Browsing by Subject "Rotaxanes"
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Item Open Access A [5]Rotaxane-Based photosensitizer for photodynamic therapy(WILEY‐VCH Verlag GmbH & Co. KGaA, Weinheim, 2019) Özkan, Melis; Keser, Yağmur; Hadi, Seyed Ehsan; Tuncel, DönüşA [5]rotaxane was synthesized through a catalytically self‐threading reaction in which CB6 serves as a macrocycle and acts as a catalyst for the 1,3‐dipolar cycloaddition reaction between the alkyne substituted porphyrin core and azide functionalized stopper groups by forming triazole. Application of this rotaxane as a photosensitizer in photodynamic therapy against cancer cells and in bacteria inactivation have also been demonstrated. This photosensitizer has an excellent water solubility and remains stable in biological media at physiological pH (7.4) for prolonged times. It has the ability to generate singlet oxygen efficiently; while it shows no dark cytotoxicity up to 300 µm to the MCF7 cancer cell line, it is photocytotoxic even at 2 µm and reduces the cell viability to around 70 % when exposed to white light. It also displays light‐triggered biocidal activity both against gram‐negative bacteria (Escherichia coli, E. coli) and gram‐positive bacteria (Bacillus subtilis). Upon white light irradiation for 1 min with a flux of 22 mW/cm2 of E. coli suspension incubated with [5]rotaxane (3.5 µm), a killing efficiency of 96 % is achieved, whereas in the dark the effect is recorded as only around 9 %.Item Open Access Facile synthesis of cross-linked patchy fluorescent conjugated polymer nanoparticles by click reactions(2011) İbrahimova, V.; Ekiz, S.; Gezici, Ö.; Tuncel, D.Here, we report a novel method to synthesize multifunctional nanoparticles that can be used in biological studies, such as in cell imaging and as a carrier for biomolecules/drugs. The nanoparticles were prepared either via Cu-catalyzed or cucurbit[6]uril (CB6)-catalyzed click reactions between azide groups containing hydrophobic blue, green and yellow emitting fluorene-based conjugated polymers and a hydrophilic diaminodialkyne containing cross-linker. Through the click reaction, not only does the cross-linking confer stability, but it also introduces functional groups, such as triazoles and amines, to the nanoparticles. Moreover, CB6 not only acted as a catalyst to facilitate the copper-free click reaction, but it also allowed us to obtain nanoparticles containing rotaxanes in which the triazole units were encapsulated by CB6 units. TEM images of the nanoparticles also showed that they display very interesting morphologies. Incorporation of hydrophilic functional groups to the hydrophobic conjugated polymers resulted in a distinct phase separation, producing Janus-like or patchy particles.Item Open Access pH-responsive rotaxanes and polypseudorotaxanes(Bilkent University, 2007) Tiftik, Hasan BurakIn this study, a series of mechanically interlocked molecules like polypseudorotaxanes, rotaxanes and pseudorotaxanes have been synthesized via CB6 catalyzed 1,3-dipolar cycloaddition using diazide and dialkyne monomers, which contain long dodecyl and short propyl aliphatic spacers. To reach these novel interlocked molecules, first appropriate monomeric units were designed and synthesized. These monomeric units were diazido and dialkyne functionalized, propyl and dodecyl spacers containing, diamine salts. These monomers were fully characterized by spectroscopic techniques like 1H, 13C-NMR and FT-IR and elemental analysis. After the preparation of the monomers, polypseudorotaxanes were synthesized via CB6 catalyzed 1,3-dipolar cycloaddition. The polymer formation proceeded through step-growth polymerization in the presence of CB6. The reaction was followed by 1H-NMR spectroscopy easily, because the appearance of a diagnostic peak at 6.5 ppm indicated the formation of triazole ring, which joins the monomers. The polypseudorotaxane was also characterized by spectroscopic techniques like 1H, 13C-NMR and FT-IR and matrix assisted laser desorption time-of-flight mass spectrometry (MALDI-TOF MS). It produced a maximum mass at around 15600 Da which corresponds to about six repeating units that is basically 12 CB6s threaded triazoles. The experimental results reveal that this polypseudorotaxane behaves as a pH-driven polymeric switch. Thus, when amine groups are protonated at an appropriate pH, CB6s are located on the triazole rings due to ion–dipole interaction, whereas at high pH they move onto the hydrophobic aliphatic spacer rather than slipping off the polypseudorotaxane. After the synthesis of the polypseudorotaxanes, a series of rotaxanes and pseudorotaxanes have also been synthesized using the already prepared dialkyne and diazide monomers. Rotaxanation was also carried out via a 1, 3-dipolar cycloaddition reaction catalyzed by CB6. Among them, a bistable CB6-based [3]rotaxane synthesized through CB6 catalyzed 1,3-dipolar cycloaddition contains two recognition sites and behaves as a reversible molecular switch. It exhibits conformational changes caused by the movement of rings under base, acid and heat stimuli from one location to the other.Item Open Access pH-triggered dethreading-rethreading and switching of cucurbit[6]uril on bistable [3]pseudorotaxanes and [3]rotaxanes(2008) Tuncel, D.; Katterle, M.A series of water-soluble [3]rotaxanes-(n+2) and [3]pseudorotaxanes-(n+2) with short (propyl, n=1) and long (dodecyl, n=10) aliphatic spacers have been prepared in high yields by a 1,3-dipolar cycloaddition reaction catalyzed by cucurbit[6]uril (CB6). The pH-triggered dethreading and rethreading of CB6 on these pseudorotaxanes was monitored by 1H NMR spectroscopy. A previously reported [3]rotaxane-12 that is known to behave as a bistable molecular switch has two recognition sites for CB6, that is, the diaminotriazole moieties and the dodecyl spacer. By changing the pH of the system, it is possible to observe more than one state in the shuttling process. At low pH values both CB6 units are located on the diaminotriazole moieties owing to an ion-dipole interaction, whereas at high pH values both of the CB6 units are located on the hydrophobic dodecyl spacer. Surprisingly, the CB6 units shuttle back to their initial state very slowly after reprotonation of the axle. Even after eighteen days at room temperature, only about 50 % of the CB6 units had relocated back onto the diaminotriazole moieties. The rate constants for the shuttling processes were measured as a function of temperature over the range from 313 to 333 K and the activation parameters (enthalpy, entropy, and free energy) were calculated by using the Eyring equation. The results indicate that this [3]rotaxane behaves as a kinetically controlled molecular switch. The switching properties of [3]rotaxane-3 have also been studied. However, even under extreme pH conditions this rotaxane has not shown any switching action, which confirms that the propyl spacer is too short to accommodate CB6 units.Item Open Access Rotaxanes and polyrotaxanes based on cucurbit[6]uril and porphyrin(Bilkent University, 2005) Cındır, NesibeItem Open Access Sequence-specific self-sorting of the binding sites of a ditopic guest by cucurbituril homologues and subsequent formation of a hetero[4]pseudorotaxane(2009) Celtek, G.; Artar, M.; Scherman, O. A.; Tuncel, D.Ties us together: The selectivity and recognition behavior of cucurbit[n]uril (CB[n]) homologues (n = 6,7,8) towards a ditopic guest containing two distinct binding sites is explored. CB6, CB7, and CB8 recognize and self-sort the binding sites according to their size, shape, and chemical nature. In the presence of both CB6 and CB8 a hetero[4]pseudorotaxane is formed. © 2009 Wiley-VCH Verlag GmbH & Co. KGaA.Item Open Access Supramolecular assemblies constructed by cucurbituril-catalyzed click reaction(2011) Tuncel, D.; Ünal, Ö.; Artar, M.Cucurbituril homologues are multi-functional macrocycles that can find applications in many areas and have numerous interesting features setting them apart from the other macrocycles. Among them, the ability of one of the cucurbituril homologues, cucurbit[6]uril (CB6), to catalyze 1,3- dipolar cycloaddition in a regiospecific fashion is truly exceptional. Using this feature, small molecules can be clicked together to form complex structures in a very efficient way. Accordingly, in this article we review recent research involving the use of CB6-catalyzed 1,3-dipolar cycloaddition or the click reaction of CB6 in the construction of supramolecular assemblies including rotaxanes, pseudorotaxanes, polyrotaxanes, polypseudorotaxanes, molecular switches, machines, and nanovalves.Item Open Access Supramolecular chemistry of cucurbit[n]uril homologues with a ditopic guest and light emitting conjugated polymers(Bilkent University, 2011) Artar, MügeThe general objective of this thesis is to explore the ability of cucurbit[n]uril (CB[n]) (n= 6,7,8) homologues to form nano-structured supramolecular assemblies with various organic guests through self-sorting, self-assembly and recognition. In the first part of the thesis, the selectivity and recognition properties of CB[n] homologues towards a ditopic guest have been investigated. The guest was synthesized through Cu(I)-catalyzed click reaction between the salts of N,N'-bis-(2- azido-ethyl)-dodecane-1,12-diamine and propargylamine and contain two chemically and geometrically distinct recognition sites, namely, a flexible and hydrophobic dodecyl spacer and a five-membered triazole ring terminated with ammonium ions. Complex formation between the guest and CB[6], CB[7] and CB[8] in the ratios of 1:2, 1:1 and 1:1, respectively, was confirmed by 1H NMR spectroscopy and mass spectrometry. It was also revealed that CB[n] homologues have ability to self-sort and recognise the guests according to their chemical nature, size and shape. Kinetic formation of a hetero[4]pseudorotaxane via sequence-specific self-sorting was confirmed and controlled by the order of the addition. In the second part, the effect of CB[n] homologues on the dissolution and the photophysical properties of non-ionic conjugated polymers in water were investigated. A fluorene-based polymer, namely, poly[9,9-bis{6(N,N dimethylamino)hexyl}fluorene-co-2,5-thienylene (PFT) was synthesized via Suzuki coupling and characterization was performed by spectroscopic techniques including 1D and 2D NMR(Nuclear Magnetic Resonans), UV–vis, fluorescent spectroscopy, and matrix-assisted laser desorption mass spectrometry (MALDI-MS)(Matrix Assisted Laser Desorption/Ionization Mass Spectroscopy ). The interaction of CB[6], CB[7] and CB[8] with PFT have been investigated and it was observed that only CB[8] among other CB homologues forms a water-soluble inclusion complex with PFT. Furthermore, upon complex formation a considerable enhancement in the fluorescent quantum yield of PFT in water was observed. The structure of resulting PFT@CB[8] complex was characterized through 1H-NMR and selective 1DNOESY(The Nuclear Overhauser Enhancement Spectroscopy) and further investigated by imaging techniques (e.g. AFM(Atomic Force Microscopy), SEM(Scanning Electron Microscopy), TEM(Transmission Electron Microscopy) and fluorescent optical microscopy) to reveal the morphology. The results suggested that through CB[8]-assisted self-assembly of PFT polymer chains vesicle-like nanostructures formed. The sizes of nanostructures were also determined using dynamic light scattering (DLS(Dynamic Light Scattering)) measurements.