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Durga Priyadharshini R, Jeyashree R, Preethi R, Vennila KN, Elango KP. Intercalation of anticancer drug Palbociclib with calf-thymus DNA: new insights from molecular spectroscopic, molecular dynamic simulations and cleavage studies. J Biomol Struct Dyn 2024; 42:1932-1939. [PMID: 37184154 DOI: 10.1080/07391102.2023.2212787] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Accepted: 04/08/2023] [Indexed: 05/16/2023]
Abstract
The interaction between the anti-cancer drug Palbociclib (PAL) and calf-thymus DNA (CT-DNA) was investigated using various biophysical techniques in a physiological buffer (pH 7.4). It was found that PAL intercalated into the base pairs of CT-DNA as evidenced from the results of UV-Vis, fluorescence, circular dichroism (CD), competitive binding assay with ethidium bromide (EB) and Hoechst 33258, KI quenching study, the effect of denaturing agent and viscosity measurements. The magnitude of binding constants (106 M-1) at different temperatures suggested strong binding between PAL and CT-DNA during complexation. The observed ΔHo > 0 and ΔSo > 0 indicated that the binding process is primarily driven by hydrophobic interactions. Molecular docking studies indicated partial intercalation of pyridopyrimidine ring between the base pairs of DNA. Free energy surface (FES) analysis derived from metadynamics simulation studies revealed the PAL-induced cleavage of DNA, which was confirmed by gel electrophoresis experiments.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- R Durga Priyadharshini
- Department of Chemistry, Gandhigram Rural Institute - Deemed to be University, Gandhigram, India
| | - R Jeyashree
- Centre for Advanced Study in Crystallography and Biophysics, University of Madras, Chennai, India
| | - R Preethi
- Centre for Advanced Study in Crystallography and Biophysics, University of Madras, Chennai, India
| | - K N Vennila
- Department of Chemistry, Gandhigram Rural Institute - Deemed to be University, Gandhigram, India
| | - Kuppanagounder P Elango
- Department of Chemistry, Gandhigram Rural Institute - Deemed to be University, Gandhigram, India
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2
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Das H, Paul L, Chowdhury S, Goswami R, Das S. New insights into self-structure induction in poly (rA) by Quinacrine through non-classical intercalation: Spectroscopic and theoretical perspectives. Int J Biol Macromol 2023; 251:126189. [PMID: 37586624 DOI: 10.1016/j.ijbiomac.2023.126189] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2023] [Revised: 07/24/2023] [Accepted: 07/31/2023] [Indexed: 08/18/2023]
Abstract
Self-structure induction in a single stranded polyriboadenylic acid [poly (rA)] is an auspicious physiological phenomenon which switches off protein production in tumor cells. In the present study, the self-structure induction process in poly (rA) moiety was thoroughly investigated using various steady state and time resolved techniques. Optical melting pattern directly evidenced the formation of self-structured assembly in single stranded poly (rA) upon complexation with quinacrine. Further, UV-absorption spectroscopic studies revealed that quinacrine binds to poly (rA) in co-operative fashion and the indication of intercalative mode of binding first came out with the involvement of around two base pairs of poly (rA) in the complexation. Experimental observations established the unconventional or non-classical intercalation of quinacrine molecule inside self-structured duplex poly (rA) moiety. This complexation was accompanied with negative enthalpy change and positive entropy change; suggesting strong van der Waals and the H-bonding interactions as the major governing forces in the complexation. Moreover, ionic strength dependent binding study established that the non-polyelectrolytic forces were the dominating forces. Further, the photo physical behavior of QN was authenticated using time dependent density functional theory (TDDFT) where both the ground and excited states were exploited.
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Affiliation(s)
- Himal Das
- Biophysical Chemistry Laboratory, Physical Chemistry Section, Department of Chemistry, Jadavpur University, Raja S. C. Mullick Road, Jadavpur, Kolkata 700 032, India
| | - Lopa Paul
- Biophysical Chemistry Laboratory, Physical Chemistry Section, Department of Chemistry, Jadavpur University, Raja S. C. Mullick Road, Jadavpur, Kolkata 700 032, India
| | - Susmita Chowdhury
- Biophysical Chemistry Laboratory, Physical Chemistry Section, Department of Chemistry, Jadavpur University, Raja S. C. Mullick Road, Jadavpur, Kolkata 700 032, India
| | - Rapti Goswami
- Biophysical Chemistry Laboratory, Physical Chemistry Section, Department of Chemistry, Jadavpur University, Raja S. C. Mullick Road, Jadavpur, Kolkata 700 032, India
| | - Suman Das
- Biophysical Chemistry Laboratory, Physical Chemistry Section, Department of Chemistry, Jadavpur University, Raja S. C. Mullick Road, Jadavpur, Kolkata 700 032, India.
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Bag S, Ghosal S, Karmakar S, Pramanik G, Bhowmik S. Uncovering the Contrasting Binding Behavior of Plant Flavonoids Fisetin and Morin Having Subsidiary Hydroxyl Groups (-OH) with HRAS1 and HRAS2 i-Motif DNA Structures: Decoding the Structural Alterations and Positional Influences. ACS OMEGA 2023; 8:30315-30329. [PMID: 37636929 PMCID: PMC10448647 DOI: 10.1021/acsomega.3c03105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Accepted: 07/18/2023] [Indexed: 08/29/2023]
Abstract
Research on the interactions of naturally existing flavonoids with various noncanonical DNA such as i-motif (IM) DNA structures is helpful in comprehending the molecular basis of binding mode as well as providing future direction for the application and invention of novel effective therapeutic drugs. IM DNA structures have been identified as prospective anticancer therapeutic targets, and flavonoids are smaller molecules with a variety of health-promoting attributes, including anticancer activities. The extensive investigation comprising a series of techniques reveals the contrasting mode of the binding behavior of fisetin and morin with various IM DNA structures. We have discovered that structural alterations of hydroxyl groups located at different places of aromatic rings influence flavonoid's reactivity. This minor structural alteration appears to be critical for fisetin and morin's capacity to interact differentially with HRAS1 and HRAS2 IM DNA. Hence, fisetin appears to be an efficient ligand for HRAS1 and morin is considered to be an efficient ligand for HRAS2 IM DNA. This novel exploration opens up the possibility of employing the strategy for regulation of gene expression in cancerous cells. Our finding also reveals the flavonoid-mediated specific interaction with IM DNA while pointing toward tangible strategies for drug discovery and other essential cellular functions.
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Affiliation(s)
- Sagar Bag
- Department
of Biophysics, Molecular Biology and Bioinformatics, University of Calcutta, 92, A.P.C. Road, Kolkata 700009, India
| | - Souvik Ghosal
- Mahatma
Gandhi Medical Advanced Research Institute (MGMARI), Sri Balaji Vidyapeeth
(Deemed to be University), Pondy−Cuddalore Main Road, Pillaiyarkuppam, Pondicherry 607402, India
| | - Sudip Karmakar
- UGC−DAE
Consortium for Scientific Research, Kolkata Centre, Sector III, LB-8, Bidhan Nagar, Kolkata 700 106, India
| | - Goutam Pramanik
- UGC−DAE
Consortium for Scientific Research, Kolkata Centre, Sector III, LB-8, Bidhan Nagar, Kolkata 700 106, India
| | - Sudipta Bhowmik
- Department
of Biophysics, Molecular Biology and Bioinformatics, University of Calcutta, 92, A.P.C. Road, Kolkata 700009, India
- Mahatma
Gandhi Medical Advanced Research Institute (MGMARI), Sri Balaji Vidyapeeth
(Deemed to be University), Pondy−Cuddalore Main Road, Pillaiyarkuppam, Pondicherry 607402, India
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4
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Peng X, Liu X, Tan L. Interaction of ruthenium(Ⅱ) polypyridyl complexes [Ru(phen)2(L)]2+ (L = PIP, p-HPIP and m-HPIP) with RNA poly(A)•poly(U): each complex unexpectedly exhibiting a destabilizing effect on RNA. Bioorg Chem 2023; 135:106523. [PMID: 37027949 DOI: 10.1016/j.bioorg.2023.106523] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 03/28/2023] [Accepted: 03/31/2023] [Indexed: 04/05/2023]
Abstract
To further explore the binding properties of Ru(Ⅱ) polypyridine complexes with RNA, three Ru(Ⅱ) complexes [Ru(phen)2(PIP)]2+ (Ru1), [Ru(phen)2(p-HPIP)]2+ (Ru2), and [Ru(phen)2(m- HPIP)]2+ (Ru3) have been synthesized and characterized in this work. The binding properties of three Ru(Ⅱ) complexes with RNA duplex poly(A)•poly(U) have been investigated by spectral and viscosity experiments. These studies all support that these three Ru(Ⅱ) complexes bind to poly RNA duplex poly(A)•poly(U) by intercalation, and Ru1 without substituents has a stronger binding affinity for poly(A)•poly(U). Interestingly, the thermal melting experiments show that these three Ru(Ⅱ) complexes all destabilize RNA duplex poly(A)•poly(U), and the destabilizing effect can be explained by the conformational changes of duplex structure induced by intercalating agents. To the best of our knowledge, this work report for the first time a small molecule capable of destabilizing an RNA duplex, which reflects that the substitution effect of intercalated ligands has an important influence on the affinity of Ru(Ⅱ) complexes to RNA duplex, and that not all Ru(Ⅱ) complexes show thermal stability effects on an RNA duplex.
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Affiliation(s)
- Xing Peng
- College of Chemistry, Xiangtan University, Xiangtan 411105, Peoples Republic of China
| | - Xiaohua Liu
- Academic Affairs Office, Xiangtan University, Xiangtan 411105, Peoples Republic of China
| | - Lifeng Tan
- Key Lab of Environment-friendly Chemistry and Application in Ministry of Education, XiangtanUniversity, Xiangtan 411105, Peoples Republic of China; Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Xiangtan University, Xiangtan 411105, Peoples Republic of China.
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5
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Song X, Li W, Xu J, Ji P, Li Y, Feng G, Wang B. Novel Aggregation-Induced Emission Fluorescent Molecule for Platinum(IV) Ion-Selective Recognition and Imaging of Controlled Release in Cells. Anal Chem 2023; 95:3883-3891. [PMID: 36745860 DOI: 10.1021/acs.analchem.2c05650] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
The loading, delivery, and release of Pt(IV) precursors in living organisms are important aspects of exploring the development of platinum drugs. In recent years, the biological application of the fluorescent sensors to platinum drugs has been insufficient to meet the study of Pt(IV) precursors. It is urgent to design and develop a biocompatible, multifunctional fluorescent sensor for the study of loading, transport, and release of Pt(IV) ions. Herein, we report a fluorescent molecule (E)-6-(diethylamino)-N'-(4-(diphenylamino) benzylidene)-2-oxo-2H-chromene-3 carbohydrazide (CHTPA). CHTPA has good sensitivity and selectivity to Pt(IV) when the water content is 5%, and significant increase of the fluorescence emission intensity of CHTPA is observed with Pt(IV) concentration. The sensing mechanism is attributed to photo-induced electron transfer, which is verified by X-ray absorption near edge spectroscopy spectra, UV-vis absorption spectroscopy, 1H NMR spectra, and Fourier transform infrared spectra. Furthermore, the CHTPA-Pt(IV) complex is able to release Pt(IV) in aqueous solution, and the green fluorescence of CHTPA based on the aggregation-induced emission effect can be observed. Inspired by these, the amphiphilic block copolymer poly(ethyloxide)-block-polystyrene (PEO-b-PS) is used to prepare the nonconjugated polymer dots (Pdots). The experimental results show that Pdots can effectively slow down the release speed of Pt(IV) in aqueous solution and it has a great monodispersity in aqueous solution. Meanwhile, Pdots show low cytotoxicity, and this is favorable for intracellular applications. The investigation of cellular imaging indicates that these Pdots can act as a carrier to deliver Pt(IV) into MCF-7 cells for visualized delivery and sustained release of platinum(IV) ions. Therefore, this study provides a new avenue to design and develop a biocompatible multifunctional fluorescent sensor for studying the loading, delivery, and release of Pt(IV) in cells.
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Affiliation(s)
- Xuerong Song
- Department of Analytical Chemistry, College of Chemistry, Jilin University, Changchun130021, China
| | - Wanmeng Li
- Department of Analytical Chemistry, College of Chemistry, Jilin University, Changchun130021, China
| | - Jianing Xu
- Department of Analytical Chemistry, College of Chemistry, Jilin University, Changchun130021, China
| | - Peng Ji
- Department of Analytical Chemistry, College of Chemistry, Jilin University, Changchun130021, China
| | - Yanchun Li
- Institute of Theoretical Chemistry, College of Chemistry, Jilin University, Changchun, Jilin130023, China
| | - Guodong Feng
- Department of Analytical Chemistry, College of Chemistry, Jilin University, Changchun130021, China
| | - Bo Wang
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun, Jilin130012, China
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Tian Z, Ding T, Niu H, Mu Y, Xu N, Kong M, Zhang Y, Tian Z, Wu Y, Wang C. The substituent group effect: investigation of naphthalimide-spermidine conjugates binding to DNA by spectroscopy, molecular docking and dynamics. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133702] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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7
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Wang Y, Niu H, Wang K, Wang G, Liu J, James TD, Zhang H. mtDNA-Specific Ultrasensitive Near-Infrared Fluorescent Probe Enables the Differentiation of Healthy and Apoptotic Cells. Anal Chem 2022; 94:7510-7519. [PMID: 35588727 DOI: 10.1021/acs.analchem.1c05582] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Mitochondrial DNA (mtDNA) as a class of important genetic material is easily damaged, which can result in a series of metabolic diseases, hereditary disease, and so on. mtDNA is an ultrasensitive indicator for the health of living cells due to the extremely short physiological response time of mtDNA toward damage (ca. 5.0 min). Therefore, the development of specific ultrasensitive fluorescent probes that can in real-time monitor mtDNA in vivo are of great value. With this research, we developed a near-infrared twisted intramolecular charge transfer (TICT) fluorescent probe YON. YON is a thread-like molecule with an A-π-D-π-A structure, based on the dicyanoisophorone fluorophore. The molecular design of YON enabled the specific binding with dsDNA (binding constant (K) = 8.5 × 105 M-1) within 1.3 min. And the appropriate water-oil amphiphilicity makes YON significantly accumulate in the mitochondria, enabling the specific binding to mtDNA. The fluorescence intensity at 640 nm of YON enhanced linearly with increasing concentrations of mtDNA. Dicyanoisophorone as the strong electron-withdrawing group that was introduced into both ends of the molecule resulted in YON being a classic quadrupole, so it could ultrasensitively detect trace mtDNA. The minimum detection limit was 71 ng/mL. Moreover, the large Stokes shift (λex = 435 nm, λem = 640 nm) makes YON suitable for "interference-free" imaging of mtDNA. Therefore, YON was used to monitor trace changes of mtDNA in living cells; more importantly, it could be used to evaluate the health of cells by monitoring microchanges of mtDNA, enabling the ultrasensitive evaluation of apoptosis.
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Affiliation(s)
- Yafu Wang
- Key Laboratory of Green Chemical Media and Reactions, Ministry of Education; Collaborative Innovation Centre of Henan Province for Green Manufacturing of Fine Chemicals; Henan Key Laboratory of Organic Functional Molecule and Drug Innovation; School of Chemistry and Chemical Engineering, Henan Normal University, Xinxiang, Henan 453007, P. R. China
| | - Huiyu Niu
- Key Laboratory of Green Chemical Media and Reactions, Ministry of Education; Collaborative Innovation Centre of Henan Province for Green Manufacturing of Fine Chemicals; Henan Key Laboratory of Organic Functional Molecule and Drug Innovation; School of Chemistry and Chemical Engineering, Henan Normal University, Xinxiang, Henan 453007, P. R. China
| | - Kui Wang
- Key Laboratory of Green Chemical Media and Reactions, Ministry of Education; Collaborative Innovation Centre of Henan Province for Green Manufacturing of Fine Chemicals; Henan Key Laboratory of Organic Functional Molecule and Drug Innovation; School of Chemistry and Chemical Engineering, Henan Normal University, Xinxiang, Henan 453007, P. R. China
| | - Ge Wang
- Xinxiang Medical University, Xinxiang 453000, P. R. China
| | - Junwei Liu
- Key Laboratory of Green Chemical Media and Reactions, Ministry of Education; Collaborative Innovation Centre of Henan Province for Green Manufacturing of Fine Chemicals; Henan Key Laboratory of Organic Functional Molecule and Drug Innovation; School of Chemistry and Chemical Engineering, Henan Normal University, Xinxiang, Henan 453007, P. R. China
| | - Tony D James
- Key Laboratory of Green Chemical Media and Reactions, Ministry of Education; Collaborative Innovation Centre of Henan Province for Green Manufacturing of Fine Chemicals; Henan Key Laboratory of Organic Functional Molecule and Drug Innovation; School of Chemistry and Chemical Engineering, Henan Normal University, Xinxiang, Henan 453007, P. R. China.,Department of Chemistry, University of Bath, Bath BA2 7AY, U.K
| | - Hua Zhang
- Key Laboratory of Green Chemical Media and Reactions, Ministry of Education; Collaborative Innovation Centre of Henan Province for Green Manufacturing of Fine Chemicals; Henan Key Laboratory of Organic Functional Molecule and Drug Innovation; School of Chemistry and Chemical Engineering, Henan Normal University, Xinxiang, Henan 453007, P. R. China
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Ercin E, Kecel-Gunduz S, Gok B, Aydin T, Budama-Kilinc Y, Kartal M. Laurus nobilis L. Essential Oil-Loaded PLGA as a Nanoformulation Candidate for Cancer Treatment. Molecules 2022; 27:molecules27061899. [PMID: 35335262 PMCID: PMC8951774 DOI: 10.3390/molecules27061899] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Revised: 03/10/2022] [Accepted: 03/10/2022] [Indexed: 12/18/2022] Open
Abstract
The aim of this study was to obtain essential oil (LNEO) from the Laurus nobilis L. plant, and to prepare LNEO-loaded poly lactic-co-glycolic acid (PLGA) nanoparticles (NPs) as an approach in cancer treatment. The components of the obtained LNEO were analyzed using GC-MS. The LNEO-NPs were synthesized by the single-emulsion method. The LNEO-NPs were characterized using UV-Vis spectrometry, Dynamic Light Scattering (DLS), Scanning Electron Microscopy (SEM), and a DNA binding assay, which was performed via the UV-Vis titration method. According to the results, the LNEO-NPs had a 211.4 ± 4.031 nm average particle size, 0.068 ± 0.016 PdI, and −7.87 ± 1.15 mV zeta potential. The encapsulation efficiency and loading capacity were calculated as 59.25% and 25.65%, respectively, and the in vitro drug release study showed an LNEO release of 93.97 ± 3.78% over the 72 h period. Moreover, the LNEO was intercalatively bound to CT-DNA. In addition, the mechanism of action of LNEO on a dual PI3K/mTOR inhibitor was predicted, and its antiproliferative activity and mechanism were determined using molecular docking analysis. It was concluded that LNEO-loaded PLGA NPs may be used for cancer treatment as a novel phytotherapeutic agent-based controlled-release system.
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Affiliation(s)
- Esin Ercin
- Department of Pharmacognosy and Natural Product Chemistry, Institute of Health Sciences, Bezmialem Vakıf University, Istanbul 34093, Turkey; (E.E.); (T.A.)
| | - Serda Kecel-Gunduz
- Department of Physics, Faculty of Science, Istanbul University, Istanbul 34134, Turkey;
| | - Bahar Gok
- Department of Bioengineering, Graduate School of Natural and Applied Science, Yildiz Technical University, Istanbul 34220, Turkey;
| | - Tugba Aydin
- Department of Pharmacognosy and Natural Product Chemistry, Institute of Health Sciences, Bezmialem Vakıf University, Istanbul 34093, Turkey; (E.E.); (T.A.)
- Department of Pharmacognosy, Faculty of Pharmacy, Istinye University, Istanbul 34010, Turkey
| | - Yasemin Budama-Kilinc
- Department of Bioengineering, Faculty of Chemical and Metallurgical Engineering, Yildiz Technical University, Istanbul 34220, Turkey
- Correspondence: or ; Tel.: +90-212-383-46-47
| | - Murat Kartal
- Department of Pharmacognosy, Faculty of Pharmacy, Bezmialem Vakif University, Istanbul 34093, Turkey;
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Preferential interaction with c-MYC quadruplex DNA mediates the cytotoxic activity of a nitro-flavone derivative in A375 cells. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY 2021. [DOI: 10.1016/j.jpap.2021.100033] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
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10
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Comparative studies on the binding interaction of two chiral Ru(II) polypyridyl complexes with triple- and double-helical forms of RNA. J Inorg Biochem 2020; 214:111301. [PMID: 33166867 DOI: 10.1016/j.jinorgbio.2020.111301] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Revised: 10/12/2020] [Accepted: 10/25/2020] [Indexed: 12/27/2022]
Abstract
Two chiral Ru(II) polypyridyl complexes, Δ-[Ru(bpy)2(6-F-dppz)]2+ (Δ-1; bpy = 2,2'-bipyridine, 6-F-dppz = 6-fluorodipyrido[3,2-a:2',3'-c]phenazine) and Λ-[Ru(bpy)2(6-F-dppz)]2+ (Λ-1), have been synthesized and characterized as binders for the RNA poly(U)•poly(A)*poly(U) triplex and poly(A)•poly(U) duplex in this work. Analysis of the UV-Vis absorption spectra and fluorescence emission spectra indicates that the binding of intercalating Δ-1 with the triplex and duplex RNA is greater than that of Λ-1, while the binding affinities of the two enantiomers to triplex structure is stronger than that of duplex structure. Fluorescence titrations show that the two enantiomers can act as molecular "light switches" for triple- and double-helical RNA. Thermal denaturation studies revealed that that the two enantiomers are more stable to Watson-Crick base-paired double strand of the triplex than the Hoogsteen base-paired third strand, but their stability and selectivity are different. For Δ-enantiomer, the increase of the thermal stability of the Watson-Crick base-paired duplex (13 °C) is slightly stronger than of the Hoogsteen base-paired strand (10 °C), displaying no obvious selectivity. However, compared to the Hoogsteen base-paired strand (5 °C), the stability of the Λ-enantiomer to the Watson-Crick base-paired duplex (13 °C) is more significant, which has obvious selectivity. The overall increase in viscosity of the RNA-(Λ-1) system and its curve shape are similar to that of the RNA-(Δ-1) system, suggesting that the binding modes of two enantiomers with RNA are intercalation. The obtained results in this work may be useful for understanding the binding differences in chiral Ru(II) polypyridyl complexes toward RNA triplex and duplex.
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Shakeel M, Butt TM, Zubair M, Siddiqi HM, Janjua NK, Akhter Z, Yaqub A, Mahmood S. Electrochemical investigations of DNA-Intercalation potency of bisnitrophenoxy compounds with different alkyl chain lengths. Heliyon 2020; 6:e04124. [PMID: 32548325 PMCID: PMC7284074 DOI: 10.1016/j.heliyon.2020.e04124] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2019] [Revised: 12/06/2019] [Accepted: 05/29/2020] [Indexed: 12/28/2022] Open
Abstract
In this study, the binding tendency of bisnitrophenoxy compounds (BN) having different methylene (-CH2-)n spacer groups (n = 8-11) with fish sperm double stranded deoxyribonucleic acid (dsDNA) was explored. Cyclic voltammetry (CV) was used to evaluate various kinetic and binding parameters (Ks,h, Do, K b and binding site sizes). Performed electrochemical studies designated strong contact of these symmetric molecules with dsDNA in threading intercalation mode of binding. The number (n) of methylene spacer group in the molecular structure of bisnitrophenoxy compounds, e.g., BN-8 (1-nitro-4-(8-(4-nitrophenoxy)octyloxy)benzene, was observed to have a strong influence on their binding affinity. Decreased peak current values and positively shifted peak potentials recorded via cyclic voltammetry clearly depicted that bisnitrophenoxy compounds can intercalate with dsDNA. Results demonstrated the following order of binding constants; K b (M-1): BN-8 (2.32 × 104) < BN-9 (5.73 × 104) < BN-10 (8.97 × 104) < BN-11 (17.34 × 104). The order of increasing binding sites from BN-8 (0.13) to BN-11 (1.38), revealed the maximum threading intercalation strength by bisnitrophenoxy compound having the longest methylene spacer (n = 11). Thermodynamic studies augmented the strong binding of BN-11 with dsDNA as compared to BN-8 because of the long-chain, -CH2- spacer in its structure. The spontaneity of dsDNA-binding was revealed by the negative ΔG values for interaction of all the compounds. Moreover, binding parameters from thermodynamic and kinetic studies also corresponded to the threading intercalation mode of interaction, which itself points to the potency of the envisioned drug-like molecules.
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Affiliation(s)
- Maria Shakeel
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | | | - Maria Zubair
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | | | | | - Zareen Akhter
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Azra Yaqub
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan.,Chemistry Division, Directorate of Science, Pakistan Institute of Nuclear Science and Technology (PINSTECH), P.O. Nilore, Islamabad, 45650, Pakistan
| | - Sadia Mahmood
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
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12
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Zhao W, Xiong M, Liu M, Wang S, Xian X, Lin B, Li H. Evaluation of the effect of Tb(IV)-NR complex on herring sperm DNA genetic information by mean of spectroscopic. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2020; 39:964-978. [PMID: 32043411 DOI: 10.1080/15257770.2020.1725042] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
The interaction between Tb(IV)-NR complex and herring sperm DNA in buffer solution of Tris-HCl was investigated with the use of acridine orange(AO) as a spectral probe. The binding modes and other information were provided by the UV-spectrophotometry and fluorescence spectroscopy. The thermodynamic functions expressed that the binding constants of Tb(IV)-NR complex with DNA was Kθ298.15K = 4.03 × 105 L·mol-1, Kθ310.15K =1.30 × 107 L·mol-1, and the ΔrGθ m 298.15 K=-3.20 × 104 J·mol-1. The scatchard equation suggested that the interaction mode between Tb(IV)-NR complex and herring sperm DNA is electrostatic and weak intercalation bindings. FTIR spectroscopy results also indicate that there is a specific interaction between the Tb(IV)-NR complex and the A and G bases of DNA.
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Affiliation(s)
- Weihua Zhao
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, PR China
| | - Mei Xiong
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, PR China
| | - Mingbin Liu
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, PR China
| | - Suqin Wang
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, PR China
| | - Xiao Xian
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, PR China
| | - Baoping Lin
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, PR China
| | - Hongbo Li
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, PR China
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Sebastian N, Yu WC, Balram D. Synthesis of amine-functionalized multi-walled carbon nanotube/3D rose flower-like zinc oxide nanocomposite for sensitive electrochemical detection of flavonoid morin. Anal Chim Acta 2020; 1095:71-81. [PMID: 31864632 DOI: 10.1016/j.aca.2019.10.026] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Revised: 10/10/2019] [Accepted: 10/15/2019] [Indexed: 10/25/2022]
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14
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Biswas N, Bera S, Sepay N, Pal A, Halder T, Ray S, Acharyya S, Biswas AK, Drew MGB, Ghosh T. Simultaneous formation of non-oxidovanadium(iv) and oxidovanadium(v) complexes incorporating phenol-based hydrazone ligands in aerobic conditions. NEW J CHEM 2020. [DOI: 10.1039/c9nj06114b] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A family of non-oxidovanadium(iv) complexes incorporating multidentate hydrazone ligands were synthesized through a thermodynamically unfavourable process along with oxidovanadium(v) species.
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Affiliation(s)
- Nirmalendu Biswas
- Post Graduate Department of Chemistry
- Ramakrishna Mission Vivekananda Centenary College
- Kolkata-700118
- India
| | - Sachinath Bera
- Department of Chemistry
- Jadavpur University
- Kolkata 700032
- India
| | - Nayim Sepay
- Department of Chemistry
- Jadavpur University
- Kolkata 700032
- India
| | - Amrita Pal
- Department of Mechanical Engineering
- National University of Singapore
- Singapore
| | - Tanmoy Halder
- Department of Botany
- University of Calcutta
- Kolkata-700019
- India
| | - Sudipta Ray
- Department of Botany
- University of Calcutta
- Kolkata-700019
- India
| | - Swarnali Acharyya
- Department of Pathology and Cell Biology
- Columbia University
- New York
- USA
| | - Anup Kumar Biswas
- Herbert Irving Comprehensive Cancer Centre
- Columbia University
- New York
- USA
| | | | - Tapas Ghosh
- Post Graduate Department of Chemistry
- Ramakrishna Mission Vivekananda Centenary College
- Kolkata-700118
- India
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15
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Zhang Q, Peng Q, Shu X, Mo D, Jiang D. Spectroscopic analysis of tylosin adsorption on extracellular DNA reveals its interaction mechanism. Colloids Surf B Biointerfaces 2019; 183:110431. [PMID: 31421405 DOI: 10.1016/j.colsurfb.2019.110431] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2019] [Revised: 08/05/2019] [Accepted: 08/06/2019] [Indexed: 10/26/2022]
Abstract
Extracellular DNA (eDNA), which is commonly detected in aquatic and terrestrial environments, may be involved in gene transfer, increases in genetic diversity, and evolution. However, it has been reported that some small organic molecules or heavy metal ions can influence the transformation of DNA and even destroy its structure. We previously found that tylosin (TYL, a kind of antibiotic) is adsorbed onto salmon sperm DNA in a mixed solution. However, it is not clear whether this antibiotic affects the structure of DNA, and the mechanism of their interaction needs to be clarified. Therefore, we investigated the adsorption of TYL on different concentrations of salmon sperm DNA using agarose gel electrophoresis, ultraviolet-visible (UV-vis) spectroscopy, fluorescence spectroscopy, and surface enhanced Raman spectroscopy (SERS) to elucidate the interaction mechanism between TYL and DNA. The results showed that the adsorption of TYL decreased with increased concentrations of DNA. The electrophoresis band of pristine DNA was at 5000 bps. The brightness of the DNA band decreased with the TYL concentration and their incubation time. As the concentration of TYL increased, the fluorescence absorption intensity of DNA decreased significantly. Redshift and hyperchromicity were observed in the UV-vis adsorption spectrum with the presence of TYL in DNA solution, and they weakened as the DNA concentration increased. The Raman spectrum intensities of characteristic peaks in the mixed solution were weaker than that of pure TYL solution, and the peak intensity increased with increasing DNA concentration. Even a part of TYL characteristic peaks disappeared in the mixed solution. These results indicated that the pyran and macrolide of TYL might intercalate into the base pair plane of DNA. In addition, electrostatic attraction between TYL and DNA and interactions among TYL molecules may also play a role in the interaction mechanism. However, the double helix structure of DNA was not subject to the interaction of TYL.
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Affiliation(s)
- Qian Zhang
- School of Life and Environmental Science, Guilin University of Electronic Technology, Guilin, Guangxi, 541000, China
| | - Qiuyan Peng
- School of Life and Environmental Science, Guilin University of Electronic Technology, Guilin, Guangxi, 541000, China; College of Environmental Science and Engineering, Guilin University of Technology, Guilin, Guangxi, 541000, China
| | - Xiaohua Shu
- College of Environmental Science and Engineering, Guilin University of Technology, Guilin, Guangxi, 541000, China.
| | - Deqing Mo
- School of Life and Environmental Science, Guilin University of Electronic Technology, Guilin, Guangxi, 541000, China
| | - Dongyun Jiang
- School of Life and Environmental Science, Guilin University of Electronic Technology, Guilin, Guangxi, 541000, China
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16
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El Hag R, Abdusalam MM, Acilan C, Kayı H, Özalp-Yaman Ş. Radicalic cleavage pathway and DNA docking studies of novel chemotherapic platinum agent of 5,6-di-2-ithienyl-2,3-dihydropyrazine. Polyhedron 2019. [DOI: 10.1016/j.poly.2019.04.054] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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17
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Channar PA, Arshad N, Farooqi SI, Larik FA, Saeed A, Hökelek T, Shehzadi SA, Abbas N, Flörke U. Synthesis, Crystal Structure, Hirshfeld Surface Analysis, DFT, and DNA-Binding Studies of (E)-2-(3-Hydroxy-4-Methoxybenzylidene)Hydrazinecarbothioamide. Appl Biochem Biotechnol 2019; 189:175-192. [PMID: 30972703 DOI: 10.1007/s12010-019-03008-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2018] [Accepted: 03/27/2019] [Indexed: 11/28/2022]
Abstract
(E)-2-(3-Hydroxy-4-methoxybenzylidene)hydrazinecarbothioamide 3 was synthesized by reacting thiosemicarbazide with 2-hydorxy-3-methoxybenzaldehyde in dry ethanol. The structure was elucidated by spectroscopic (FT-IR, 1H NMR, and 13C NMR) and single crystal X-ray diffraction techniques. A detailed analysis of the intermolecular interactions has been performed based on the Hirshfeld surfaces and their associated two-dimensional fingerprint plots. DFT, spectroscopic, and electrochemical DNA-binding analysis confirmed that the compound is reactive to bind with DNA. Viscometric studies suggested that compound 3 has a mixed mode of interaction and intercalated into the DNA base pairs predominantly along with the possibility of electrostatic interactions. Graphical Abstract.
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Affiliation(s)
- Pervaiz Ali Channar
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Nasima Arshad
- Department of Chemistry, Faculty of Sciences, Allama Iqbal Open University, Islamabad, 44000, Pakistan.
| | - Shahid Iqbal Farooqi
- Department of Chemistry, Faculty of Sciences, Allama Iqbal Open University, Islamabad, 44000, Pakistan
| | - Fayaz Ali Larik
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Aamer Saeed
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan.
| | - Tuncer Hökelek
- Department of Physics, Faculty of Engineering, Hacettepe University, 06800, Beytepe, Ankara, Turkey
| | - Syeda Aaliya Shehzadi
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
- Sulaiman Bin Abdullah Aba Al-Khail-Centre for Interdisciplinary Research in Basic Sciences (SA-CIRBS), International Islamic University, Islamabad, Islamabad, Pakistan
| | - Nasir Abbas
- Department of Chemistry, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Ulrich Flörke
- Department Chemie, Fakultätfür Naturwissenschaften, Universität Paderborn, Warburgerstrasse 100, 33098, Paderborn, Germany
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18
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Structure elucidation, DNA binding, DFT, molecular docking and cytotoxic activity studies on novel single crystal (E)-1-(2-fluorobenzylidene)thiosemicarbazide. JOURNAL OF SAUDI CHEMICAL SOCIETY 2018. [DOI: 10.1016/j.jscs.2018.05.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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19
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Abstract
To assess the potential cytostatic properties of the thulium(III)-arsenazo III complex as a probe of rare earth complex antitumor drugs, the interaction information of the thulium(III)-arsenazo III complex with DNA was obtained by using spectroscopy, viscosity measurements, and voltammetric methods. The thermodynamic functions demonstrated that the binding constants of the thulium(III)-arsenazo III complex with DNA were Kθ298.15K = 4.84 × 106 L·mol−1 and Kθ308.15K = 4.48 × 106 L·mol−1, and the binding process was enthalpy driven. The increase in relative viscosity of DNA with the addition of the thulium(III)-arsenazo III complex and the results from Scatchard and voltammetric methods showed that the interaction mode between the thulium(III)-arsenazo III complex and DNA was groove binding along with weak intercalative binding.
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20
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Palmajumder E, Dash SR, Mitra J, Mukherjea KK. A Multifunctional Biomimicking Oxidovanadium(V) Complex: Synthesis, DFT Calculations, Bromo‐peroxidation and DNA Nuclease Activities. ChemistrySelect 2018. [DOI: 10.1002/slct.201800817] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | - Soumya Ranjan Dash
- CSIR - Central Salt & Marine Chemicals Research InstituteGijubhaiBadheka Marg Bhavnagar - 364002, Gujarat India
| | - Joyee Mitra
- CSIR - Central Salt & Marine Chemicals Research InstituteGijubhaiBadheka Marg Bhavnagar - 364002, Gujarat India
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Ben-Azu B, Aderibigbe AO, Omogbiya IA, Ajayi AM, Owoeye O, Olonode ET, Iwalewa EO. Probable mechanisms involved in the antipsychotic-like activity of morin in mice. Biomed Pharmacother 2018; 105:1079-1090. [PMID: 30021344 DOI: 10.1016/j.biopha.2018.06.057] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2018] [Revised: 06/07/2018] [Accepted: 06/12/2018] [Indexed: 12/20/2022] Open
Abstract
Evidence derived from preliminary studies suggests that morin, a neuroactive flavonoid with proven antioxidant and antiinflammatory properties possess antipsychotic-like activity. The present study was designed to evaluate the probable mechanisms involve in the antipsychotic-like activity of morin in ketamine model of schizophrenia. The effects of morin, haloperidol and risperidone on neurobehavioral and anti-schizophrenia-like effects were evaluated in mice (n = 7) following intraperitoneal (i.p.) administration of morin (25-100 mg/kg), haloperidol (1 mg/kg) and risperidone (0.5 mg/kg) alone or in combination with ketamine (20 mg/kg, i.p.) for 10 days. Neurobehavioral and schizophrenia-like activities consisting of open-field (positive symptoms), Y-maze, novel-object recognition (cognitive symptoms), social interaction (negative symptoms) tests were assessed. Also, wood-block catalepsy and rota-rod tests were employed to evaluate extrapyramidal side effects of morin. Thereafter, brain levels of biomarkers of oxidative, nitrergic and acetylcholinesterase alterations as well as histomorphological changes in the striatum and prefrontal-cortex were determined. Administration of morin and risperidone alone but not haloperidol significantly (p > 0.05) prevented ketamine-induced hyperlocomotion, social withdrawal and cognitive impairments relative to controls, and were devoid of extrapyramidal side effects. Morin alone or in combination with ketamine significantly increased glutathione concentration, superoxide dismutase and catalase activities compared with saline- or ketamine-treated mice. Moreover, morin alone or in combination with ketamine also significantly decreased malondialdehyde, nitrite and acetylcholinesterase alterations in mice brains. Furthermore, morin prevented ketamine-induced brain neuronal alterations in the striatum and prefrontal-cortex. Together, our findings suggest that morin may demonstrate antipsychotic-like therapeutic effect via modulation of oxidative/nitrergic, cholinergic actions and neuroprotection.
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Affiliation(s)
- Benneth Ben-Azu
- Neuropharmacology Unit, Department of Pharmacology and Therapeutics, College of Medicine, University of Ibadan, Ibadan, Oyo State, Nigeria.
| | - Adegbuyi Oladele Aderibigbe
- Neuropharmacology Unit, Department of Pharmacology and Therapeutics, College of Medicine, University of Ibadan, Ibadan, Oyo State, Nigeria
| | - Itivere Adrian Omogbiya
- Neuropharmacology Unit, Department of Pharmacology and Therapeutics, College of Medicine, University of Ibadan, Ibadan, Oyo State, Nigeria; Department of Pharmacology and Therapeutics, Faculty of Basic Medical Sciences, Delta State University, Abraka, Nigeria
| | - Abayomi Mayowa Ajayi
- Neuropharmacology Unit, Department of Pharmacology and Therapeutics, College of Medicine, University of Ibadan, Ibadan, Oyo State, Nigeria
| | - Olatunde Owoeye
- Neurotrauma & Neuroregeneration Unit, Department of Anatomy, College of Medicine, University of Ibadan, Ibadan, Oyo State, Nigeria
| | - Elizabeth Toyin Olonode
- Neuropharmacology Unit, Department of Pharmacology and Therapeutics, College of Medicine, University of Ibadan, Ibadan, Oyo State, Nigeria; Department of Pharmacology and Therapeutics, College of Medicine and Health Sciences, Afe Babalola University, Ado Ekiti, Ekiti State, Nigeria
| | - Ezekiel O Iwalewa
- Neuropharmacology Unit, Department of Pharmacology and Therapeutics, College of Medicine, University of Ibadan, Ibadan, Oyo State, Nigeria
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22
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Zhang S, Yang H, Zhao L, Gan R, Tang P, Sun Q, Xiong X, Li H. Capecitabine as a minor groove binder of DNA: molecular docking, molecular dynamics, and multi-spectroscopic studies. J Biomol Struct Dyn 2018; 37:1451-1463. [PMID: 29620482 DOI: 10.1080/07391102.2018.1461137] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
The interaction mechanism and binding mode of capecitabine with ctDNA was extensively investigated using docking and molecular dynamics simulations, fluorescence and circular dichroism (CD) spectroscopy, DNA thermal denaturation studies, and viscosity measurements. The possible binding mode and acting forces on the combination between capecitabine and DNA had been predicted through molecular simulation. Results indicated that capecitabine could relatively locate stably in the G-C base-pairs-rich DNA minor groove by hydrogen bond and several weaker nonbonding forces. Fluorescence spectroscopy and fluorescence lifetime measurements confirmed that the quenching was static caused by ground state complex formation. This phenomenon indicated the formation of a complex between capecitabine and ctDNA. Fluorescence data showed that the binding constants of the complex were approximately 2 × 104 M-1. Calculated thermodynamic parameters suggested that hydrogen bond was the main force during binding, which were consistent with theoretical results. Moreover, CD spectroscopy, DNA melting studies, and viscosity measurements corroborated a groove binding mode of capecitabine with ctDNA. This binding had no effect on B-DNA conformation.
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Affiliation(s)
- Shuangshuang Zhang
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
| | - Hongqin Yang
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
| | - Ludan Zhao
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
| | - Ruixue Gan
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
| | - Peixiao Tang
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
| | - Qiaomei Sun
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
| | - Xinnuo Xiong
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
| | - Hui Li
- a College of Chemical Engineering , Sichuan University , Chengdu 610065 , Sichuan , China
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23
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Haque L, Bhuiya S, Das S. Assessment of intercalative interaction of the benzophenanthridine plant alkaloid nitidine with higher-ordered forms of RNA: spectroscopic evaluation. NEW J CHEM 2018. [DOI: 10.1039/c8nj03705a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Spectrophotometric, spectropolarimetric, viscometric and spectrofluorimetric analysis of the binding of the alkaloid nitidine to double- and triple-helical forms of RNA have served to highlight the ability of this drug to produce changes in the structure of RNA.
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Affiliation(s)
- Lucy Haque
- Department of Chemistry
- Jadavpur University
- Raja S. C. Mullick Road
- Kolkata 700 032
- India
| | - Sutanwi Bhuiya
- Department of Chemistry
- Jadavpur University
- Raja S. C. Mullick Road
- Kolkata 700 032
- India
| | - Suman Das
- Department of Chemistry
- Jadavpur University
- Raja S. C. Mullick Road
- Kolkata 700 032
- India
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24
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Zahirović A, Kahrović E, Cindrić M, Kraljević Pavelić S, Hukić M, Harej A, Turkušić E. Heteroleptic ruthenium bioflavonoid complexes: from synthesis to in vitro biological activity. J COORD CHEM 2017. [DOI: 10.1080/00958972.2017.1409893] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Adnan Zahirović
- Faculty of Science, Department of Chemistry, University of Sarajevo, Sarajevo, Bosnia and Herzegovina
| | - Emira Kahrović
- Faculty of Science, Department of Chemistry, University of Sarajevo, Sarajevo, Bosnia and Herzegovina
| | - Marina Cindrić
- Faculty of Science, Department of Chemistry, University of Zagreb, Zagreb, Croatia
| | - Sandra Kraljević Pavelić
- Department of Biotechnology, Centre for High-Throughput Technologies, University of Rijeka, Rijeka, Croatia
| | - Mirsada Hukić
- Institute for Biomedical Research and Diagnostics NALAZ, Sarajevo, Bosnia and Herzegovina
| | - Anja Harej
- Department of Biotechnology, Centre for High-Throughput Technologies, University of Rijeka, Rijeka, Croatia
| | - Emir Turkušić
- Faculty of Science, Department of Chemistry, University of Sarajevo, Sarajevo, Bosnia and Herzegovina
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25
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Bhuiya S, Haque L, Goswami R, Das S. Multispectroscopic and Theoretical Exploration of the Comparative Binding Aspects of Bioflavonoid Fisetin with Triple- and Double-Helical Forms of RNA. J Phys Chem B 2017; 121:11037-11052. [DOI: 10.1021/acs.jpcb.7b07972] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sutanwi Bhuiya
- Department of Chemistry, Jadavpur University, Raja S.C. Mullick Road, Jadavpur, Kolkata 700032, India
| | - Lucy Haque
- Department of Chemistry, Jadavpur University, Raja S.C. Mullick Road, Jadavpur, Kolkata 700032, India
| | - Rapti Goswami
- Department of Chemistry, Jadavpur University, Raja S.C. Mullick Road, Jadavpur, Kolkata 700032, India
| | - Suman Das
- Department of Chemistry, Jadavpur University, Raja S.C. Mullick Road, Jadavpur, Kolkata 700032, India
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26
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Saeidifar M, Mirzaei H, Ahmadi Nasab N, Mansouri-Torshizi H. Mononuclear Pd(II) complex as a new therapeutic agent: Synthesis, characterization, biological activity, spectral and DNA binding approaches. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2017.06.139] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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27
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Tian Z, Cui H, Liu H, Dong J, Dong H, Zhao L, Li X, Zhang Y, Huang Y, Song L, Bian L, Wang Y, Xu X, Wang C. Study on the interaction between the 1,4,5,8-naphthalene diimide-spermine conjugate (NDIS) and DNA using a spectroscopic approach and molecular docking. MEDCHEMCOMM 2017; 8:2079-2092. [PMID: 30108725 PMCID: PMC6072523 DOI: 10.1039/c7md00389g] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2017] [Accepted: 09/26/2017] [Indexed: 01/23/2023]
Abstract
The interaction of herring sperm DNA with the 1,4,5,8-naphthalene diimide-spermine conjugate (NDIS) was studied by UV/vis absorption, fluorescence and CD spectroscopic methods. Compared with the 1,8-naphthalimide-spermidine conjugate (NIS), the values of KSV (quenching constant) and Kb (binding constant) of NDIS were larger, and the hypochromic effect in the UV/vis spectra and the quenching effect in the fluorescence of NDIS were more significant. The interaction mode between NDIS and DNA was mainly groove binding. The fluorescence experiments at varying temperatures showed that the binding process of NDIS and DNA was static, as both hydrogen bonds and hydrophobic forces played a major role in the binding of NDIS and DNA. The CD spectrum indicated that NDIS caused a conformational change, like the B to A-DNA transition, and the tests using KI and NaCl and 1H NMR spectroscopy indicated that NDIS was not a classical DNA inserter. All the results demonstrated that both the polyamine side chain and the aromatic rings affect the process of NDIS binding to DNA, which is thus obviously different from that of NIS. The conclusion was confirmed by the in silico molecular docking experiments.
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Affiliation(s)
- Zhiyong Tian
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Hailong Cui
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - He Liu
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Jun Dong
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Huanyang Dong
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Luyao Zhao
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Xueting Li
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Yan Zhang
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Yingying Huang
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Lina Song
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Longxiang Bian
- The Key Laboratory of Natural Medicine and Immuno-Engineering , Henan University , Kaifeng 475004 , China . ; ; Tel: +86 18621534352 ; Tel: +86 13619810550
| | - Yuxia Wang
- Institute of Chemical Biology , Henan University , Kaifeng 475004 , China . ; Tel: +86 18739998722
| | - Xuejun Xu
- The Key Laboratory of Natural Medicine and Immuno-Engineering , Henan University , Kaifeng 475004 , China . ; ; Tel: +86 18621534352 ; Tel: +86 13619810550
| | - Chaojie Wang
- The Key Laboratory of Natural Medicine and Immuno-Engineering , Henan University , Kaifeng 475004 , China . ; ; Tel: +86 18621534352 ; Tel: +86 13619810550
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28
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Tian Z, Zhao L, Dong H, Zhang Y, Zhang Y, Ren Q, Shao S, Huang Y, Song L, Guo T, Xu X, Wang C. Study on the interaction of anthracenyl-methyl homospermidine conjugate (ANTMHspd) with DNA by spectroscopic methods. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2017; 169:27-34. [DOI: 10.1016/j.jphotobiol.2017.02.015] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2016] [Accepted: 02/21/2017] [Indexed: 11/16/2022]
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29
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Adiguzel Z, Ozalp-Yaman S, Celik G, Salem S, Bagci-Onder T, Senbabaoglu F, Cetin Y, Acilan C. A platinum blue complex exerts its cytotoxic activity via DNA damage and induces apoptosis in cancer cells. Chem Biol Drug Des 2017; 90:210-224. [DOI: 10.1111/cbdd.12940] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2016] [Revised: 11/22/2016] [Accepted: 12/26/2016] [Indexed: 11/29/2022]
Affiliation(s)
- Zelal Adiguzel
- TUBITAK, Marmara Research Center; Genetic Engineering and Biotechnology Institute; Gebze/Kocaeli Turkey
| | - Seniz Ozalp-Yaman
- Department of Chemical Engineering and Applied Chemistry; Faculty of Engineering; Atilim University; Ankara Turkey
| | - Gokalp Celik
- Sentegen Biotech, Bilkent Cyberpark; Çankaya/Ankara Turkey
| | - Safia Salem
- Department of Chemical Engineering and Applied Chemistry; Faculty of Engineering; Atilim University; Ankara Turkey
| | | | | | - Yüksel Cetin
- TUBITAK, Marmara Research Center; Genetic Engineering and Biotechnology Institute; Gebze/Kocaeli Turkey
| | - Ceyda Acilan
- TUBITAK, Marmara Research Center; Genetic Engineering and Biotechnology Institute; Gebze/Kocaeli Turkey
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30
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Woźnicka E, Zapała L, Pieniążek E, Kosińska M, Ciszkowicz E, Lecka-Szlachta K, Pusz J, Maciołek U, Dronka J. Synthesis, characterization and antibacterial studies of Tm(III), Yb(III) and Lu(III) complexes of morin. J COORD CHEM 2017. [DOI: 10.1080/00958972.2017.1291935] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Elżbieta Woźnicka
- Faculty of Chemistry, Department of Inorganic and Analytical Chemistry, Rzeszow University of Technology, Rzeszow, Poland
| | - Lidia Zapała
- Faculty of Chemistry, Department of Inorganic and Analytical Chemistry, Rzeszow University of Technology, Rzeszow, Poland
| | - Elżbieta Pieniążek
- Faculty of Chemistry, Department of Inorganic and Analytical Chemistry, Rzeszow University of Technology, Rzeszow, Poland
| | - Małgorzata Kosińska
- Faculty of Chemistry, Department of Inorganic and Analytical Chemistry, Rzeszow University of Technology, Rzeszow, Poland
| | - Ewa Ciszkowicz
- Faculty of Chemistry, Department of Biochemistry and Biotechnology, Rzeszow University of Technology, Rzeszow, Poland
| | - Katarzyna Lecka-Szlachta
- Faculty of Chemistry, Department of Biochemistry and Biotechnology, Rzeszow University of Technology, Rzeszow, Poland
| | - Janusz Pusz
- Faculty of Chemistry, Department of Inorganic and Analytical Chemistry, Rzeszow University of Technology, Rzeszow, Poland
| | - Urszula Maciołek
- Faculty of Chemistry, Department of Inorganic and Analytical Chemistry, Rzeszow University of Technology, Rzeszow, Poland
| | - Janusz Dronka
- Faculty of Mathematics and Applied Physics, Rzeszow University of Technology, Rzeszow, Poland
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31
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Samsonowicz M, Regulska E. Spectroscopic study of molecular structure, antioxidant activity and biological effects of metal hydroxyflavonol complexes. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017; 173:757-771. [PMID: 27792987 DOI: 10.1016/j.saa.2016.10.031] [Citation(s) in RCA: 58] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2016] [Revised: 10/11/2016] [Accepted: 10/18/2016] [Indexed: 05/05/2023]
Abstract
Flavonols with varied hydroxyl substitution can act as strong antioxidants. Thanks to their ability to chelate metals as well as to donate hydrogen atoms they have capacity to scavenge free radicals. Their metal complexes are often more active in comparison with free ligands. They exhibit interesting biological properties, e.g. anticancer, antiphlogistic and antibacterial. The relationship between molecular structure and their biological properties was intensively studied using spectroscopic methods (UV-Vis, IR, Raman, NMR, ESI-MS). The aim of this paper is review on spectroscopic analyses of molecular structure and biological activity of hydroxyflavonol metal complexes.
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Affiliation(s)
- Mariola Samsonowicz
- Bialystok University of Technology, Division of Chemistry, Wiejska 45E, 15-351 Bialystok, Poland.
| | - Ewa Regulska
- Bialystok University of Technology, Division of Chemistry, Wiejska 45E, 15-351 Bialystok, Poland
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32
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Bhattacharjee S, Sengupta PK, Bhowmik S. Exploring the preferential interaction of quercetin with VEGF promoter G-quadruplex DNA and construction of a pH-dependent DNA-based logic gate. RSC Adv 2017. [DOI: 10.1039/c7ra05930b] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The plant flavonoid quercetin (Que) binds more efficiently to VEGF G-quadruplex DNA (G4–DNA) compared to double stranded DNA as well as other G4–DNAs.
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Affiliation(s)
- Snehasish Bhattacharjee
- Department of Biophysics, Molecular Biology and Bioinformatics
- University of Calcutta
- Kolkata-700009
- India
| | - Pradeep K. Sengupta
- Department of Biophysics, Molecular Biology and Bioinformatics
- University of Calcutta
- Kolkata-700009
- India
| | - Sudipta Bhowmik
- Department of Biophysics, Molecular Biology and Bioinformatics
- University of Calcutta
- Kolkata-700009
- India
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33
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Tabrizi L, Talaie F, Chiniforoshan H. Copper(II), cobalt(II) and nickel(II) complexes of lapachol: synthesis, DNA interaction, and cytotoxicity. J Biomol Struct Dyn 2016; 35:3330-3341. [PMID: 27897079 DOI: 10.1080/07391102.2016.1254118] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Three novel copper(II), cobalt(II), and nickel(II) complexes of lapachol (Lap) containing 110-phenanthroline (phen) ligand, [M(Lap)2(phen)] (M=Cu(II), 1, Co(II), 2, and Ni(II), 3), have been synthesized and characterized using, elemental analysis and spectroscopic studies. Their interactions with calf thymus DNA (CT DNA) were investigated using viscosity, thermal denaturation, circular dichorism, fluorescence quenching, and electronic absorption spectroscopy. The DNA cleavage abilities of 1-3 have been studied, where cleavage activity of copper complex 1 is more than the complexes 2 and 3. The in vitro cytotoxic potential of the complexes 1-3 against human cervical carcinoma (HeLa), human liver hepatocellular carcinoma (HepG-2), and human colorectal adenocarcinoma (HT-29) cells indicated their promising antitumor activity with quite low IC50 values in the range of .15-2.41 μM, which are lower than those of cisplatin.
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Affiliation(s)
- Leila Tabrizi
- a Department of Chemistry , Isfahan University of Technology , Isfahan 84156-8311 , Iran
| | - Faranak Talaie
- a Department of Chemistry , Isfahan University of Technology , Isfahan 84156-8311 , Iran
| | - Hossein Chiniforoshan
- a Department of Chemistry , Isfahan University of Technology , Isfahan 84156-8311 , Iran
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34
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Munteanu AC, Badea M, Olar R, Silvestro L, Dulea C, Negut CD, Uivarosi V. Synthesis and Structural Investigation of New Bio-Relevant Complexes of Lanthanides with 5-Hydroxyflavone: DNA Binding and Protein Interaction Studies. Molecules 2016; 21:molecules21121737. [PMID: 27999283 PMCID: PMC6273368 DOI: 10.3390/molecules21121737] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2016] [Revised: 12/12/2016] [Accepted: 12/13/2016] [Indexed: 11/16/2022] Open
Abstract
In the present work, we attempted to develop new metal coordination complexes of the natural flavonoid 5-hydroxyflavone with Sm(III), Eu(III), Gd(III), Tb(III). The resultant hydroxo complexes have been characterized by a variety of spectroscopic techniques, including fluorescence, FT-IR, UV-Vis, EPR and mass spectral studies. The general chemical formula of the complexes is [Ln(C15H₉O₃)₃(OH)₂(H₂O)x]·nH₂O, where Ln is the lanthanide cation and x = 0 for Sm(III), x = 1 for Eu(III), Gd(III), Tb(III) and n = 0 for Sm(III), Gd(III), Tb(III), n = 1 for Eu(III), respectively. The proposed structures of the complexes were optimized by DFT calculations. Theoretical calculations and experimental determinations sustain the proposed structures of the hydroxo complexes, with two molecules of 5-hydroxyflavone acting as monoanionic bidentate chelate ligands. The interaction of the complexes with calf thymus DNA has been explored by fluorescence titration and UV-Vis absorption binding studies, and revealed that the synthesized complexes interact with DNA with binding constants (Kb) ~ 10⁴. Human serum albumin (HSA) and transferrin (Tf) binding studies have also been performed by fluorescence titration techniques (fluorescence quenching studies, synchronous fluorescence spectra). The apparent association constants (Ka) and thermodynamic parameters have been calculated from the fluorescence quenching experiment at 299 K, 308 K, and 318 K. The quenching curves indicate that the complexes bind to HSA with smaller affinity than the ligand, but to Tf with higher binding affinities than the ligand.
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Affiliation(s)
- Alexandra-Cristina Munteanu
- Department of General and Inorganic Chemistry, Faculty of Pharmacy, "Carol Davila" University of Medicine and Pharmacy, 6 Traian Vuia Str., 020956 Bucharest, Romania.
| | - Mihaela Badea
- Department of Inorganic Chemistry, Faculty of Chemistry, University of Bucharest, 90-92 Panduri Str., 050663 Bucharest, Romania.
| | - Rodica Olar
- Department of Inorganic Chemistry, Faculty of Chemistry, University of Bucharest, 90-92 Panduri Str., 050663 Bucharest, Romania.
| | - Luigi Silvestro
- PharmaServ. International SRL, 52 Sabinelor Str., 050853 Bucharest, Romania.
| | - Constanţa Dulea
- PharmaServ. International SRL, 52 Sabinelor Str., 050853 Bucharest, Romania.
| | - Constantin-Daniel Negut
- Horia Hulubei National Institute of Physics and Nuclear Engineering (IFIN-HH), IRASM Radiation Processing Department, Reactorului Str. 30, 077125 Magurele-Ilfov, Romania.
| | - Valentina Uivarosi
- Department of General and Inorganic Chemistry, Faculty of Pharmacy, "Carol Davila" University of Medicine and Pharmacy, 6 Traian Vuia Str., 020956 Bucharest, Romania.
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35
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An overview on the interaction of phenazinium dye phenosafranine to RNA triple and double helices. Int J Biol Macromol 2016; 86:345-51. [DOI: 10.1016/j.ijbiomac.2016.01.078] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2015] [Revised: 01/15/2016] [Accepted: 01/21/2016] [Indexed: 12/22/2022]
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36
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Temerk Y, Ibrahim M, Ibrahim H, Kotb M. Interactions of an anticancer drug lomustine with single and double stranded DNA at physiological conditions analyzed by electrochemical and spectroscopic methods. J Electroanal Chem (Lausanne) 2016. [DOI: 10.1016/j.jelechem.2016.03.020] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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37
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Taha M, Khan I, Coutinho JA. Complexation and molecular modeling studies of europium(III)–gallic acid–amino acid complexes. J Inorg Biochem 2016; 157:25-33. [DOI: 10.1016/j.jinorgbio.2016.01.017] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2015] [Revised: 01/06/2016] [Accepted: 01/18/2016] [Indexed: 01/06/2023]
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38
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Haque L, Pradhan AB, Bhuiya S, Das S. Exploring the comparative binding aspects of benzophenanthridine plant alkaloid chelerythrine with RNA triple and double helices: a spectroscopic and calorimetric approach. Phys Chem Chem Phys 2016; 17:17202-13. [PMID: 26073991 DOI: 10.1039/c5cp01737h] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
A comparative study on the interaction of a benzophenanthridine alkaloid chelerythrine (CHL) with RNA triplex poly(U).poly(A)*poly(U) (hereafter U.A*U, .(dot) and *(asterisk) represent Watson-Crick and Hoogsteen base pairing respectively) and its parent duplex poly(A).poly(U) (A.U) was carried out by using a combination of various spectroscopic, viscometric and calorimetric techniques. The interaction was characterized by hypochromic and bathochromic effects in the absorption spectrum, the increase of thermal melting temperature, enhancement in solution viscosity, and perturbation in the circular dichroic spectrum. The binding constant calculated by using spectrophotometric data was in the order of 10(5) for both forms of RNA, but it was greater for triplex RNA (30.2 × 10(5) M(-1)) than duplex RNA (3.6 × 10(5) M(-1)). Isothermal titration calorimetric data are in good agreement with the spectrophotometric data. The data indicated stronger binding of CHL to the triplex structure of RNA compared to the native duplex structure. Thermal melting studies indicated greater stabilization of the Hoogsteen base paired third strand of the RNA triplex compared to its Watson-Crick strands. The mode of binding of CHL to both U.A*U and A.U was intercalation as revealed from fluorescence quenching, viscosity measurements and sensitization of the fluorescence experiment. Thermodynamic data obtained from isothermal calorimetric measurements revealed that association was favoured by both a negative enthalpy change and a positive entropy change. Taken together, our results suggest that chelerythrine binds and stabilizes the RNA triplex more strongly than its respective parent duplex. The results presented here may be useful for formulating effective antigene strategies involving benzophenanthridine alkaloids and the RNA triplex.
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Affiliation(s)
- Lucy Haque
- Department of Chemistry, Jadavpur University, Raja S. C. Mullick Road, Jadavpur, Kolkata 700 032, India.
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39
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Tian Z, Huang Y, Zhang Y, Song L, Qiao Y, Xu X, Wang C. Spectroscopic and molecular modeling methods to study the interaction between naphthalimide-polyamine conjugates and DNA. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2016; 158:1-15. [PMID: 26926663 DOI: 10.1016/j.jphotobiol.2016.01.017] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2015] [Accepted: 01/29/2016] [Indexed: 11/28/2022]
Abstract
The effect of polyamine side chains on the interaction between naphthalimide-polyamine conjugates (1-7) and herring sperm DNA was studied by UV/vis absorption and fluorescent spectra under physiological conditions (pH=7.4). The diverse spectral data and further molecular docking simulation in silico indicated that the aromatic moiety of these compounds could intercalate into the DNA base pairs while the polyamine motif might simultaneously locate in the minor groove. The triamine compound 7 can interact more potently with DNA than the corresponding diamine compounds (1-6). The presence of the bulky terminal group in the diamine side chain reduced the binding strength of compound 1 with DNA, compared to other diamine compounds (2-6). In addition, the increasing methylene number in the diamine backbone generally results in the elevated binding constant of compounds-DNA complex. The fluorescent tests at different temperature revealed that the quenching mechanism was a static type. The binding constant and thermodynamic parameter showed that the binding strength and the type of interaction force, associated with the side chains, were mainly hydrogen bonding and hydrophobic force. And the calculated free binding energies of molecular docking are generally consistent with the stability of polyamine-DNA complexes. The circular dichroism assay about the impact of compounds 1-7 on DNA conformation testified the B to A-like conformational change.
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Affiliation(s)
- Zhiyong Tian
- Institute of Chemical Biology, Henan University, Kaifeng 475004, China
| | - Yingying Huang
- Institute of Chemical Biology, Henan University, Kaifeng 475004, China
| | - Yan Zhang
- Institute of Chemical Biology, Henan University, Kaifeng 475004, China
| | - Lina Song
- Institute of Chemical Biology, Henan University, Kaifeng 475004, China
| | - Yan Qiao
- Basic Medical College, Zhengzhou University, Zhengzhou, 475008, China; State Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China
| | - Xuejun Xu
- Basic Medical College, Zhengzhou University, Zhengzhou, 475008, China; The Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, china.
| | - Chaojie Wang
- The Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, china.
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40
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Aramesh-Boroujeni Z, Khorasani-Motlagh M, Noroozifar M. Multispectroscopic DNA-binding studies of a terbium(III) complex containing 2,2′-bipyridine ligand. J Biomol Struct Dyn 2015; 34:414-26. [DOI: 10.1080/07391102.2015.1038585] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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41
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Xiong X, Huang J, Wang X. DNA binding studies of hematoxylin-Dy(ш) complex by spectrometry using acridine orange as a probe. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2015; 33:730-45. [PMID: 25295749 DOI: 10.1080/15257770.2014.931589] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
The interaction of a hematoxylin(HE)-Dy(Ш) complex with herring sperm DNA(hsDNA) was studied using acridine orange(AO) as a probe by UV-vis absorption, circular dichroism(CD), fluorescence spectroscopy and viscosity measurements. From the results of the probe experiment, we found that the HE-Dy(Ш) complex could compete with AO for intercalating into hsDNA. The binding constants of the HE-Dy(Ш) complex to hsDNA was obtained by the double reciprocal method and indicated that the affinity between hsDNA and the complex is weaker than that between hsDNA and classical intercalators. The thermodynamic parameters(ΔH°, ΔG°, ΔS°) were calculated from the UV-vis absorption data measured at two different temperatures. Further experimental results suggested that there exist groove binding and partial intercalation binding between hsDNA and HE-Dy(Ш) complex.
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Affiliation(s)
- Xiaoli Xiong
- a College of Chemistry and Materials Science , Sichuan Normal University , Chengdu , P.R.China
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42
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Ajloo D, Shabanpanah S, Shafaatian B, Ghadamgahi M, Alipour Y, Lashgarbolouki T, Saboury AA. Interaction of three new tetradentates Schiff bases containing N2O2 donor atoms with calf thymus DNA. Int J Biol Macromol 2015; 77:193-202. [PMID: 25796450 DOI: 10.1016/j.ijbiomac.2015.03.016] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2014] [Revised: 03/03/2015] [Accepted: 03/10/2015] [Indexed: 12/20/2022]
Abstract
Interaction of 1,3-bis(2-hydroxy-benzylidene)-urea (H2L1), 1,3-bis(2-hydroxy-3-methoxy-benzylidene)-urea (H2L2) and 1,3-bis(2-hydroxy-3-methoxy-benzylidene)-urea nickel(II) (NiL2) with calf-thymus DNA were investigated by UV-vis absorption, fluorescence emission and circular dichroism (CD) spectroscopy as well as cyclic voltammetry, viscosity measurements, molecular docking and molecular dynamics simulation. Binding constants were determined using UV-vis absorption and fluorescence spectra. The results indicated that studied Schiff-bases bind to DNA in the intercalative mode in which the metal derivative is more effective than non metals. Their interaction trend is further determined by molecular dynamics (MD) simulation. MD results showed that Ni derivative reduces oligonucleotide intermolecular hydrogen bond and increases solvent accessible surface area more than other compounds.
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Affiliation(s)
- Davood Ajloo
- School of Chemistry, Damghan University, Damghan, Iran.
| | | | | | | | - Yasin Alipour
- School of Chemistry, Damghan University, Damghan, Iran
| | | | - Ali Akbar Saboury
- Institute of Biochemistry and Biophysics, University of Tehran, Tehran, Iran
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43
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Wu D, Chen Z. Study on the interaction between ginsenoside Rh2 and calf thymus DNA by spectroscopic techniques. LUMINESCENCE 2015; 30:1212-8. [DOI: 10.1002/bio.2883] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Revised: 01/18/2015] [Accepted: 01/19/2015] [Indexed: 12/11/2022]
Affiliation(s)
- Dudu Wu
- School of Pharmacy, Guangdong Medical College; Dongguan 523808 People's Republic of China
| | - Zhi Chen
- School of Pharmacy, Guangdong Medical College; Dongguan 523808 People's Republic of China
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44
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Patra D, Biswas N, Kumari B, Das P, Sepay N, Chatterjee S, Drew MGB, Ghosh T. A family of mixed-ligand oxidovanadium(v) complexes with aroylhydrazone ligands: a combined experimental and computational study on the electronic effects of para substituents of hydrazone ligands on the electronic properties, DNA binding and nuclease activities. RSC Adv 2015. [DOI: 10.1039/c5ra17844d] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023] Open
Abstract
Substituents at 5-position in the acetophenone ring of the hydrazone ligands in a family of mixed-ligand oxidovanadium(v) complexes show marked influence on the electronic properties, DNA binding ability and nuclease activity.
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Affiliation(s)
- Debashis Patra
- Post Graduate Department of Chemistry
- Ramakrishna Mission Vivekananda Centenary College
- Kolkata-700118
- India
| | - Nirmalendu Biswas
- Post Graduate Department of Chemistry
- Ramakrishna Mission Vivekananda Centenary College
- Kolkata-700118
- India
| | - Bhavini Kumari
- Department of Chemistry
- Indian Institute of Technology Patna
- India
| | - Prolay Das
- Department of Chemistry
- Indian Institute of Technology Patna
- India
| | - Nayim Sepay
- Department of Chemistry
- Jadavpur University
- Kolkata-700032
- India
| | - Shamba Chatterjee
- Department of Organic Chemistry
- Indian Association for the Cultivation of Science
- Kolkata-700032
- India
| | | | - Tapas Ghosh
- Post Graduate Department of Chemistry
- Ramakrishna Mission Vivekananda Centenary College
- Kolkata-700118
- India
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45
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Syntheses, crystal structures and antioxidant study of Zn(II) complexes with morin-5′-sulfonic acid (MSA). J Inorg Biochem 2014; 141:180-187. [DOI: 10.1016/j.jinorgbio.2014.09.005] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2014] [Revised: 09/09/2014] [Accepted: 09/09/2014] [Indexed: 11/20/2022]
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46
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Influence of PPh3 moiety in the anticancer activity of new organometallic ruthenium complexes. J Inorg Biochem 2014; 136:1-12. [DOI: 10.1016/j.jinorgbio.2014.03.002] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2013] [Revised: 03/03/2014] [Accepted: 03/06/2014] [Indexed: 11/23/2022]
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47
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Spectroscopic study on the interaction between naphthalimide-polyamine conjugates and DNA. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2014; 138:202-10. [PMID: 24976624 DOI: 10.1016/j.jphotobiol.2014.06.001] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2014] [Revised: 05/30/2014] [Accepted: 06/03/2014] [Indexed: 01/06/2023]
Abstract
The interaction of naphthalimide-polyamine conjugates with herring sperm DNA was studied by UV/vis absorption and fluorescent spectra under physiological conditions (pH=7.4). The observed spectral quenching of compounds by DNA and the displacement of EB from DNA-EB complex by compounds indicated that these naphthalimide-polyamine conjugates could intercalate into the DNA base pairs. The UV test also showed that these compounds caused the conformational alteration of DNA. Further caloric fluorescent tests revealed that the quenching mechanism was a static type, which Ksv of 1-DNA, 2-DNA and 1-DNA-EB, 2-DNA-EB 3-DNA-EB was 1.208×10(4), 7.792×10(3) and 1.712×10(4), 1.287×10(4), 2.874×10(4), respectively, at room temperature. The obtained quenching constant, binding constant and thermodynamic parameters suggested that binding strength was associated with substituted groups on naphthalene backbone, and the type of interaction force included mainly hydrogen bonding and weak van der Waals. The binding process was mainly driven by hydrogen bond and van der Waals. Additionally, the effect of NaCl on compounds-DNA interaction provided further evidence that their interaction modes were dependent on substituted groups.
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48
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Sun HJ, Wang AL, Chu HB, Zhao YL. Fluorescent studies on the interaction of DNA and ternary lanthanide complexes with cinnamic acid-phenanthroline and antibacterial activities testing. LUMINESCENCE 2014; 30:131-6. [DOI: 10.1002/bio.2701] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2013] [Revised: 03/31/2014] [Accepted: 04/05/2014] [Indexed: 11/08/2022]
Affiliation(s)
- Hui-Juan Sun
- College of Chemistry and Chemical Engineering; Inner Mongolia University; Huhhot 010021 China
| | - Ai-Ling Wang
- College of Chemistry and Chemical Engineering; Inner Mongolia University; Huhhot 010021 China
| | - Hai-Bin Chu
- College of Chemistry and Chemical Engineering; Inner Mongolia University; Huhhot 010021 China
| | - Yong-Liang Zhao
- College of Chemistry and Chemical Engineering; Inner Mongolia University; Huhhot 010021 China
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49
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Sarniguet C, Toloza J, Cipriani M, Lapier M, Vieites M, Toledano-Magaña Y, García-Ramos JC, Ruiz-Azuara L, Moreno V, Maya JD, Azar CO, Gambino D, Otero L. Water-soluble ruthenium complexes bearing activity against protozoan parasites. Biol Trace Elem Res 2014; 159:379-92. [PMID: 24740394 DOI: 10.1007/s12011-014-9964-0] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/23/2014] [Accepted: 03/31/2014] [Indexed: 01/18/2023]
Abstract
Parasitic illnesses are major causes of human disease and misery worldwide. Among them, both amebiasis and Chagas disease, caused by the protozoan parasites, Entamoeba histolytica and Trypanosoma cruzi, are responsible for thousands of annual deaths. The lack of safe and effective chemotherapy and/or the appearance of current drug resistance make the development of novel pharmacological tools for their treatment relevant. In this sense, within the framework of the medicinal inorganic chemistry, metal-based drugs appear to be a good alternative to find a pharmacological answer to parasitic diseases. In this work, novel ruthenium complexes [RuCl2(HL)(HPTA)2]Cl2 with HL=bioactive 5-nitrofuryl containing thiosemicarbazones and PTA=1,3,5-triaza-7-phosphaadamantane have been synthesized and fully characterized. PTA was included as co-ligand in order to modulate complexes aqueous solubility. In fact, obtained complexes were water soluble. Their activity against T. cruzi and E. histolytica was evaluated in vitro. [RuCl2(HL4)(HPTA)2]Cl2 complex, with HL4=N-phenyl-5-nitrofuryl-thiosemicarbazone, was the most active compound against both parasites. In particular, it showed an excellent activity against E. histolytica (half maximal inhibitory concentration (IC50)=5.2 μM), even higher than that of the reference drug metronidazole. In addition, this complex turns out to be selective for E. histolytica (selectivity index (SI)>38). The potential mechanism of antiparasitic action of the obtained ruthenium complexes could involve oxidative stress for both parasites. Additionally, complexes could interact with DNA as second potential target by an intercalative-like mode. Obtained results could be considered a contribution in the search for metal compounds that could be active against multiple parasites.
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Affiliation(s)
- Cynthia Sarniguet
- Cátedra de Química Inorgánica, DEC, Facultad de Química, Universidad de la República, Gral. Flores 2124, C. C. 1157, 11800, Montevideo, Uruguay
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50
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Radi AE, El-Naggar AE, Nassef HM. Electrochemical and Spectral studies on the Interaction of the Antiparasitic Drug Nitazoxanide with DNA. Electrochim Acta 2014. [DOI: 10.1016/j.electacta.2014.02.092] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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