthines altered the structure of DNA from B to A-family. However, the B-family structure of DNA remained unaltered in DNA-methylxanthines complexes or in the absence of Mg(2+). The spectral analyses indicated the order of binding affinity as "caffeine≥theophylline>theobromine" to the native double helical DNA, and "theophylline≥theobromine>caffeine to the denatured form of DNA and in the presence of divalent metal ions.
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Affiliation(s)
- Irudayam Maria Johnson
- Department of Physiology, University of Tennessee Health Science Center, Memphis, Tennessee, United States of America
- Department of Genetics, Taramani Campus, University of Madras, Chennai, India
- * E-mail: (IMJ); (RM)
| | - Halan Prakash
- National Centre for Ultrafast Processes, Taramani Campus, University of Madras, Chennai, India
| | - Jeyaguru Prathiba
- Department of Genetics, Taramani Campus, University of Madras, Chennai, India
| | | | - Raghunathan Malathi
- Department of Genetics, Taramani Campus, University of Madras, Chennai, India
- * E-mail: (IMJ); (RM)
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