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Oguzcan E, Koksal Z, Taskin-Tok T, Uzgoren-Baran A, Akbay N. Spectroscopic and molecular modeling methods to investigate the interaction between psycho-stimulant modafinil and calf thymus DNA using ethidium bromide as a fluorescence probe. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 270:120787. [PMID: 34990918 DOI: 10.1016/j.saa.2021.120787] [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: 07/14/2021] [Revised: 12/02/2021] [Accepted: 12/17/2021] [Indexed: 06/14/2023]
Abstract
Interaction type of modafinil with calf thymus DNA (ct-DNA) was examined systematically using ethidium bromide (EB) as a fluorescence probe by fluorescence spectroscopy, UV-Vis spectroscopy, viscosity and molecular docking method. The fluorescence quenching mechanism of ct-DNA-EB by modafinil can be combination of static and dynamic quenching. Results of UV-Vis absorption, competitive binding with Hoechst 33258, ionic strength effect studies, viscosity measurements were confirmed that the interaction type of modafinil with ct-DNA was intercalation. According to docking studies R-modafinil showed better interaction with ct-DNA which is consistent with known pharmacological properties of modafinil. The calculated thermodynamic parameters, enthalpy and entropy change, suggested that the driven forces are hydrogen bonding or van der Walls forces. Results of the docking studies were compatible with the experimental results and confirmed the hydrogen bond formation between modafinil and ct-DNA.
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Affiliation(s)
- Esra Oguzcan
- Department of Chemistry, Istanbul Medeniyet University, 34700 Istanbul, Turkey
| | - Zeynep Koksal
- Department of Chemistry, Istanbul Medeniyet University, 34700 Istanbul, Turkey
| | - Tugba Taskin-Tok
- Department of Chemistry, Gaziantep University, 27310 Gaziantep, Turkey; Department of Bioinformatics and Computational Biology, Gaziantep University, 27310 Gaziantep, Turkey
| | - Ayse Uzgoren-Baran
- Department of Chemistry, Hacettepe University, 06800 Beytepe, Ankara, Turkey
| | - Nuriye Akbay
- Department of Chemistry, Istanbul Medeniyet University, 34700 Istanbul, Turkey.
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2
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Mallappa M, Savanur MA, Gowda BG, Reddy MBM, Mulla SI. Unravelling the Molecular Interaction of Pentoxifylline with Calf Thymus DNA: A Multitechnique Approach. ChemistrySelect 2022. [DOI: 10.1002/slct.202103781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- M. Mallappa
- Department of Chemistry Maharani's Science College for Women Bangalore 560 001 India
- School of Chemical Science Reva University Bangalore 560 063 India
| | - Mohammed Azharuddin Savanur
- PG Department of Biochemistry Karnatak University Dharwad 580 003 India
- Department of Biochemistry Indian Institute of Science Bangalore 560 012 India
| | - Babu G. Gowda
- Department of Chemistry Maharani's Science College for Women Bangalore 560 001 India
| | | | - Sikandar I Mulla
- Department of Biochemistry School of Applied Sciences REVA University Bangalore 560 064 India
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3
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Pansare AV, Shedge AA, Sonawale MC, Pansare SV, Mahakal AD, Khairkar SR, Chhatre SY, Kulal DK, Patil VR. Deciphering the sensing of α-amyrin acetate with hs-DNA: a multipronged biological probe. RSC Adv 2022; 12:1238-1243. [PMID: 35425164 PMCID: PMC8978960 DOI: 10.1039/d1ra07195e] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2021] [Accepted: 10/15/2021] [Indexed: 11/22/2022] Open
Abstract
In this study, we focus on the biomimetic development of small molecules and their biological sensing with DNA. The binding of herring sperm deoxyribonucleic acid (hs-DNA) with naturally occurring bioactive small molecule α-amyrin acetate (α-AA), a biomimetic - isolated from the leaves of Ficus (F.) arnottiana is investigated. Collective information from various imaging, spectroscopic and biophysical experiments provides evidence that α-AA is a minor groove sensor of hs-DNA and preferentially binds to the A-T-rich regions. Interactions of different concentrations of small molecule α-AA with hsDNA were evaluated via various analytical techniques such as UV-Vis, circular dichroism (CD) and fluorescence emission spectroscopy. Fluorescence emission spectroscopy results suggest that α-AA decreases the emission level of hsDNA. DNA minor groove sensor Hoechst 33258 and intercalative sensor EB, melting transition analysis (T M) and viscosity analysis clarified that α-AA binds to hs-DNA via a groove site. Biophysical chemistry and molecular docking studies show that hydrophobic interactions play a major role in this binding. The present research deals with a natural product biosynthesis-linked chemical-biology interface sensor as a biological probe for α-AA: hs-DNA.
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Affiliation(s)
- Amol V Pansare
- Composite Group, Swiss Federal Laboratories for Materials Science and Technology-Empa 8600 Dübendorf Switzerland
- 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
| | | | - Shubham V Pansare
- Department of Chemistry, University of Mumbai Santacruz (E) Mumbai 400098 India
| | - Akshay D Mahakal
- Department of Chemistry, University of Mumbai Santacruz (E) Mumbai 400098 India
| | - Shyam R Khairkar
- Department of Chemistry, University of Mumbai Santacruz (E) Mumbai 400098 India
| | - Shraddha Y Chhatre
- National Chemical Laboratory (NCL) Dr. Homi Bhabha Road Pune 411008 India
| | - Dnyaneshwar K Kulal
- 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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4
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Physical–chemical and antimicrobial activity of sulfadiazine sodium salt with β-cyclodextrin supramolecular systems. CHEMICAL PAPERS 2021. [DOI: 10.1007/s11696-021-01626-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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5
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Ovung A, Bhattacharyya J. Sulfonamide drugs: structure, antibacterial property, toxicity, and biophysical interactions. Biophys Rev 2021; 13:259-272. [PMID: 33936318 PMCID: PMC8046889 DOI: 10.1007/s12551-021-00795-9] [Citation(s) in RCA: 114] [Impact Index Per Article: 38.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Accepted: 03/03/2021] [Indexed: 12/11/2022] Open
Abstract
Sulfonamide (or sulphonamide) functional group chemistry (SN) forms the basis of several groups of drug. In vivo sulfonamides exhibit a range of pharmacological activities, such as anti-carbonic anhydrase and anti-t dihydropteroate synthetase allowing them to play a role in treating a diverse range of disease states such as diuresis, hypoglycemia, thyroiditis, inflammation, and glaucoma. Sulfamethazine (SMZ) is a commonly used sulphonamide drug in veterinary medicine that acts as an antibacterial compound to treat livestock diseases such as gastrointestinal and respiratory tract infections. Sulfadiazine (SDZ) is another frequently employed sulphonamide drug that is used in combination with the anti-malarial drug pyrimethamine to treat toxoplasmosis in warm-blooded animals. This study explores the research findings and the work behaviours of SN (SMZ and SDZ) drugs. The areas covered include SN drug structure, SN drug antibacterial activity, SN drug toxicity, and SN environmental toxicity.
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Affiliation(s)
- Aben Ovung
- Department of Chemistry, National Institute of Technology Nagaland, Chumukedima, Dimapur, 797103 India
| | - Jhimli Bhattacharyya
- Department of Chemistry, National Institute of Technology Nagaland, Chumukedima, Dimapur, 797103 India
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6
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Mono- and bis-pyrazolophthalazines: Design, synthesis, cytotoxic activity, DNA/HSA binding and molecular docking studies. Bioorg Med Chem 2021; 30:115944. [PMID: 33352388 DOI: 10.1016/j.bmc.2020.115944] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2020] [Revised: 12/03/2020] [Accepted: 12/07/2020] [Indexed: 01/18/2023]
Abstract
In an attempt to find new potent cytotoxic compounds, several mono- and bis-pyrazolophthalazines 4a-m and 6a-h were synthesized through an efficient, one-pot, three- and pseudo five-component synthetic approach. All derivatives were evaluated for their in vitro cytotoxic activities against four human cancer cell lines of A549, HepG2, MCF-7, and HT29. Compound 4e showed low toxicity against normal cell lines (MRC-5 and MCF 10A, IC50 > 200 µM) and excellent cytotoxic activity against A549 cell line with IC50 value of 1.25 ± 0.19 µM, which was 1.8 times more potent than doxorubicin (IC50 = 2.31 ± 0.13 µM). In addition, compound 6c exhibited remarkable cytotoxic activity against A549 and MCF-7 cell lines (IC50 = 1.35 ± 0.12 and 0.49 ± 0.01 µM, respectively), more than two-fold higher than that of doxorubicin. The binding properties of the best active mono- and bis-pyrazolophthalazine (4e and 6c) with HSA and DNA were fully evaluated by various techniques including UV-Vis absorption, circular dichroism (CD), Zeta potential and dynamic light scattering analyses indicating interaction of the compounds with the secondary structure of HSA and significant change of DNA conformation, presumably via a groove binding mechanism. Additionally, molecular docking and site-selective binding studies confirmed the fundamental interaction of compounds 4e and 6c with base pairs of DNA. Compounds 4e and 6c showed promising features to be considered as potential lead structures for further studies in cancer therapy.
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7
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Kıpçak F, Tok TT, Duyar H, Seferoğlu Z, Gökoğlu E. Synthesis of new morpholine containing 3-amido-9-ethylcarbazole derivative and studies on its biophysical interactions with calf thymus DNA/HSA. J Biomol Struct Dyn 2020; 39:1561-1571. [PMID: 32093548 DOI: 10.1080/07391102.2020.1734093] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
In this work, we presented the synthesis and investigation of binding properties of the new morpholine containing 3-amido-9-ethylcarbazole derivative (CMR) to calf thymus DNA (ctDNA) and human serum albumin (HSA) by fluorescence spectroscopy, UV absorption spectroscopy and molecular docking method. A decrease in Stern-Volmer constants was obtained with increase in temperature; it shows that static quenching mechanism leads to formation of new CMR-DNA/HSA complexes, which have hydrophobic interaction as the predominant role in the binding modes. Also, binding properties of DNA were investigated with competition assays on two probes (EB and H33258) by absorption, ionic strength and iodide ion quenching methods. The results suggested that CMR entered into the minor groove binding on the A-T region of DNA. The spectral data further confirmed by molecular docking which elicited that CMR complexes have similar interaction and conformation trends to each target, DNA and HSA. The experimental and computational results show that CMR has been classified as a promising molecule in drug designing of other carbazole derivatives.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Fulya Kıpçak
- Department of Chemistry, Hacettepe University, Ankara, Turkey
| | - Tugba Taskın Tok
- Department of Chemistry, Gaziantep University, Gaziantep, Turkey.,Department of Bioinformatics and Computational Biology, Gaziantep University, Gaziantep, Turkey
| | - Halil Duyar
- Department of Chemistry, Gebze Technical University, Kocaeli, Turkey.,Department of Chemistry, Gazi University, Ankara, Turkey
| | | | - Elmas Gökoğlu
- Department of Chemistry, Hacettepe University, Ankara, Turkey
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8
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Mohammadnia F, Fatemi MH, Taghizadeh SM. Study on the interaction of anti-inflammatory drugs with human serum albumin using molecular docking, quantitative structure-activity relationship, and fluorescence spectroscopy. LUMINESCENCE 2019; 35:266-273. [PMID: 31766079 DOI: 10.1002/bio.3723] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2019] [Revised: 08/27/2019] [Accepted: 09/30/2019] [Indexed: 11/06/2022]
Abstract
The interaction of 14 anti-inflammatory drugs with human serum albumin (HSA) was investigated using fluorescence quenching, molecular docking studies, and quantitative structure-activity relationship (QSAR) methodology. Binding of anti-inflammatory drugs to HSA plays a fundamental role in their transport, distribution, delivery, and elimination. Binding constants of these drugs to HSA, obtained using the fluorescence quenching method, were within the range 0.01 × 104 M-1 (acetaminophen) to 1881.05 × 104 M-1 (meloxicam). Binding sites and binding constants of these anti-inflammatory drugs were estimated using molecular docking. Inspection of the obtained values for docking score, logKb and Kb , showed that the drugs in this data set have a relatively strong binding constant for HSA. QSAR modelling was applied for binding constants obtained from fluorescence quenching and theoretical molecular descriptors. This modelling led to a linear two-parameter model with a correlation coefficient of 0.95 and adequate robustness. The descriptor results showed the importance of a bonding network and electronegativity as the discriminative structural factors in binding affinity for the HSA molecule.
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Affiliation(s)
- F Mohammadnia
- Laboratory of Chemometrics, Faculty of Chemistry, University of Mazandarn, Babolsar, Iran
| | - M H Fatemi
- Laboratory of Chemometrics, Faculty of Chemistry, University of Mazandarn, Babolsar, Iran
| | - S M Taghizadeh
- Novel Drug Delivery Systems, Faculty of Science, Iran Polymer and Petrochemical Institute, Tehran, Islamic Republic of Iran
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9
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Pashah Z, Hekmat A, Hesami Tackallou S. Structural effects of Diamond nanoparticles and Paclitaxel combination on calf thymus DNA. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2019; 38:249-278. [PMID: 30922151 DOI: 10.1080/15257770.2018.1515440] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The combination effects of nanodiamonds (NDs) and Paclitaxel (PTX) on the DNA structure were examined. The UV-Visible, steady-state and time-resolved fluorescence spectroscopy, CD, viscosity and zeta potential results showed that PTX + NDs could form a complex via groove binding mechanism. The values of binding constants, ΔG° and ΔH° and ΔS° values showed that PTX + NDs interact strongly with DNA and the hydrophobic force plays main role in this interaction. The ΔG25ο and Tm study indicated the instability of DNA in presence of PTX + NDs. This study demonstrated that NDs could enhance the effect of PTX on DNA structure as well as its affinity and binding to DNA.
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Affiliation(s)
- Zahra Pashah
- a Department of Biology , Science and Research Branch, Islamic Azad University , Tehran , Iran
| | - Azadeh Hekmat
- a Department of Biology , Science and Research Branch, Islamic Azad University , Tehran , Iran
| | - Saeed Hesami Tackallou
- b Department of Biology , Central Tehran Branch, Islamic Azad University , Tehran , Iran
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10
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Shi L, Jiang YY, Jiang T, Yin W, Yang JP, Cao ML, Fang YQ, Liu HY. Water-soluble Manganese and Iron Mesotetrakis(carboxyl)porphyrin: DNA Binding, Oxidative Cleavage, and Cytotoxic Activities. Molecules 2017; 22:molecules22071084. [PMID: 28661455 PMCID: PMC6152243 DOI: 10.3390/molecules22071084] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2017] [Revised: 06/26/2017] [Accepted: 06/26/2017] [Indexed: 02/06/2023] Open
Abstract
Two new water-soluble metal carboxyl porphyrins, manganese (III) meso-tetrakis (carboxyl) porphyrin and iron (III) meso-tetrakis (carboxyl) porphyrin, were synthesized and characterized. Their interactions with ct-DNA were investigated by UV-Vis titration, fluorescence spectra, viscosity measurement and CD spectra. The results showed they can strongly bind to ct-DNA via outside binding mode. Electrophoresis experiments revealed that both complexes can cleave pBR322 DNA efficiently in the presence of hydrogen peroxide, albeit 2-Mn exhibited a little higher efficiency. The inhibitor tests suggest the oxidative DNA cleavage by these two complexes may involve hydroxyl radical active intermediates. Notably, 2-Mn exhibited considerable photocytotoxicity against Hep G2 cell via triggering a significant generation of ROS and causing disruption of MMP after irradiation.
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Affiliation(s)
- Lei Shi
- Department of Chemistry, Guangdong University of Education, Guangzhou 510303, China.
- Engineering Technology Development Center of Advanced Materials & Energy Saving and Emission Reduction in Guangdong Colleges and Universities, Guangzhou 510303, China.
| | - Yi-Yu Jiang
- Department of Chemistry, South China University of Technology, Guangzhou 510641, China.
| | - Tao Jiang
- Department of Chemistry, Guangdong University of Education, Guangzhou 510303, China.
| | - Wei Yin
- Department of Chemistry, Guangdong University of Education, Guangzhou 510303, China.
- Engineering Technology Development Center of Advanced Materials & Energy Saving and Emission Reduction in Guangdong Colleges and Universities, Guangzhou 510303, China.
| | - Jian-Ping Yang
- Department of Chemistry, Guangdong University of Education, Guangzhou 510303, China.
- Engineering Technology Development Center of Advanced Materials & Energy Saving and Emission Reduction in Guangdong Colleges and Universities, Guangzhou 510303, China.
| | - Man-Li Cao
- Department of Chemistry, Guangdong University of Education, Guangzhou 510303, China.
- Engineering Technology Development Center of Advanced Materials & Energy Saving and Emission Reduction in Guangdong Colleges and Universities, Guangzhou 510303, China.
| | - Yu-Qi Fang
- Department of Chemistry, Guangdong University of Education, Guangzhou 510303, China.
| | - Hai-Yang Liu
- Department of Chemistry, South China University of Technology, Guangzhou 510641, China.
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11
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Yang H, Tang P, Tang B, Huang Y, He J, Li S, Li H. Studies of DNA-binding properties of lafutidine as adjuvant anticancer agent to calf thymus DNA using multi-spectroscopic approaches, NMR relaxation data, molecular docking and dynamical simulation. Int J Biol Macromol 2017; 99:79-87. [DOI: 10.1016/j.ijbiomac.2017.02.062] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2016] [Revised: 02/15/2017] [Accepted: 02/16/2017] [Indexed: 02/01/2023]
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12
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Yue Y, Sun Y, Dong Q, Liu R, Yan X, Zhang Y, Liu J. Interaction of human serum albumin with novel imidazole derivatives studied by spectroscopy and molecular docking. LUMINESCENCE 2015; 31:671-81. [DOI: 10.1002/bio.3010] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2015] [Revised: 07/19/2015] [Accepted: 07/20/2015] [Indexed: 01/07/2023]
Affiliation(s)
- Yuanyuan Yue
- Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals; Henan Normal University; Xinxiang People's Republic of China
| | - Yangyang Sun
- Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals; Henan Normal University; Xinxiang People's Republic of China
| | - Qiao Dong
- Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals; Henan Normal University; Xinxiang People's Republic of China
| | - Ren Liu
- Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals; Henan Normal University; Xinxiang People's Republic of China
| | - Xuyang Yan
- Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals; Henan Normal University; Xinxiang People's Republic of China
| | - Yajie Zhang
- Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals; Henan Normal University; Xinxiang People's Republic of China
| | - Jianming Liu
- Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals; Henan Normal University; Xinxiang People's Republic of China
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Ramana MMV, Betkar R, Nimkar A, Ranade P, Mundhe B, Pardeshi S. In vitro DNA binding studies of antiretroviral drug nelfinavir using ethidium bromide as fluorescence probe. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2015; 151:194-200. [PMID: 26310356 DOI: 10.1016/j.jphotobiol.2015.08.012] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2015] [Revised: 07/23/2015] [Accepted: 08/11/2015] [Indexed: 11/28/2022]
Abstract
Understanding the interaction of small molecules with DNA has become an active research area at the interface between biology and chemistry. In the present work, we investigated the mode of interaction of nelfinavir (NFV) with herring sperm DNA (hs DNA) under physiological conditions using various biophysical techniques. Analysis of UV-absorption and fluorescence spectra indicates the formation of complex between NFV and hs DNA. According to the fluorescence results, the binding constant (K) between NFV and hs DNA was found to be 3.30 × 10(4)LM(-1). The calculated thermodynamic parameters (ΔH° and ΔS°) suggested that hydrogen bonding plays a major role in binding between them. Phosphate group binding studies revealed that there was no electrostatic interactions occurred between NFV and hs DNA. Circular dichroism (CD) and DNA melting curve were employed to measure the conformational change of hs DNA in the presence of NFV, which verified the minor groove binding mode. These results were further supported by viscosity measurements and competitive displacement assay study using Hoechst 33258. According to the sequence specificity experiments, NFV binds to A-T rich region of hs DNA.
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Affiliation(s)
- M M V Ramana
- Department of Chemistry, University of Mumbai, Vidyanagari, Santacruz (E), Mumbai 400 098, India.
| | - Rahul Betkar
- Department of Chemistry, University of Mumbai, Vidyanagari, Santacruz (E), Mumbai 400 098, India
| | - Amey Nimkar
- Department of Chemistry, University of Mumbai, Vidyanagari, Santacruz (E), Mumbai 400 098, India
| | - Prasanna Ranade
- Department of Chemistry, University of Mumbai, Vidyanagari, Santacruz (E), Mumbai 400 098, India
| | - Balaji Mundhe
- Department of Chemistry, University of Mumbai, Vidyanagari, Santacruz (E), Mumbai 400 098, India
| | - Sachin Pardeshi
- Department of Chemistry, University of Mumbai, Vidyanagari, Santacruz (E), Mumbai 400 098, India
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14
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Mi R, Tu B, Bai XT, Chen J, Ouyang Y, Hu YJ. Binding properties of palmatine to DNA: spectroscopic and molecular modeling investigations. LUMINESCENCE 2015; 30:1344-51. [PMID: 25829078 DOI: 10.1002/bio.2904] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2015] [Revised: 02/21/2015] [Accepted: 02/22/2015] [Indexed: 12/20/2022]
Abstract
Palmatine, an isoquinoline alkaloid, is an important medicinal herbal extract with diverse pharmacological and biological properties. In this work, spectroscopic and molecular modeling approaches were employed to reveal the interaction between palmatine and DNA isolated from herring sperm. The absorption spectra and iodide quenching results indicated that groove binding was the main binding mode of palmatine to DNA. Fluorescence studies indicated that the binding constant (K) of palmatine and DNA was ~ 10(4)L·mol(-1). The associated thermodynamic parameters, ΔG, ΔH, and ΔS, indicated that hydrogen bonds and van der Waals forces played major roles in the interaction. The effects of chemical denaturant, thermal denaturation and pH on the interaction were investigated and provided further support for the groove binding mode. In addition to experimental approaches, molecular modeling was conducted to verify binding pattern of palmatine-DNA.
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Affiliation(s)
- Ran Mi
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Bao Tu
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Xiao-Ting Bai
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Jun Chen
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Yu Ouyang
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Yan-Jun Hu
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi, 435002, People's Republic of China
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15
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Synthesis, Characterization, DNA Interaction, and Antitumor Activities of La (III) Complex with Schiff Base Ligand Derived from Kaempferol and Diethylenetriamine. Bioinorg Chem Appl 2014; 2014:354138. [PMID: 25371657 PMCID: PMC4209760 DOI: 10.1155/2014/354138] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2014] [Revised: 08/02/2014] [Accepted: 08/04/2014] [Indexed: 11/18/2022] Open
Abstract
A novel La (III) complex, [LaL(H2O)3]NO3·3H2O, with Schiff base ligand L derived from kaempferol and diethylenetriamine, has been synthesized and characterized by elemental analysis, IR, UV-visible, 1H NMR, thermogravimetric analysis, and molar conductance measurements. The fluorescence spectra, circular dichroism spectra, and viscosity measurements and gel electrophoresis experiments indicated that the ligand L and La (III) complex could bind to CT-DNA presumably via intercalative mode and the La (III) complex showed a stronger ability to bind and cleave DNA than the ligand L alone. The binding constants (Kb) were evaluated from fluorescence data and the values ranged from 0.454 to 0.659 × 105 L mol−1 and 1.71 to 17.3 × 105 L mol−1 for the ligand L and La (III) complex, respectively, in the temperature range of 298–310 K. It was also found that the fluorescence quenching mechanism of EB-DNA by ligand L and La (III) complex was a static quenching process. In comparison to free ligand L, La (III) complex exhibited enhanced cytotoxic activities against tested tumor cell lines HL-60 and HepG-2, which may correlate with the enhanced DNA binding and cleaving abilities of the La (III) complex.
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16
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Fluorescence Interaction and Determination of Sulfathiazole with Trypsin. J Fluoresc 2014; 24:1439-45. [DOI: 10.1007/s10895-014-1427-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2014] [Accepted: 07/07/2014] [Indexed: 10/24/2022]
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17
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Wang Q, He J, Yan J, Wu D, Li H. Spectroscopy and docking simulations of the interaction between lochnericine and bovine serum albumin. LUMINESCENCE 2014; 30:240-6. [DOI: 10.1002/bio.2724] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2014] [Revised: 05/16/2014] [Accepted: 05/22/2014] [Indexed: 11/12/2022]
Affiliation(s)
- Qing Wang
- College of Chemical Engineering; Sichuan University; Chengdu 610065 People's Republic of China
| | - Jiawei He
- College of Chemical Engineering; Sichuan University; Chengdu 610065 People's Republic of China
| | - Jin Yan
- College of Chemical Engineering; Sichuan University; Chengdu 610065 People's Republic of China
| | - Di Wu
- College of Chemical Engineering; Sichuan University; Chengdu 610065 People's Republic of China
| | - Hui Li
- College of Chemical Engineering; Sichuan University; Chengdu 610065 People's Republic of China
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Zhu J, Chen L, Dong Y, Li J, Liu X. Spectroscopic and molecular modeling methods to investigate the interaction between 5-Hydroxymethyl-2-furfural and calf thymus DNA using ethidium bromide as a probe. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2014; 124:78-83. [PMID: 24463243 DOI: 10.1016/j.saa.2013.12.091] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2013] [Revised: 12/20/2013] [Accepted: 12/23/2013] [Indexed: 06/03/2023]
Abstract
In this work, the interaction of 5-Hydroxymethyl-2-furfural (5-HMF) with calf thymus DNA (ctDNA) under simulated physiological conditions (Tris-HCl buffer of pH 7.40), was explored by UV absorption spectroscopy, fluorescence spectroscopy and molecular modeling method, using ethidium bromide (EB) as a fluorescence probe of DNA. The fluorescence quenching mechanism of EB-ctDNA by 5-HMF was confirmed to be a static quenching, which derived from the formation of a new complex. The binding constants of 5-HMF with DNA in the presence of EB were calculated to be 2.17×10(3), 4.24×10(3) and 6.95×10(3) L mol(-1) at 300, 305 and 310 K, respectively. The calculated thermodynamic parameters, enthalpy change ΔH and entropy change ΔS, suggested that both hydrophobic interactions and hydrogen bonds played a predominant role in the binding of 5-HMF to DNA. According to the UV absorption spectroscopy and melting temperature (Tm) curve results, the binding mode of 5-HMF with DNA was indicative of a non-intercalative binding, which was supposed to be a groove binding. The molecular modeling results showed that 5-HMF could bind into the hydrophobic region of ctDNA and supported the conclusions obtained from the above experiments.
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Affiliation(s)
- Jinhua Zhu
- Institute of Environmental and Analytical Sciences, College of Chemistry and Chemical Engineering, Henan University, Kaifeng, Henan 475004, China.
| | - Lanlan Chen
- Institute of Environmental and Analytical Sciences, College of Chemistry and Chemical Engineering, Henan University, Kaifeng, Henan 475004, China
| | - Yingying Dong
- Key Lab of Natural Drug and Immune Engineering of Henan Province, Kaifeng, Henan 475004, China
| | - Jiazhong Li
- School of Pharmacy, Lanzhou University, Donggang West Road 199, 730000 Lanzhou, China
| | - Xiuhua Liu
- Institute of Environmental and Analytical Sciences, College of Chemistry and Chemical Engineering, Henan University, Kaifeng, Henan 475004, China; Key Lab of Natural Drug and Immune Engineering of Henan Province, Kaifeng, Henan 475004, China
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Interaction of Sulfadiazine with Model Water Soluble Proteins: A Combined Fluorescence Spectroscopic and Molecular Modeling Approach. J Fluoresc 2013; 24:579-88. [DOI: 10.1007/s10895-013-1330-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2013] [Accepted: 11/20/2013] [Indexed: 10/26/2022]
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Spectroscopic study one thiosemicarbazone derivative with ctDNA using ethidium bromide as a fluorescence probe. Int J Biol Macromol 2013; 60:288-94. [DOI: 10.1016/j.ijbiomac.2013.06.002] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2013] [Revised: 06/02/2013] [Accepted: 06/04/2013] [Indexed: 11/22/2022]
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