1
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Raje S, Pandav K, Barthwal R. Dual mode of binding of anti cancer drug epirubicin to G-quadruplex [d-(TTAGGGT)] 4 containing human telomeric DNA sequence induces thermal stabilization. Bioorg Med Chem 2019; 27:115131. [PMID: 31685331 DOI: 10.1016/j.bmc.2019.115131] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Revised: 09/08/2019] [Accepted: 09/19/2019] [Indexed: 12/16/2022]
Abstract
Epirubicin exerts its anti cancer action by blocking DNA/RNA synthesis and inhibition of topoisomerase-II enzyme. Recent reports on its influence on telomere maintenance, suggest interaction with G-quadruplex DNA leading to multiple strategies of action. The binding of epirubicin with parallel stranded inter molecular G-quadruplex DNA [d-(TTAGGGT)]4 comprising human telomeric DNA sequence TTAGGG was investigated by absorption, fluorescence, circular dichroism and nuclear magnetic resonance spectroscopy. The epirubicin binds as monomer to G-quadruplex DNA with affinity, Kb1 = 3.8 × 106 M-1 and Kb2 = 2.7 × 106 M-1, at two independent sites externally. The specific interactions induce thermal stabilization of DNA by 13.2-26.3 °C, which is likely to come in the way of telomere association with telomerase enzyme and contribute to epirubicin-induced apoptosis in cancer cell lines. The findings pave the way for drug designing in view of the possibility of altering substituent groups on anthracyclines to enhance efficacy using alternate mechanism of its interaction with G4 DNA, causing interference in telomere maintenance pathway by inducing telomere dysfunction.
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Affiliation(s)
- Shailja Raje
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee 247667, India
| | - Kumud Pandav
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee 247667, India
| | - Ritu Barthwal
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee 247667, India.
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2
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He Y, Zhang Y, Wojtas L, Akhmedov NG, Thai D, Wang H, Li X, Guo H, Shi X. Construction of a cross-layer linked G-octamer via conformational control: a stable G-quadruplex in H-bond competitive solvents. Chem Sci 2019; 10:4192-4199. [PMID: 31057748 PMCID: PMC6471798 DOI: 10.1039/c9sc00190e] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2019] [Accepted: 03/05/2019] [Indexed: 11/21/2022] Open
Abstract
Methanol soluble and stable guanosine octamers were successfully achieved via H-bond self-assembly. Through structural conformational design, we developed a new class of guanosine derivatives with modification on guanine (8-aryl) and ribose (2',3'-isopropylidene). This unique design led to the formation of the first discrete G8-octamer with its structure characterized by single crystal X-ray diffraction, MS and NMR spectroscopy. The G8-octamer showed unique cation recognition properties, including the formation of a stable Rb+ templated G-quadruplex. Based on this observation, further modification on the 8-aryl moiety was performed to incorporate a cross-layer H-bond or covalent linkage. Similar G-octamers were obtained in both cases with structures confirmed by single crystal X-ray diffraction. Furthermore, the covalently linked G-quadruplex exhibited excellent stability even in MeOH and DMSO, suggesting a promising future for this new H-bond self-assembly system in biological and material applications.
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Affiliation(s)
- Ying He
- Department of Chemistry , University of South Florida , 4202 E. Fowler Avenue , Tampa , Florida 33620 , USA .
| | - Yanbin Zhang
- Department of Chemistry , Fudan University , 2005 Songhu Road , Shanghai , 200438 , People's Republic of China
| | - Lukasz Wojtas
- Department of Chemistry , University of South Florida , 4202 E. Fowler Avenue , Tampa , Florida 33620 , USA .
| | - Novruz G Akhmedov
- Department of Chemistry , West Virginia University , Morgantown , WV 26505 , USA
| | - David Thai
- Department of Chemistry , University of South Florida , 4202 E. Fowler Avenue , Tampa , Florida 33620 , USA .
| | - Heng Wang
- Department of Chemistry , University of South Florida , 4202 E. Fowler Avenue , Tampa , Florida 33620 , USA .
| | - Xiaopeng Li
- Department of Chemistry , University of South Florida , 4202 E. Fowler Avenue , Tampa , Florida 33620 , USA .
| | - Hao Guo
- Department of Chemistry , Fudan University , 2005 Songhu Road , Shanghai , 200438 , People's Republic of China
| | - Xiaodong Shi
- Department of Chemistry , University of South Florida , 4202 E. Fowler Avenue , Tampa , Florida 33620 , USA .
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3
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Mayoral MJ, Serrano-Molina D, Camacho-García J, Magdalena-Estirado E, Blanco-Lomas M, Fadaei E, González-Rodríguez D. Understanding complex supramolecular landscapes: non-covalent macrocyclization equilibria examined by fluorescence resonance energy transfer. Chem Sci 2018; 9:7809-7821. [PMID: 30429990 PMCID: PMC6194488 DOI: 10.1039/c8sc03229g] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2018] [Accepted: 08/16/2018] [Indexed: 12/13/2022] Open
Abstract
As molecular self-assembled systems increase in complexity, due to a large number of participating entities and/or the establishment of multiple competing equilibria, their full understanding becomes likewise more complicated, and the use of diverse analytical techniques that can afford complementary information is required. We demonstrate in this work that resonance excitation energy transfer phenomena, measured by fluorescence spectroscopy in combination with other optical spectroscopies, can be a valuable tool to obtain supplementary thermodynamic data about complex supramolecular landscapes that other methods fail to provide. In particular, noncovalent macrocyclization processes of lipophilic dinucleosides are studied here by setting up a competition between intra- and intermolecular association processes of Watson-Crick H-bonding pairs. Multiwavelength analysis of the monomer emission changes allowed us to determine cyclotetramerization constants and to quantify chelate cooperativity, which was confirmed to be substantially larger for the G-C than for the A-U pair. Furthermore, when bithiophene-BODIPY donor-acceptor energy transfer probes are employed in these competition experiments, fluorescence and circular dichroism spectroscopy measurements in different regions of the visible spectrum additionally reveal intermolecular interactions occurring simultaneously at both sides of the macrocyclization reaction: the cyclic product, acting as a host for the competitor, and the monomer reactant, ultimately leading to macrocycle denaturation.
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Affiliation(s)
- María J Mayoral
- Nanostructured Molecular Systems and Materials Group , Departamento de Química Orgánica , Facultad de Ciencias , Universidad Autónoma de Madrid , 28049 Madrid , Spain . ;
| | - David Serrano-Molina
- Nanostructured Molecular Systems and Materials Group , Departamento de Química Orgánica , Facultad de Ciencias , Universidad Autónoma de Madrid , 28049 Madrid , Spain . ;
| | - Jorge Camacho-García
- Nanostructured Molecular Systems and Materials Group , Departamento de Química Orgánica , Facultad de Ciencias , Universidad Autónoma de Madrid , 28049 Madrid , Spain . ;
| | - Eva Magdalena-Estirado
- Nanostructured Molecular Systems and Materials Group , Departamento de Química Orgánica , Facultad de Ciencias , Universidad Autónoma de Madrid , 28049 Madrid , Spain . ;
| | - Marina Blanco-Lomas
- Nanostructured Molecular Systems and Materials Group , Departamento de Química Orgánica , Facultad de Ciencias , Universidad Autónoma de Madrid , 28049 Madrid , Spain . ;
| | - Elham Fadaei
- Nanostructured Molecular Systems and Materials Group , Departamento de Química Orgánica , Facultad de Ciencias , Universidad Autónoma de Madrid , 28049 Madrid , Spain . ;
| | - David González-Rodríguez
- Nanostructured Molecular Systems and Materials Group , Departamento de Química Orgánica , Facultad de Ciencias , Universidad Autónoma de Madrid , 28049 Madrid , Spain . ;
- Institute for Advanced Research in Chemical Sciences (IAdChem) , Universidad Autónoma de Madrid , 28049 Madrid , Spain
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4
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Silva-Brenes D, Delgado L, Rivera JM. Tracking the formation of supramolecular G-quadruplexes via self-assembly enhanced emission. Org Biomol Chem 2018; 15:782-786. [PMID: 27995252 DOI: 10.1039/c6ob02586b] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
We report the synthesis and self-assembly of two lipophilic 2'-deoxyguanosine (G) derivatives whose fluorescence intensity is modulated by self-assembly into supramolecular G-quadruplexes (SGQs). Whereas both derivatives self-assemble isostructurally, one shows up to 100% emission enhancement while the other shows an initial enhancement, followed by 10% quenching. Thus, the rotational restrictions resulting from self-assembly are enough to induce significant changes in emission, but it is critical to consider the specific interactions between fluorophores since they will determine the ultimate emission signature. These findings could open the door to the development of luminescent supramolecular sensors and probes.
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Affiliation(s)
- Diana Silva-Brenes
- Department of Chemistry and Molecular Sciences Research Center, University of Puerto Rico at Río Piedras, San Juan, 00926, Puerto Rico.
| | - Loruhama Delgado
- Department of Chemistry and Molecular Sciences Research Center, University of Puerto Rico at Río Piedras, San Juan, 00926, Puerto Rico.
| | - José M Rivera
- Department of Chemistry and Molecular Sciences Research Center, University of Puerto Rico at Río Piedras, San Juan, 00926, Puerto Rico.
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5
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Nesher E, Safina A, Aljahdali I, Portwood S, Wang ES, Koman I, Wang J, Gurova KV. Role of Chromatin Damage and Chromatin Trapping of FACT in Mediating the Anticancer Cytotoxicity of DNA-Binding Small-Molecule Drugs. Cancer Res 2018; 78:1431-1443. [PMID: 29339544 DOI: 10.1158/0008-5472.can-17-2690] [Citation(s) in RCA: 54] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Revised: 11/30/2017] [Accepted: 01/10/2018] [Indexed: 12/31/2022]
Abstract
Precisely how DNA-targeting chemotherapeutic drugs trigger cancer cell death remains unclear, as it is difficult to separate direct DNA damage from other effects in cells. Recent work on curaxins, a class of small-molecule drugs with broad anticancer activity, shows that they interfere with histone-DNA interactions and destabilize nucleosomes without causing detectable DNA damage. Chromatin damage caused by curaxins is sensed by the histone chaperone FACT, which binds unfolded nucleosomes becoming trapped in chromatin. In this study, we investigated whether classical DNA-targeting chemotherapeutic drugs also similarly disturbed chromatin to cause chromatin trapping of FACT (c-trapping). Drugs that directly bound DNA induced both chromatin damage and c-trapping. However, chromatin damage occurred irrespective of direct DNA damage and was dependent on how a drug bound DNA, specifically, in the way it bound chromatinized DNA in cells. FACT was sensitive to a plethora of nucleosome perturbations induced by DNA-binding small molecules, including displacement of the linker histone, eviction of core histones, and accumulation of negative supercoiling. Strikingly, we found that the cytotoxicity of DNA-binding small molecules correlated with their ability to cause chromatin damage, not DNA damage. Our results suggest implications for the development of chromatin-damaging agents as selective anticancer drugs.Significance: These provocative results suggest that the anticancer efficacy of traditional DNA-targeting chemotherapeutic drugs may be based in large part on chromatin damage rather than direct DNA damage. Cancer Res; 78(6); 1431-43. ©2018 AACR.
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Affiliation(s)
- Elimelech Nesher
- Department of Cell Stress Biology, Roswell Park Cancer Institute, Elm and Carlton St, Buffalo, New York.,Institute for Translational Research, Ariel University, Ariel, Israel
| | - Alfiya Safina
- Department of Cell Stress Biology, Roswell Park Cancer Institute, Elm and Carlton St, Buffalo, New York
| | - Ieman Aljahdali
- Department of Cell Stress Biology, Roswell Park Cancer Institute, Elm and Carlton St, Buffalo, New York
| | - Scott Portwood
- Department of Medicine, Roswell Park Cancer Institute, Elm and Carlton St, Buffalo, New York
| | - Eunice S Wang
- Department of Medicine, Roswell Park Cancer Institute, Elm and Carlton St, Buffalo, New York
| | - Igor Koman
- Institute for Translational Research, Ariel University, Ariel, Israel
| | - Jianmin Wang
- Department of Bioinformatics, Roswell Park Cancer Institute, Elm and Carlton St, Buffalo, New York.
| | - Katerina V Gurova
- Department of Cell Stress Biology, Roswell Park Cancer Institute, Elm and Carlton St, Buffalo, New York.
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6
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Jeremić S, Amić A, Stanojević-Pirković M, Marković Z. Selected anthraquinones as potential free radical scavengers and P-glycoprotein inhibitors. Org Biomol Chem 2018; 16:1890-1902. [DOI: 10.1039/c8ob00060c] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this article, we estimated the scavenger capacity of six selected anthraquinones toward free radicals and their efficacy as inhibitors of P-glycoproteins.
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Affiliation(s)
- S. Jeremić
- Department of Chemical-Technological Sciences
- State University of Novi Pazar
- 36300 Novi Pazar
- Serbia
| | - A. Amić
- Department of Chemistry
- Josip Juraj Strossmayer University of Osijek
- 31000 Osijek
- Croatia
| | | | - Z. Marković
- Department of Chemical-Technological Sciences
- State University of Novi Pazar
- 36300 Novi Pazar
- Serbia
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7
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Mayoral MJ, Camacho-García J, Magdalena-Estirado E, Blanco-Lomas M, Fadaei E, Montoro-García C, Serrano-Molina D, González-Rodríguez D. Dye-conjugated complementary lipophilic nucleosides as useful probes to study association processes by fluorescence resonance energy transfer. Org Biomol Chem 2017; 15:7558-7565. [DOI: 10.1039/c7ob01930k] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Resonance energy transfer is used here to study the association and self-sorting events between lipophilic nucleosides in apolar aromatic solvents.
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Affiliation(s)
- M. J. Mayoral
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
| | - J. Camacho-García
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
| | - E. Magdalena-Estirado
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
| | - M. Blanco-Lomas
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
| | - E. Fadaei
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
| | - C. Montoro-García
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
| | - D. Serrano-Molina
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
| | - D. González-Rodríguez
- Nanostructured Molecular Systems and Materials Group
- Departamento de Química Orgánica
- Facultad de Ciencias
- Universidad Autónoma de Madrid
- 28049 Madrid
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8
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García-Arriaga M, Hobley G, Rivera JM. Structural Studies of Supramolecular G-Quadruplexes Formed from 8-Aryl-2'-deoxyguanosine Derivatives. J Org Chem 2016; 81:6026-35. [PMID: 27303787 DOI: 10.1021/acs.joc.6b01113] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Self-assembly is a powerful tool for the construction of complex nanostructures. Despite advances in the field, the development of precise self-assembled structures remains a challenge. We have shown that, in the presence of suitably sized cations like K(+), 8-aryl-2'-deoxyguanosine (8ArG) derivatives self-assemble into sets of coaxially stacked planar tetramers, which we term supramolecular G-quadruplexes (SGQs). Previously, we reported that, when the 8-aryl group is a phenyl ring with a meta-carbonyl group, the resulting supramolecule is a hexadecamer, which is remarkably robust as illustrated by its isostructural assembly in both organic and aqueous environments. We report here a detailed three-dimensional structure of the SGQs formed by lipophilic, and hydrophilic, 8ArG derivatives with either 8-(meta-acetylphenyl), 8-(para-acetylphenyl), or 8-(meta-ethoxycarbonylphenyl) groups. The chirality and close contacts between the subunits impose different levels of steric and electrostatic constraints on opposite sides of the tetrads, which determine their preferred relative orientation. The balance between attractive noncovalent interactions juxtaposed with repulsive steric and electrostatic interactions explains the high cooperativity, fidelity, and stability of these SGQs. These structural studies, together with titration experiments and molecular dynamics simulations, provide insight into the mechanism of formation of these SGQs.
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Affiliation(s)
- Marilyn García-Arriaga
- Department of Chemistry and Molecular Sciences Research Center, University of Puerto Rico at Río Piedras , San Juan, Puerto Rico 00926, United States
| | - Gerard Hobley
- Department of Chemistry and Molecular Sciences Research Center, University of Puerto Rico at Río Piedras , San Juan, Puerto Rico 00926, United States
| | - José M Rivera
- Department of Chemistry and Molecular Sciences Research Center, University of Puerto Rico at Río Piedras , San Juan, Puerto Rico 00926, United States
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9
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Abstract
Guanosine (G) and isoguanosine (isoG) derivatives can self-assemble, yielding supramolecules that have found broad applications in diverse fields.
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Affiliation(s)
| | - Raphaël Rodriguez
- Institut de Chimie des Subtances Naturelles
- Centre National de la Recherche Scientifique
- Avenue de la Terrasse
- Gif-sur-Yvette, France
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10
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Abstract
Photoirradiation of a hexadecameric supramolecular G-quadruplex leads to a diastereoselective [2 + 2] cyclodimerization of half of its constituent subunits, which in turn shifts the equilibrium toward the formation of a precise heteromeric octamer.
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Affiliation(s)
- José M Rivera
- Department of Chemistry, University of Puerto Rico , Río Piedras Campus, Río Piedras, Puerto Rico 00931
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