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Wang H, Liu X, Tan L. A naked-eye colorimetric molecular "light switch" based on ruthenium(II) polypyridyl complex [Ru(phen) 2ttbd] 2+ as binder and stabilizer for RNA duplex and triplex. Int J Biol Macromol 2022; 215:571-578. [PMID: 35752337 DOI: 10.1016/j.ijbiomac.2022.06.119] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2022] [Revised: 06/14/2022] [Accepted: 06/16/2022] [Indexed: 11/05/2022]
Abstract
Binding of [Ru(phen)2ttbd]2+ (phen = 1,10-phenanthroline, ttbd = 4-(6-propenylpyrido-[3,2-a]- phenzain-10-yl-benzene-1,2-diamine) to the RNA triplex poly(U-A*U) (herein "-" and "*" refer to the Watson-Crick and Hoogsteen binding, respectively) and the duplex poly(A-U) have been investigated by spectral technology and viscosity method. Analysis of spectral titrations and viscosity experiments as well as melting measurements suggest that [Ru(phen)2ttbd]2+ binds to the studied RNA triplex and duplex through intercalation, while its binding constant toward the triplex is greater than the duplex. Luminescent titrations indicate that [Ru(phen)2ttbd]2+ can act as a molecular "light switch" for the two RNAs and the switch effect can be detected by the naked-eye. Moreover, the "light switch" can be repeatedly cycled off and on by adjusting the pH of the solution, whereas color change in the case of the triplex is more significant compared with the duplex. To our knowledge, [Ru(phen)2ttbd]2+ is the first small molecule capable of serving as a pH-controlled reversible visual molecular "light switch" for both the RNA triplex poly(U-A*U) and duplex poly(A-U). Thermal denaturation experiments suggest that [Ru(phen)2ttbd]2+ can obviously increase the triplex stabilization, while it stabilizing third-strand is more marked in comparison with the template duplex of the triplex, indicating this complex preferentially binds to third-strand. The obtained results may be useful for understanding the binding of Ru(II) polypyridyl complexes to RNAs.
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Affiliation(s)
- Hui Wang
- College of Chemistry, Xiangtan University, Xiangtan 411105, People's Republic of China
| | - Xiaohua Liu
- Academic Affairs Office, Xiangtan University, Xiangtan 411105, People's Republic of China
| | - Lifeng Tan
- College of Chemistry, Xiangtan University, Xiangtan 411105, People's Republic of China.
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Alatorre‐Barajas JA, Ramírez‐Zatarain SD, Ochoa‐Terán A, Cordova J, Reynoso‐Soto EA, Chávez D, Miranda‐Soto V, Labastida‐Galván V, Ordoñez M. An Efficient Method for the Synthesis of New Non‐Symmetrical Naphthalenediimides. ChemistrySelect 2018. [DOI: 10.1002/slct.201802168] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- José A. Alatorre‐Barajas
- Centro de Graduados e Investigación en Química.Tecnológico Nacional de México/Instituto Tecnológico de Tijuana. Bulevar Alberto Limón Padilla S/N, Mesa de Otay, Tijuana, B. C. 22500 México
| | - Sandy D. Ramírez‐Zatarain
- Centro de Graduados e Investigación en Química.Tecnológico Nacional de México/Instituto Tecnológico de Tijuana. Bulevar Alberto Limón Padilla S/N, Mesa de Otay, Tijuana, B. C. 22500 México
| | - Adrián Ochoa‐Terán
- Centro de Graduados e Investigación en Química.Tecnológico Nacional de México/Instituto Tecnológico de Tijuana. Bulevar Alberto Limón Padilla S/N, Mesa de Otay, Tijuana, B. C. 22500 México
| | - Jesus Cordova
- Chemistry DepartmentCalifornia Lutheran University, 60 West Olsen Rd,Thousand Oaks, California 91360 USA
| | - Edgar A. Reynoso‐Soto
- Centro de Graduados e Investigación en Química.Tecnológico Nacional de México/Instituto Tecnológico de Tijuana. Bulevar Alberto Limón Padilla S/N, Mesa de Otay, Tijuana, B. C. 22500 México
| | - Daniel Chávez
- Centro de Graduados e Investigación en Química.Tecnológico Nacional de México/Instituto Tecnológico de Tijuana. Bulevar Alberto Limón Padilla S/N, Mesa de Otay, Tijuana, B. C. 22500 México
| | - Valentín Miranda‐Soto
- Centro de Graduados e Investigación en Química.Tecnológico Nacional de México/Instituto Tecnológico de Tijuana. Bulevar Alberto Limón Padilla S/N, Mesa de Otay, Tijuana, B. C. 22500 México
| | - Victoria Labastida‐Galván
- Victoria Labastida-Galván, Dr. Mario Ordoñez Centro de Investigaciones Químicas-(IICBA)Universidad Autónoma del Estado de Morelos, Avenida Universidad 1001, Colonia Chamilpa, Cuernavaca, Mor. 62209 México
| | - Mario Ordoñez
- Victoria Labastida-Galván, Dr. Mario Ordoñez Centro de Investigaciones Químicas-(IICBA)Universidad Autónoma del Estado de Morelos, Avenida Universidad 1001, Colonia Chamilpa, Cuernavaca, Mor. 62209 México
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Ramírez-Zatarain SD, Ochoa-Terán A, Reynoso-Soto EA, Miranda-Soto V, Félix-Navarro RM, Pina-Luis G, Yatsimirsky AK. Selective interaction of N,N-bis(aminobenzyl)naphthalenediimides with fluoride anion. Supramol Chem 2017. [DOI: 10.1080/10610278.2016.1266360] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
| | - Adrián Ochoa-Terán
- Centro de Graduados e Investigación, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - Edgar A. Reynoso-Soto
- Centro de Graduados e Investigación, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - Valentín Miranda-Soto
- Centro de Graduados e Investigación, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - R. M. Félix-Navarro
- Centro de Graduados e Investigación, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - Georgina Pina-Luis
- Centro de Graduados e Investigación, Instituto Tecnológico de Tijuana, Tijuana, Mexico
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De Gianni E, Turrini E, Milelli A, Maffei F, Carini M, Minarini A, Tumiatti V, Ros TD, Prato M, Fimognari C. Study of the cytotoxic effects of the new synthetic Isothiocyanate CM9 and its fullerene derivative on human T-leukemia cells. Toxins (Basel) 2015; 7:535-52. [PMID: 25679371 PMCID: PMC4344639 DOI: 10.3390/toxins7020535] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2014] [Accepted: 02/04/2015] [Indexed: 11/16/2022] Open
Abstract
One important strategy to develop effective anticancer agents is based on natural products. Many active phytochemicals are in human clinical trials and have been used for a long time, alone and in association with conventional anticancer drugs, for the treatment of various types of cancers. A great number of in vitro, in vivo and clinical reports document the multi-target anticancer activities of isothiocyanates and of compounds characterized by a naphthalenetetracarboxylic diimide scaffold. In order to search for new anticancer agents with a better pharmaco-toxicological profile, we investigated hybrid compounds obtained by inserting isothiocyanate group(s) on a naphthalenetetracarboxylic diimide scaffold. Moreover, since water-soluble fullerene derivatives can cross cell membranes thus favoring the delivery of anticancer therapeutics, we explored the cytostatic and cytotoxic activity of hybrid compounds conjugated with fullerene. We studied their cytostatic and cytotoxic effects on a human T-lymphoblastoid cell line by using different flow cytometric assays. In order to better understand their pharmaco-toxicological potential, we also analyzed their genotoxicity. Our global results show that the synthesized compounds reduced significantly the viability of leukemia cells. However, the conjugation with a non-toxic vector did not increase their anticancer potential. This opens an interesting research pattern for certain fullerene properties.
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Affiliation(s)
- Elena De Gianni
- Interdepartmental Centre for Industrial Research in Advanced Mechanical Engineering Applications and Materials Technology, Alma Mater Studiorum-University of Bologna, Piazza Malatesta, 29/30, 47923 Rimini, Italy.
| | - Eleonora Turrini
- Department for Life Quality Studies, Alma Mater Studiorum-University of Bologna, Corso d'Augusto 237, 47921 Rimini, Italy.
| | - Andrea Milelli
- Department for Life Quality Studies, Alma Mater Studiorum-University of Bologna, Corso d'Augusto 237, 47921 Rimini, Italy.
| | - Francesca Maffei
- Department for Life Quality Studies, Alma Mater Studiorum-University of Bologna, Corso d'Augusto 237, 47921 Rimini, Italy.
| | - Marco Carini
- Department of Chemical and Pharmaceutical Sciences, University of Trieste, Piazzale Europa 1, 34127 Trieste, Italy.
| | - Anna Minarini
- Department of Pharmacy and Biotechnology, Alma Mater Studiorum-University of Bologna, via Belmeloro 6, 40126 Bologna, Italy.
| | - Vincenzo Tumiatti
- Department for Life Quality Studies, Alma Mater Studiorum-University of Bologna, Corso d'Augusto 237, 47921 Rimini, Italy.
| | - Tatiana Da Ros
- Department of Chemical and Pharmaceutical Sciences, University of Trieste, Piazzale Europa 1, 34127 Trieste, Italy.
| | - Maurizio Prato
- Department of Chemical and Pharmaceutical Sciences, University of Trieste, Piazzale Europa 1, 34127 Trieste, Italy.
| | - Carmela Fimognari
- Department for Life Quality Studies, Alma Mater Studiorum-University of Bologna, Corso d'Augusto 237, 47921 Rimini, Italy.
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Milelli A, Tumiatti V, Micco M, Rosini M, Zuccari G, Raffaghello L, Bianchi G, Pistoia V, Fernando Díaz J, Pera B, Trigili C, Barasoain I, Musetti C, Toniolo M, Sissi C, Alcaro S, Moraca F, Zini M, Stefanelli C, Minarini A. Structure–activity relationships of novel substituted naphthalene diimides as anticancer agents. Eur J Med Chem 2012; 57:417-28. [DOI: 10.1016/j.ejmech.2012.06.045] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2012] [Revised: 06/20/2012] [Accepted: 06/21/2012] [Indexed: 01/23/2023]
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Minarini A, Milelli A, Tumiatti V, Ferruzzi L, Marton MR, Turrini E, Hrelia P, Fimognari C. Design, synthesis and biological evaluation of new naphtalene diimides bearing isothiocyanate functionality. Eur J Med Chem 2012; 48:124-31. [PMID: 22200402 DOI: 10.1016/j.ejmech.2011.12.003] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2011] [Revised: 11/28/2011] [Accepted: 12/03/2011] [Indexed: 11/21/2022]
Abstract
The synthesis and the biological activities of new derivatives 1-3, characterized by the isothiocyanate (ITC) functionalities coming from sulforaphane (SFN), a well-known anticancer natural product, were reported. The most interesting compound of the series was 2. It was chemically characterized by two ITC functionalities mounted on the 1,4,5,8-naphthalentetracarboxylic diimide (NDI) scaffold through two polymethylene chains, each constituted by three carbon units. It demonstrated an IC(50) value in the submicromolar range, more potent than SFN, displaying also the ability to trigger apoptotic induction in the same range by eliciting both extrinsic and intrinsic apoptotic pathways. Finally, it was observed that 2 inhibited the cell growth by blocking the cell cycle in G1 phase.
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Sinha R, Saha I, Kumar GS. Protoberberine Alkaloids Berberine, Palmatine, and Coralyne Binding to Poly(dT)⋅(Poly(dA)⋅Poly(dT)) Triplex: Comparative Structural Aspects and Energetics Profiles of the Interaction. Chem Biodivers 2011. [DOI: 10.1002/cbdv.201000182] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Sinha R, Kumar GS. Interaction of isoquinoline alkaloids with an RNA triplex: structural and thermodynamic studies of berberine, palmatine, and coralyne binding to poly(U).poly(A)(*)poly(U). J Phys Chem B 2009; 113:13410-20. [PMID: 19754095 DOI: 10.1021/jp9069515] [Citation(s) in RCA: 110] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
The interaction of two natural protoberberine alkaloids berberine and palmatine and the synthetic derivative coralyne with the RNA triplex poly(U).poly(A)(*)poly(U) was studied using various biophysical and calorimetric techniques. All the three alkaloids bind noncooperatively to the triplex. The affinity of berberine and palmatine was in the order of 10(5) M(-1), while that of coralyne was one order higher as inferred from spectroscopic studies. The alkaloids stabilized the Hoogsteen base-paired third strand of the triplex without affecting the stability of the duplex. Fluorescence quenching and viscosity studies gave convincing evidence for the partial intercalation of berberine and palmatine and a true intercalative binding of coralyne to the triplex. This was further supported from the significant polarization of the emission spectra of the complex and the energy transfer from the base triplets to the alkaloids. Circular dichroic studies suggested that the conformation of the triplex was perturbed significantly by the binding of the alkaloids, being more by coralyne compared to berberine and palmatine and also evidenced by the generation of strong induced optical activity in the bound coralyne molecules. Isothermal titration calorimetric studies revealed that the binding to the triplex was favored by a predominantly large negative enthalpy change (DeltaH degrees = -5.42 kcal/mol) with small favorable entropy contribution (TDeltaS degrees = 2.02 kcal/mol) in berberine, favored by almost equal negative enthalpy (DeltaH degrees = -3.93 kcal/mol) and entropy changes (TDeltaS degrees = 3.89 kcal/mol) in palmatine and driven by predominant entropy contributions (DeltaH degrees = -1.84 and TDeltaS degrees = 7.44 kcal/mol) in coralyne. These results advance our knowledge on the binding of small molecule isoquinoline alkaloids that are specific binders of RNA structures, particularly triplexes.
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Affiliation(s)
- Rangana Sinha
- Biophysical Chemistry Laboratory, Indian Institute of Chemical Biology, CSIR, Kolkata 700032, India
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Eick A, Xiao Z, Langer P, Weisz K. Spectroscopic studies on the formation and thermal stability of DNA triplexes with a benzoannulated delta-carboline-oligonucleotide conjugate. Bioorg Med Chem 2008; 16:9106-12. [PMID: 18823783 DOI: 10.1016/j.bmc.2008.09.026] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2008] [Revised: 09/02/2008] [Accepted: 09/10/2008] [Indexed: 11/30/2022]
Abstract
A benzoannulated delta-carboline with a phenyl substituent has been covalently tethered to the 3'-end of a triplex-forming oligonucleotide and its ability to bind and stabilize DNA triple helices has been examined by various spectroscopic methods. UV thermal melting experiments were conducted with different hairpin duplexes and with a complementary single-stranded oligonucleotide as targets for the conjugate. The delta-carboline ligand preferentially binds triplexes over duplexes and leads to a temperature increase of the triplex-to-duplex transition by up to 23 degrees C. The results obtained from UV, CD and fluorescence measurements suggest that the delta-carboline ligand exhibits specific interactions with a triplex and favors binding by intercalation at the triplex-duplex junction.
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Affiliation(s)
- Andrea Eick
- Institut für Biochemie, Ernst-Moritz-Arndt-Universität Greifswald, Felix-Hausdorff-Str. 4, D-17487 Greifswald, Germany
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Pengo P, Pantos GD, Otto S, Sanders JKM. Efficient and Mild Microwave-Assisted Stepwise Functionalization of Naphthalenediimide with α-Amino Acids. J Org Chem 2006; 71:7063-6. [PMID: 16930065 DOI: 10.1021/jo061195h] [Citation(s) in RCA: 60] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Microwave dielectric heating proved to be an efficient method for the one-pot and stepwise syntheses of symmetrical and unsymmetrical naphthalenediimide derivatives of alpha-amino acids. Acid-labile side chain protecting groups are stable under the reaction conditions; protection of the alpha-carboxylic group is not required. The stepwise condensation of different amino acids resulted in high yields of unsymmetrical naphthalenediimides. The reaction proceeds without racemization and is essentially quantitative.
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Affiliation(s)
- Paolo Pengo
- University Chemical Laboratory, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
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Boutorine AS, Arimondo PB. Sequence-Specific Cleavage of Double-Stranded DNA. In: Zenkova MA, editor. Artificial Nucleases. Berlin: Springer Berlin Heidelberg; 2004. pp. 243-68. [DOI: 10.1007/978-3-642-18510-6_14] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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Das S, Kumar GS, Ray A, Maiti M. Spectroscopic and thermodynamic studies on the binding of sanguinarine and berberine to triple and double helical DNA and RNA structures. J Biomol Struct Dyn 2003; 20:703-14. [PMID: 12643773 DOI: 10.1080/07391102.2003.10506887] [Citation(s) in RCA: 87] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Abstract
A comparative study on the interaction of sanguinarine and berberine with DNA and RNA triplexes and their parent duplexes was performed, by using a combination of spectrophotometric, UV thermal melting, circular dichroic and thermodynamic techniques. Formation of the DNA and RNA triplexes was confirmed from UV-melting and circular dichroic measurements. The interaction process was characterized by increase of thermal melting temperature, perturbation in circular dichroic spectrum and the typical hypochromic and bathochromic effects in the absorption spectrum. Scatchard analysis indicated that both the alkaloids bound to the triplex and duplex structures in a non-cooperative manner and the binding was stronger to triplexes than to parent duplexes. Thermal melting studies further indicated that sanguinarine stabilized the Hoogsteen base paired third strand of both DNA and RNA triplexes more tightly compared to their Watson-Crick strands, while berberine stabilized the third strand only without affecting the Watson-Crick strand. However, sanguinarine stabilized the parent duplexes while no stabilization was observed with berberine under identical conditions. Circular dichroic studies were also consistent with the observation that perturbations of DNA and RNA triplexes were more compared to their parent duplexes in presence of the alkaloids. Thermodynamic data revealed that binding of sanguinarine and berberine to triplexes (T.AxT and U.AxU) and duplexes (A.T and A.U) showed negative enthalpy changes and positive entropy changes but that of sanguinarine to C.GxC(+) triplex and G.C duplex exhibited negative enthalpy and negative entropy changes. Taken together, these results suggest that both sanguinarine and berberine can bind and stabilize the DNA and RNA triplexes more strongly than their respective parent duplexes.
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Affiliation(s)
- Suman Das
- Biophysical Chemistry Laboratory, Indian Institute of Chemical Biology, 4 Raja S.C. Mullick Road, Kolkata 700032, India
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