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Liu D, Chen Y, Guan R, Zhao J, Jin H, Zhang S, Shang Q. Photocatalytic performance of heterojunction S-Tyr-NDI-Tyr/TiO 2 formed by self-assembled naphthalimide derivatives and titanium dioxide. CHEMOSPHERE 2022; 296:134046. [PMID: 35183575 DOI: 10.1016/j.chemosphere.2022.134046] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2022] [Revised: 02/05/2022] [Accepted: 02/16/2022] [Indexed: 06/14/2023]
Abstract
In this paper, a type of heterojunction photocatalyst S-Tyr-NDI-Tyr/TiO2 was prepared by self-assembly of tyrosine-substituted naphthamide (NDA) and bonding with titanium dioxide. The self-assembly process and driving force of monomer M-Tyr-NDI-Tyr were simulated by theoretical calculation. Taking atenolol as the target pollutant, the photocatalytic performance of the heterojunction photocatalyst under visible light was studied, and the degradation products were analyzed by mass spectrometry. The environmental toxicity of photocatalytic process was evaluated by luminescent bacteria. The principle of high photocatalytic activity of S-Tyr-NDI-Tyr/TiO2 heterojunction photocatalyst was proposed by analyzing the fluorescence spectrum, photocurrent density and resistance, electron paramagnetic resonance spectrum, free radical capture experiment and energy band position of S-Tyr-NDI-Tyr/TiO2 heterojunction photocatalyst. In addition, the photocatalytic degradation of different pollutants by S-Tyr-NDI-Tyr/TiO2 heterojunction photocatalyst was also studied. This work will provide a useful example for the further development of new and efficient organic supramolecular/inorganic semiconductor composite photocatalysts.
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Affiliation(s)
- Di Liu
- School of Chemistry, Northeast Normal University, Changchun, 130024, PR China
| | - Yunning Chen
- School of Chemistry, Northeast Normal University, Changchun, 130024, PR China
| | - Renquan Guan
- School of Chemistry, Northeast Normal University, Changchun, 130024, PR China
| | - Jie Zhao
- School of Chemistry, Northeast Normal University, Changchun, 130024, PR China
| | - Huimin Jin
- School of Chemistry, Northeast Normal University, Changchun, 130024, PR China
| | - Siyi Zhang
- School of Chemistry, Northeast Normal University, Changchun, 130024, PR China
| | - Qingkun Shang
- School of Chemistry, Northeast Normal University, Changchun, 130024, PR China.
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2
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Wang C, Bai FY, You ZX, Xing YH, Shi Z. Framework Materials Based on Naphthalenediimide Derivatives Supported by Aromatic Carboxylic Acids for Application as Multifunctional Fluorescence Sensors. CHEMPHOTOCHEM 2021. [DOI: 10.1002/cptc.202100211] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Chen Wang
- College of Chemistry and Chemical Engineering Liaoning Normal University Huanghe Road 850# Dalian 116029 P. R. China
| | - Feng Ying Bai
- College of Chemistry and Chemical Engineering Liaoning Normal University Huanghe Road 850# Dalian 116029 P. R. China
| | - Zi Xin You
- College of Chemistry and Chemical Engineering Liaoning Normal University Huanghe Road 850# Dalian 116029 P. R. China
| | - Yong Heng Xing
- College of Chemistry and Chemical Engineering Liaoning Normal University Huanghe Road 850# Dalian 116029 P. R. China
| | - Zhan Shi
- State Key Laboratory of Inorganic Synthesis and Preparative Chemistry College of Chemistry Jilin University Changchun 130012 P. R. China
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Jana P, Šupljika F, Schmuck C, Piantanida I. Naphthalene diimide bis-guanidinio-carbonyl-pyrrole as a pH-switchable threading DNA intercalator. Beilstein J Org Chem 2020; 16:2201-2211. [PMID: 32983268 PMCID: PMC7492691 DOI: 10.3762/bjoc.16.185] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2020] [Accepted: 08/26/2020] [Indexed: 12/16/2022] Open
Abstract
A novel naphthalene diimde analogue (NDI) equipped at the imide positions with two guanidinio-carbonyl-pyrrole (GCP) pendant arms interacted significantly stronger with ds-DNA at pH 5 than at pH 7, due to reversible protonation of the GCP arms. This was consequence of a pH-switchable threading intercalation into ds-DNAs only at pH 5, while at neutral conditions (pH 7) NDI-GCP2 switched to the DNA minor groove binding. Intriguingly, NDI-GCP2 was at both pH values studied bound to the ds-RNA major groove, still showing a higher affinity and thermal denaturation effect at pH 5 due to GCP protonation. At excess over the DNA/RNA conjugate NDI-GCP2 showed also aggregation along the ds-polynucleotide and AFM and DLS demonstrated that NDI-GCP2 has pronounced ds-DNA condensation ability.
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Affiliation(s)
- Poulami Jana
- Institute for Organic Chemistry, University of Duisburg-Essen, Universitässtrasse 7, 45141 Essen, Germany.,Integrated Science Education & Research Centre, Siksha-Bhavana, Visva-Bharati, Santiniketan-731235, India
| | - Filip Šupljika
- Division of Organic Chemistry and Biochemistry, Ruđer Bošković Institute, P. O. Box 180, HR-10002 Zagreb, Croatia.,Laboratory for Physical Chemistry and Corrosion, Department of Chemistry and Biochemistry, Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia
| | - Carsten Schmuck
- Institute for Organic Chemistry, University of Duisburg-Essen, Universitässtrasse 7, 45141 Essen, Germany
| | - Ivo Piantanida
- Division of Organic Chemistry and Biochemistry, Ruđer Bošković Institute, P. O. Box 180, HR-10002 Zagreb, Croatia
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4
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Islam MM, Fujii S, Sato S, Okauchi T, Takenaka S. Thermodynamics and kinetic studies in the binding interaction of cyclic naphthalene diimide derivatives with double stranded DNAs. Bioorg Med Chem 2015; 23:4769-4776. [PMID: 26081762 DOI: 10.1016/j.bmc.2015.05.046] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2015] [Revised: 05/22/2015] [Accepted: 05/24/2015] [Indexed: 10/23/2022]
Abstract
Previously, we reported our investigations of the interaction between a cyclic naphthalene diimide derivative (cNDI 1) and double stranded DNA (dsDNA) (Bioorg. Med. Chem.2014, 22, 2593). Here, we report the synthesis of the novel cNDI 2, which has shorter linker chains than cNDI 1. We performed comparative investigations of the interactions of both cNDI 1 and cNDI 2 with different types of dsDNA, including analysis of their thermodynamics and kinetics. Interactions between the cNDIs and calf thymus DNA (CT-DNA), poly[d(A-T)]2, or poly[d(G-C)]2 were explored by physicochemical and biochemical methods, including UV-Vis spectroscopy, circular dichroism (CD) spectroscopy, stopped-flow kinetics, and a topoisomerase I assay. Upon addition of cNDIs to CT-DNA, the existence of an induced CD signal at approximately the wavelength of the naphthalene diimide chromophore and unwinding of the DNA duplex, as detected by the topoisomerase I assay, revealed that cNDIs bound to the DNA duplex. As indicated by the steric constraint in the formation of the complex, bis-threading intercalation was the more favorable binding mode. UV-Vis spectroscopic titration of the cNDIs with DNA duplexes showed affinities on the order of 10(5)-10(6)M(-1), with a stoichiometry of one cNDI molecule per four DNA base pairs. Thermodynamic parameters (ΔG, ΔH, and ΔS) based on the van't Hoff equation indicated that exothermic and entropy-dependent hydrophobic interactions played a major role in the reaction. Stopped-flow association and dissociation analysis showed that cNDI interactions with poly[d(G-C)]2 were more stable and had a slower dissociation rate than their interactions with poly[d(A-T)]2 and CT-DNA. Measurement of ionic strength indicated that electrostatic attraction is also an important component of the interaction between cNDIs and CT-DNA. Because of its longer linker chain, cNDI 1 showed higher binding selectivity, a more entropically favorable interaction, and much slower dissociation from dsDNA than cNDI 2.
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Affiliation(s)
- Md Monirul Islam
- Department of Applied Chemistry, Kyushu Institute of Technology, Kitakyushu, Fukuoka 804-8550, Japan
| | - Satoshi Fujii
- Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, Iizuka, Fukuoka 820-8502, Japan
| | - Shinobu Sato
- Department of Applied Chemistry, Kyushu Institute of Technology, Kitakyushu, Fukuoka 804-8550, Japan
| | - Tatsuo Okauchi
- Department of Applied Chemistry, Kyushu Institute of Technology, Kitakyushu, Fukuoka 804-8550, Japan
| | - Shigeori Takenaka
- Department of Applied Chemistry, Kyushu Institute of Technology, Kitakyushu, Fukuoka 804-8550, Japan.
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5
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W. Gribble G, D. Mosher M, D. Jaycox G, Cory M, A. Fairley T. Potential DNA Bis-Intercalating Agents. Synthesis and Antitumor Activity of N,N'-(Methylenedi-4,1-cyclohexanediyl-bis(9-acridinamine) Isomers. HETEROCYCLES 2014. [DOI: 10.3987/com-13-s(s)77] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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6
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Hardebeck LKE, Johnson CA, Hudson GA, Ren Y, Watt M, Kirkpatrick CC, Znosko BM, Lewis M. Predicting DNA-intercalator binding: the development of an arene-arene stacking parameter from SAPT analysis of benzene-substituted benzene complexes. J PHYS ORG CHEM 2013. [DOI: 10.1002/poc.3184] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Laura K. E. Hardebeck
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
| | - Charles A. Johnson
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
| | - Graham A. Hudson
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
| | - Yi Ren
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
| | - Michelle Watt
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
| | - Charles C. Kirkpatrick
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
| | - Brent M. Znosko
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
| | - Michael Lewis
- Department of Chemistry; Saint Louis University; 3501 Laclede Avenue Saint Louis MO 63103 USA
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7
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Sierra S, Duskova K, Fernández MJ, Gude L, Lorente A. One-step template-directed synthesis of acridine-based rigid cyclophanes. Tetrahedron 2012. [DOI: 10.1016/j.tet.2012.08.003] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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8
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Avinash MB, Govindaraju T. Amino acid derivatized arylenediimides: a versatile modular approach for functional molecular materials. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2012; 24:3905-22. [PMID: 22714652 DOI: 10.1002/adma.201201544] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2012] [Indexed: 05/05/2023]
Abstract
Nature's elegant molecular designs and their assemblies with specific structure-property correlations have inspired researchers to design and develop bio-mimics for advanced functional applications. To realize such advanced molecular materials, naturally evolved amino acids are arguably the ideal auxiliaries due to their remarkable molecular/chiral recognition and distinctive sequence specific self-assembling properties. Over the years, this modular approach of derivatizing naphthalenediimides (NDIs) and perylenediimides (PDIs) with amino acids and peptides have resulted in several hitherto unknown molecular assemblies with phenomenal impact on their performance. Derivatization with versatile arylenediimides is especially interesting due to their wide spread applications in fields ranging from biomedicine to electronics. Herein some of these seminal reports of this rapidly emerging field and the design principles embraced are discussed.
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Affiliation(s)
- M B Avinash
- Bioorganic Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bangalore, India
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9
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Yu Y, Li Y, Chen S, Liu T, Qin Z, Liu H, Li Y. Synthesis of a Naphthalene-diimide Cyclophane for Tuning Supramolecular Interactions by Metal Ions. European J Org Chem 2012. [DOI: 10.1002/ejoc.201200169] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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10
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Holman GG, Zewail-Foote M, Smith AR, Johnson KA, Iverson BL. A sequence-specific threading tetra-intercalator with an extremely slow dissociation rate constant. Nat Chem 2011; 3:875-81. [PMID: 22024884 PMCID: PMC3209807 DOI: 10.1038/nchem.1151] [Citation(s) in RCA: 60] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2011] [Accepted: 08/17/2011] [Indexed: 12/02/2022]
Abstract
A long-lived and sequence specific ligand-DNA complex would make possible the modulation of biological processes for extended periods. We have been investigating the threading polyintercalation approach to DNA recognition in which chains of aromatic units thread back and forth repeatedly through the double helix. Here we report the preliminary sequence specificity and detailed kinetic analysis of a structurally characterized threading tetraintercalator. Specific binding on a relatively long DNA strand was observed, strongly favoring a predicted 14-base pair sequence. Kinetic studies revealed a multi-step association process and specificity was found to derive primarily from large differences in dissociation rates. Importantly, the rate-limiting dissociation rate constant of the tetraintercalator complex dissociating from its preferred binding site was extremely slow, corresponding to a 16 day half-life, making it one of the longer non-covalent complex half-lives yet measured, and, to the best of our knowledge, the longest for a DNA binding molecule.
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Affiliation(s)
- Garen G Holman
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712, USA
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11
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Jiao D, Biedermann F, Tian F, Scherman OA. A systems approach to controlling supramolecular architecture and emergent solution properties via host-guest complexation in water. J Am Chem Soc 2011; 132:15734-43. [PMID: 20945904 DOI: 10.1021/ja106716j] [Citation(s) in RCA: 68] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The assembly behavior of aryl/alkyl imidazolium ionic liquid salts in aqueous solution has been investigated. These salts undergo self-assembly into one-dimensional stacks via hydrophobic and π-π interactions upon increasing concentration, which led to a substantial increase in the solution viscosity in water. Addition of the macrocyclic host molecules cucurbit[n]urils (CB[n]) were found to effectively alter the supramolecular assemblies, as evidenced from the dramatic increase (by CB[7]) and decrease (by CB[8]) in solution viscosity and aggregation size in water, on account of the different binding stoichiometries, 1:1 complexation with CB[7] and 2:1 complexation with CB[8]. Furthermore, the aggregate architectures were controllably modified by competitive guests for the CB[n] hosts. This complex supramolecular systems approach has tremendous implications in the fields of molecular sensor design, nonlinear viscosity modification, and controlled release of target molecules from a defined supramolecular scaffold in water.
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Affiliation(s)
- Dezhi Jiao
- Melville Laboratory for Polymer Synthesis, Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom
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12
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Abstract
Dynamic combinatorial chemistry (DCC) is a powerful method for the identification of novel ligands for the molecular recognition of receptor molecules. The method relies on self-assembly processes to generate libraries of compounds under reversible conditions, allowing a receptor molecule to select the optimal binding ligand from the mixture. However, while DCC is now an established field of chemistry, there are limited examples of the application of DCC to nucleic acids. The requirement to conduct experiments under physiologically relevant conditions, and avoid reaction with, or denaturation of, the target nucleic acid secondary structure, limits the choice of the reversible chemistry, and presents restrictions on the building block design. This review will summarize recent examples of applications of DCC to the recognition of nucleic acids. Studies with duplex DNA, quadruplex DNA, and RNA have utilized mainly thiol disulfide libraries, although applications of imine libraries, in combination with metal coordination, have been reported. The use of thiol disulfide libraries produces lead compounds with limited biostability, and hence design of stable analogues or mimics is required for many applications.
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13
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Quinone methides tethered to naphthalene diimides as selective G-quadruplex alkylating agents. J Am Chem Soc 2010; 131:13132-41. [PMID: 19694465 DOI: 10.1021/ja904876q] [Citation(s) in RCA: 126] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We have developed novel G-quadruplex (G-4) ligand/alkylating hybrid structures, tethering the naphthalene diimide moiety to quaternary ammonium salts of Mannich bases, as quinone-methide precursors, activatable by mild thermal digestion (40 degrees C). The bis-substituted naphthalene diimides were efficiently synthesized, and their reactivity as activatable bis-alkylating agents was investigated in the presence of thiols and amines in aqueous buffered solutions. The electrophilic intermediate, quinone-methide, involved in the alkylation process was trapped, in the presence of ethyl vinyl ether, in a hetero Diels-Alder [4 + 2] cycloaddition reaction, yielding a substituted 2-ethoxychroman. The DNA recognition and alkylation properties of these new derivatives were investigated by gel electrophoresis, circular dichroism, and enzymatic assays. The alkylation process occurred preferentially on the G-4 structure in comparison to other DNA conformations. By dissecting reversible recognition and alkylation events, we found that the reversible process is a prerequisite to DNA alkylation, which in turn reinforces the G-quadruplex structural rearrangement.
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14
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Liu HK, Parkinson JA, Bella J, Wang F, Sadler PJ. Penetrative DNA intercalation and G-base selectivity of an organometallic tetrahydroanthracene RuII anticancer complex. Chem Sci 2010. [DOI: 10.1039/c0sc00175a] [Citation(s) in RCA: 61] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023] Open
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15
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Chen X, Fan J, Peng X, Wang J, Sun S, Zhang R, Wu T, Zhang F, Liu J, Wang F, Ma S. Bisintercalator-containing dinuclear iron(III) complex: An efficient artificial nuclease. Bioorg Med Chem Lett 2009; 19:4139-42. [DOI: 10.1016/j.bmcl.2009.06.003] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2009] [Revised: 05/29/2009] [Accepted: 06/01/2009] [Indexed: 01/13/2023]
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16
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Chu Y, Hoffman DW, Iverson BL. A pseudocatenane structure formed between DNA and A cyclic bisintercalator. J Am Chem Soc 2009; 131:3499-508. [PMID: 19236098 PMCID: PMC2733282 DOI: 10.1021/ja805676w] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Targeting double-stranded DNA with small molecules remains an active area of basic research. Herein is described a cyclic DNA bisintercalator that is based on two naphthalene diimide (NDI) intercalating units tethered by one linking element specific for binding in the minor groove and the other linking element specific for binding in the major groove. DNase I footprinting revealed a strong preference for binding the sequence 5'-GGTACC-3'. NMR structural studies of the complex with d(CGGTACCG)(2) verified a pseudocatenane structure in which the NDI units reside four base pairs apart, with one linker segment located in the minor groove and the other in the major groove consistent with the linker designs. To the best of our knowledge, this is the first structurally well-characterized pseudocatenane complex between a sequence specific cyclic bisintercalator and intact DNA.
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Affiliation(s)
- Yongjun Chu
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712, USA
| | - David W. Hoffman
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712, USA
| | - Brent L. Iverson
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712, USA
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17
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Kim MB, Dixon DW. Hydrolysis of aliphatic naphthalene diimides: effect of charge placement in the side chains. J PHYS ORG CHEM 2008. [DOI: 10.1002/poc.1334] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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18
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Rose KG, Jaber DA, Gondo CA, Hamilton DG. An Expedient Synthesis of Mellitic Triimides. J Org Chem 2008; 73:3950-3. [DOI: 10.1021/jo800185v] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kathryn G. Rose
- Department of Chemistry, Mount Holyoke College, 50 College Street, South Hadley, Massachusetts 01075
| | - Dina A. Jaber
- Department of Chemistry, Mount Holyoke College, 50 College Street, South Hadley, Massachusetts 01075
| | - Chenaimwoyo A. Gondo
- Department of Chemistry, Mount Holyoke College, 50 College Street, South Hadley, Massachusetts 01075
| | - Darren G. Hamilton
- Department of Chemistry, Mount Holyoke College, 50 College Street, South Hadley, Massachusetts 01075
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