Folding and Anion‐Binding Properties of Fluorescent Oligoindole Foldamers

A series of oligoindole foldamers 1 a – d that are highly fluorescent were prepared by using a biindole derivative as the repeating unit, and their folding and anion‐binding properties were revealed by ¹H NMR and fluorescence spectroscopy. The oligoindoles exist in an extended conformation, but adopt a compact helical structure in the presence of an anion. The anion is entrapped inside the tubular cavity of the helical strand, comprising four aryl units per turn, by multiple hydrogen bonds with the indole NHs. These structural features were confirmed by ¹H NMR and fluorescence spectroscopy. When folded by anion binding, 1 b – d show characteristic downfield shifts of the NH signals and upfield shifts of the aromatic CH signals by Δδ=0.1–1.0 ppm. The average chemical shift for all the aromatic signals of 1 a – d is more upfield shifted as the chain lengthens, as anticipated from the degree of overlapped aromatic surfaces in the helical strand. Moreover, 1 a – d are strongly fluorescent in the absence of an anion. Upon binding an anion such as a chloride, the shorter oligoindoles 1 a and b lead to negligible change in the emission spectra, whereas the longer ones 1 c and d result in dramatic changes, that is, large hypochromic and bathochromic shifts (Δλ=65 and 70 nm) of the emission band, confirming the helical folding. The association constants (K_a) between oligoindoles and tetrabutylammonium chloride strongly depend on the chain length; <1 M ^?1 for 1 a , 630 M ^?1 for 1 b , 1.1×10⁵ M ^?1 for 1 c , and 2.9×10⁵ M ^?1 for 1 d in 20 % (v/v) MeOH/CH₂Cl₂ at 24±1 °C. In addition, the association constants of 1 c and 1 d with other anions such as fluoride, bromide, iodide, azide, cyanide, acetate, and nitrate are determined to be in the order of 10³–10⁶ M ^?1 under the same conditions.     

π–π Stacking Interaction in an Oxidized CuII–Salen Complex with a Side-Chain Indole Ring: An Approach to the Function of the Tryptophan in the Active Site of Galactose Oxidase

In order to gain new insights into the effect of the π–π stacking interaction of the indole ring with the Cu^II–phenoxyl radical as seen in the active form of galactose oxidase, we have prepared a Cu^II complex of a methoxy-substituted salen-type ligand, containing a pendent indole ring on the dinitrogen chelate backbone, and characterized its one-electron-oxidized forms. The X-ray crystal structures of the oxidized Cu^II complex exhibited the π–π stacking interaction of the indole ring mainly with one of the two phenolate moieties. The phenolate moiety in close contact with the indole moiety showed the characteristic phenoxyl radical structural features, indicating that the indole ring favors the π–π stacking interaction with the phenoxyl radical. The UV/Vis/NIR spectra of the oxidized Cu^II complex with the pendent indole ring was significantly different from those of the complex without the side-chain indole ring, and the absorption and CD spectra exhibited a solvent dependence, which is in line with the phenoxyl radical–indole stacking interaction in solution. The other physicochemical results and theoretical calculations strongly support that the indole ring, as an electron donor, stabilizes the phenoxyl radical by the π–π stacking interaction.     

Affinity of the anthracycline antitumor drugs Doxorubicin and Sabarubicin for human telomeric G-quadruplex structures

Combining various techniques in solution we proved that Doxorubicin, also called Adriamycin, and Sabarubicin, also known as MEN 10755, bind to the human telomeric sequence, 5'-d[GGG(TTAGGG)(3)]-3' (21-mer), assuming a G-quadruplex structure in the presence of K(+). Complexes of drugs with the 21-mer in 1?:?1 and 2?:?1 stoichiometry coexist in solution. Association constants were obtained from titration experiments and confirmed by isothermal titration calorimetry. The fluorescence of the drugs was quenched upon complexation. UV circular dichroism (CD) spectra of the complexes were characterized by the G-quadruplex signal and indicated that drug binding influences the equilibrium between quadruplex conformations. The visible CD spectra were exclusively due to the drug and show differences in the complexation modes of the two drugs. Spectroscopic and thermodynamic parameters of the 1?:?1 complexes point to drug stacking with the G-quadruplex top or bottom tetrad. Thermodynamic data suggests that the binding of the second drug molecule in the 2?:?1 complex may occur in a groove. Complexation caused a small increase in the thermal stability of the G-quadruplex main conformation, shifting T(m) from 62 to 67 °C.     

Indolocarbazole-based foldamers capable of binding halides in water

A series of indolocarbazole-based foldamers have been prepared which can fold into a helical array with an internal cavity encircled by multiple indole NHs, thus allowing for binding anions by hydrogen bonds. The helical folding has been confirmed by computer modeling, 1H NMR spectroscopy, 2D ROESY experiments, and binding studies. A water-soluble derivative binds small, hydrophilic anions in the order Cl- > F- > Br- but negligibly with large, diffuse anions such as I- and ClO4-. Interestingly, the relative binding affinities of the fluoride and chloride ions in water are opposite to each other in an organic medium 4:1 (v/v) DMSO/MeOH, possibly due to the difference in the competing solvation energy.     

Triazole- and triazolium-containing porphyrin-cages for optical anion sensing

Triazole and triazolium groups have been integrated into a zinc(II) metalloporphyrin-based structural framework to produce two porphyrin-cages for anion sensing applications. UV/visible spectroscopic titration investigations reveal both host systems exhibit strong anion binding affinities, with the positively-charged triazolium-porphyrin cage capable of colorimetric sensing halides, fluoride and chloride, and oxoanions in acetone-water solvent mixtures.     

Biased helical folding of chiral oligoindole foldamers

Oligoindole-based chiral foldamers have been synthesized by incorporating (S)- or (R)-1-phenylethylamine to both ends of the tetraindole scaffold. The oligoindoles fold into a helical conformation upon binding an anion by hydrogen bonds, which gives rise to an induced circular dichroism (CD) signal of large amplitude, implying the preferential formation of one helical isomer over another. Theoretical calculations suggest that the (P)-helix of the (S,S)-oligoindole 8a be more energetically stable than the corresponding (M)-helix.     

Photocontrol Over Self‐Assembled Nanostructures of π–π Stacked Dyes Supported by the Parallel Conformer of Diarylethene

Diarylethenes (DAEs) have rarely been used in the design of photoresponsive supramolecular assemblies with a well‐defined morphology transition owing to rather small structural changes upon photoisomerization. A supramolecular design based on the parallel conformation of DAEs enables the construction of photoresponsive dye assemblies that undergo remarkable nanomorphology transitions. The cooperative stacking of perylene bisimide (PBI) dyes was used to stabilize the parallel conformer of DAE through complementary hydrogen bonds. Atomic force microscopy, UV/Vis spectroscopy, and molecular modeling revealed that our DAE and PBI building blocks coassembled in nonpolar solvent to form well‐defined helical nanofibers featuring J‐type dimers of PBI dyes. Upon irradiating the coassembly solution with UV and visible light in turn, a reversible morphology change between nanofibers and nanoparticles was observed. This system involves the generation of a new self‐assembly pathway by means of photocontrol.     

Photodegradation of environmental mutagens by visible irradiation in the presence of xanthene dyes as photosensitizers

The photodegradation of environmental mutagens, such as 3-amino-1,4-dimethyl-5H-pyrido[4,3-b]indole (Trp-P-1), 3-amino-1-methyl-5H-pyrido[4,3-b]indole (Trp-P-2), 2-amino-3-methyl-9H-pyrido[2,3-b]indole (MeAαC), and 2-amino-3-methyl-imidazo[4,5-f]quinoline (IQ), was investigated by visible irradiation in the presence of xanthene dyes as photosensitizers. Although the environmental mutagens themselves were very stable during visible irradiation under the conditions in this study, they were effectively photodegraded in the presence of the xanthene dyes (erythrosine, rose bengal, and phloxine). Moreover, photodegradation of the mutagens was further enhanced for xanthene dyes loaded onto a water-soluble diethylaminoethyl (DEAE)-dextran anion-exchanger via ionic interactions (xanthene-dyeDEX). Photodegradation was inhibited by O2 removal from the reaction solution. In ESR spin-trapping experiments using 5,5-dimethyl-1-pyrroline-N-oxide (DMPO) as a trapping reagent, signals characteristic of DMPO-?OH (hydroxyl radical) were observed in the presence of xanthene-dyeDEX. These results suggest that reactive oxygen species derived from O2, such as singlet molecular oxygen (?1O2) and/or ?OH, were active participants in photodegradation of the mutagens in the presence of xanthene dyes or xanthene-dyeDEX.     

Synthesis and Characterization of Polyindole/Poly(vinyl acetate) Conducting Composites

Composites of a polyindole (PIN) and poly(vinyl acetate) (PVAc) were prepared chemically using FeCl₃ as an oxidant agent in anhydrous media. The composite compositions were altered by varying the indole monomer during preparation. The composites were characterized by FTIR and UV‐visible spectroscopies, thermogravimetric analysis (TGA), differential scanning calorimetry (DSC), scanning electron microscopy (SEM), stress‐strain experiments and conductivity measurements. Moreover, the film of PVAc and PIN/PVAc composites were prepared by casting on glass Petri dishes to examine their stress‐strain properties. PIN/PVAc composites are thermally more stable than PIN. It was found that the conductivities of PIN/PVAc composites depend on the indole content in the composites.     

Phenanthroline dicarboxamide-based helical foldamers: stable helical structures in methanol

A series of new aromatic oligoamides 2-5 based on 1,10-phenanthroline diacid and o-phenylenediamine have been synthesized through a convergent segment coupling strategy. These oligomers can fold into well-defined helical structures in solution through intramolecular hydrogen bonds and aromatic stacking interactions, which has been established by 1H NMR, fluorescence, and UV/vis spectra. In particular, it was found that the oligomers were more favorable to fold into stable helical structures in methanol than in chloroform and dichloromethane. The helical foldamers formed in the solid state have been characterized by single-crystal X-ray diffraction analysis. The results showed that the high curvature of the strands led to one and a half turns for both 2 and 21, three turns for 4, and nearly four turns for 5.     

Studies on the Binding Mode of Pinacyanol Chloride to Nucleic Acids

The interaction of pinacyanol chloride(PC) with nucleic acids has been investigated by a series of experiments.Extensive hypochromism,appreciable peak shifts,isosbestic points and new peaks of the product of binding to nucleic acids in the spectra were observed.They showed that the interaction between PC and nucleic acids occurred.The results from absorption spectra of DNA,DNA melting,electrophoresis and fluorescence polarization studies have indicated that PC binds to DNA in nonintercalative way.Consistent with the nonintercalation,the studies of fluorescence titration and absorption titration specified that the binding of PC to nucleic acids occurred by an outside stacking binding,in which nucleic acids served for acting templates,The fact that the new absorption peaks of bound PC at ca,485nm are just close to the absorption bands of Haggregate of PC at high concentrations without DNA further supports the outside stacking binding mode,In addition,other evidence indicated that the interaction between PC and nucleic acids is not purely electrostatic.     

A FLUORESCENCE STUDY OF THE INTERACTION OF INDOLIC COMPOUNDS WITH SYNTHETIC POLYELECTROLYTES

Abstract— –The interaction of indole derivatives with synthetic polyelectrolytes was investigated using UV absorption and fluorescence spectroscopy. The presence of both sodium poly(styrene sulfonate) (PSS) and sodium polyvinyl sulfonate) (PVS) inhibits the fluorescence quenching of 1-pyrene sulfonic acid by tryptamine. The effect is more marked for PSS than for PVS. There was no polyelectrolyte effect on the quenching by tryptophan. It was also found that aromatic polyelectrolytes strongly quench the fluorescence of indole derivatives of opposite charge by a static mechanism. This is accompanied by a new absorption in the red extreme of the UV spectrum of the mixtures. The systems investigated were tryptamine-PSS and polyvinyl benzyl trimethylammonium chloride) with the anions of indole-3-alkanoic acids. Equilibrium constants for the binding of the indole derivatives to the polyelectrolytes were determined. The fluorescence of zwitterionic tryptophan is not affected by the presence of the polyelectrolytes.     

Self-assembly vesicles made from a cyclodextrin supramolecular complex

Self-assembly vesicles have been made from a cyclodextrin (CD) supramolecular complex, which is cooperatively formed with natural beta-CD, 1-naphthylammonium chloride (NA), and sodium bis(2-ethyl-1-hexyl)sulfosuccinate (AOT) by weak noncovalent interactions. In the complex structure, a NA molecule is included inside a beta-CD molecule while it is coupled with an AOT molecule on one side. The supramolecular structure and morphology of the vesicles were characterized by transmission electron microscopy (TEM) and dynamic light scattering (DLS), respectively. The mechanism of vesicle formation and transition is discussed along with the data obtained from induced circular dichroism (ICD) and UV/visible spectroscopy, polarized optical microscopy (POM), and (1)H NMR spectroscopy. Both the fabrication and the transition of vesicles are controlled by the inclusion equilibria and the cooperative binding of noncovalent interactions, which include the "key-lock" principle, electrostatic interactions, pi-pi stacking, and amphiphilic hydrophobic association.     

Interactions of Safranin T with Nucleic Acids

The interactions of Safranin T (ST) with several nucleic acids have been investigated by electrochemical, UV‐visible and CD spectroscopic techniques. The form of the nucleic acid‐ST complexes is sensitive to the ratio of the two species. Two electrochemically inactive complexes such as, nucleic acid‐ST and nucleic acid‐2ST, were formed while ST interacts with nucleic acids. Two processes were obtained from spectral experiments: (1) at the high value of R (R is defined as the ratio of the total concentration of ST to that of nucleic acid), ST is groove‐binding with stacking, (2) at the low value of R, ST is groove‐binding without stacking. Intrinsic binding constants were obtained by spectral methods. The experiments also show that electrostatic binding plays an important role in the interaction of ST with nucleic acids.     

Light‐Gated Rotation in a Molecular Motor Functionalized with a Dithienylethene Switch

A multiphotochromic hybrid system is presented in which a light‐driven overcrowded alkene‐based molecular rotary motor is connected to a dithienylethene photoswitch. Ring closing of the dithienylethene moiety, using an irradiation wavelength different from the wavelength applied to operate the molecular motor, results in inhibition of the rotary motion as is demonstrated by detailed ¹H‐NMR and UV/Vis experiments. For the first time, a light‐gated molecular motor is thus obtained. Furthermore, the excitation wavelength of the molecular motor is red‐shifted from the UV into the visible‐light region upon attachment of the dithienylethene switch.     

Influence of helical twisting power on the photoswitching behavior of chiral azobenzene compounds: applications to high-performance switching devices

Five photochromic chiral azobenzene compounds and one nonphotochromic chiral compound were synthesized and characterized by IR, 1H NMR spectroscopy, and elemental analysis. Cholesteric liquid crystalline phases were induced by mixing of the nonphotochromic chiral compound and one of the photochromic chiral azobenzene compounds in a host nematic liquid crystal (E44). The helical pitch of the induced cholesteric phase was determined by Cano's wedge method and the helical twisting power (HTP) of each sample was thus determined. The helical twisting powers of azobenzene compounds were decreased upon UV irradiation, due to trans-->cis photoisomerization of azobenzene molecules. Among the azobenzene compounds synthesized in our study, Azo-5, with isomannide (radical) as chiral photochromic dopant, showed the highest HTP and contrast ratio (Tmax/Tmin). Photoswitching between compensated nematic phase and cholesteric phase was achieved through reversible trans<-->cis photoisomerization of the chiral azobenzene molecules through irradiation with UV and visible light, respectively. Transmission rates (contrast ratios) increased with decreasing helical pitch length in the induced cholesteric phase. The influence of helical twisting power on the photoswitching behavior of chiral azobenzene compounds is discussed in detail.     

Aromatic stacking of a perylenetetracarboxylic tetraester: Self-assembly in both water and chloroform

The self-assembly features of a water soluble perylenetetracarboxylic tetraester (PTTE) have been investigated by concentration dependent UV–Vis, steady-state fluorescence, and ¹H NMR titration experiments. The results showed that the PTTE molecules self-assemble cooperatively to form supramolecular aggregates in both water and chloroform by the combined action of hydrophobic effects, hydrogen bonding, and π–π stacking. To determine the mechanism of aggregation, the Goldstein–Stryer nucleation-elongation model was applied to the concentration-dependent data, starting from a dimeric nucleus. Scanning electron microscopy revealed different morphologies for assemblies stemming from different aggregation propensities of the monomers in water and chloroform.     

Optoelectronic and Self‐assembly Properties of Porphyrin Derivatives with Click Chemistry Modification

A series of functionalized porphyrin molecules containing electron‐rich alkynes, synthesized by means of the Sonogashira coupling reaction were further modified by reacting the ethynyl groups with click reagent through a formal [2+2] click reaction. The photophysical and electrochemical properties of the porphyrin derivatives were studied by UV/Vis spectroscopy and cyclic voltammetry. We show that the optoelectronic properties are affected by the click reagent groups and central metal ions. The functionalized porphyrin molecules show strong charge‐transfer (CT) bands in the visible region (near‐IR region) and potent redox activities. Through a phase‐exchange self‐assembly method, the highly organized morphologies were observed by scanning electron microscopy (SEM). The functionalized porphyrin molecules represent an interesting set of candidates for optoelectronic device components. The effect of the metal ions or click reagent groups on the self‐assembly properties were also studied by the UV/Vis spectroscopic titration experiments.     

Dramatic Enhancement of Binding Affinities Between Foldamer‐Based Receptors and Anions by Intra‐Receptor π‐Stacking

As a synthetic model for intra‐protein interactions that reinforce binding affinities between proteins and ligands, the energetic interplay of binding and folding was investigated using foldamer‐based receptors capable of adopting helical structures. The receptors were designed to have identical hydrogen‐bonding sites for anion binding but different aryl appendages that simply provide additional π‐stacking within the helical backbones without direct interactions with the bound anions. In particular, the presence of electron‐deficient aryl appendages led to dramatic enhancements in the association constant between the receptor and chloride or nitrate ions, by up to three orders of magnitude. Extended stacking within the receptor contributes to the stabilization of the entire folding structure of complexes, thereby enhancing binding affinities.     

Control of H‐ and J‐Type π Stacking by Peripheral Alkyl Chains and Self‐Sorting Phenomena in Perylene Bisimide Homo‐ and Heteroaggregates

The synthesis, self‐assembly, and gelation ability of a series of organogelators based on perylene bisimide (PBI) dyes containing amide groups at imide positions are reported. The synergetic effect of intermolecular hydrogen bonding among the amide functionalities and π–π stacking between the PBI units directs the formation of the self‐assembled structure in solution, which beyond a certain concentration results in gelation. Effects of different peripheral alkyl substituents on the self‐assembly were studied by solvent‐ and temperature‐dependent UV‐visible and circular dichroism (CD) spectroscopy. PBI derivatives containing linear alkyl side chains in the periphery formed H‐type π stacks and red gels, whereas by introducing branched alkyl chains the formation of J‐type π stacks and green gels could be achieved. Sterically demanding substituents, in particular, the 2‐ethylhexyl group completely suppressed the π stacking. Coaggregation studies with H‐ and J‐aggregating chromophores revealed the formation of solely H‐type π stacks containing both precursor molecules at a lower mole fraction of J‐aggregating chromophore. Beyond a critical composition of the two chromophores, mixed H‐aggregate and J‐aggregate were formed simultaneously, which points to a self‐sorting process. The versatility of the gelators is strongly dependent on the length and nature of the peripheral alkyl substituents. CD spectroscopic studies revealed a preferential helicity of the aggregates of PBI building blocks bearing chiral side chains. Even for achiral PBI derivatives, the utilization of chiral solvents such as (R)‐ or (S)‐limonene was effective in preferential population of one‐handed helical fibers. AFM studies revealed the formation of helical fibers from all the present PBI gelators, irrespective of the presence of chiral or achiral side chains. Furthermore, vortex flow was found to be effective in macroscopic orientation of the aggregates as evidenced from the origin of CD signals from aggregates of achiral PBI molecules.