CD Stretching Modes are Sensitive to the Microenvironment in Ionic Liquids.

Knowledge of the structure of the electrical double layer in ionic liquids (IL) is crucial for their applications in electrochemical technologies. We report the synthesis and applicability of an imidazolium-based amphiphilic ionic liquid with a perdeuterated alkyl chain for studies of electric potential-dependent rearrangements, and changes in the microenvironment in a monolayer on a Au(111) surface. Electrochemical measurements show two states of the organization of ions on the electrode surface. In situ IR spectroscopy shows that the alkyl chains in imidazolium cations change their orientation depending on the adsorption state. The methylene-d2 stretching modes in the perdeuterated IL display a reversible, potential-dependent appearance of a new band. The presence of this mode also depends on the anion in the IL. Supported by quantum chemical calculations, this new mode is assigned to a second νas (CD2 ) band in alkyl-chain fragments embedded in a polar environment of the anions/solvent present in the vicinity of the imidazolium cation and electrode. It is a measure of the potential-dependent segregation between polar and nonpolar environments in the layers of an IL closest to the electrode.

What Does Ectoine Do to DNA? A Molecular-Scale Picture of Compatible Solute-Biopolymer Interactions.

Compatible solutes accumulate in the cytoplasm of halophilic microorganisms, enabling their survival in a high-salinity environment. Ectoine is such a compatible solute. It is a zwitterionic molecule that strongly interacts with surrounding water molecules and changes the dynamics of the local hydration shell. Ectoine interacts with biomolecules such as lipids, proteins, and DNA. The molecular interaction between ectoine and biomolecules, in particular the interaction between ectoine and DNA, is far from being understood. In this paper, we describe molecular aspects of the interaction between ectoine and double-stranded DNA (dsDNA). Two 20 base pairs-long dsDNA fragments were immobilized on a gold surface via a thiol-tether. The interaction between the dsDNA monolayers with diluted and concentrated ectoine solutions was examined by means of X-ray photoelectron and polarization modulation infrared reflection absorption spectroscopies (PM IRRAS). Experimental results indicate that the ability of ectoine to bind water reduces the strength of hydrogen bonds formed to the ribose-phosphate backbone in the dsDNA. In diluted (0.1 M) ectoine solution, DNA interacts predominantly with water molecules. The sugar-phosphate backbone is involved in the formation of strong hydrogen bonds to water, which, over time, leads to a reorientation of the planes of nucleic acid bases. This reorientation destabilizes the strength of hydrogen bonds between the bases and leads to a partial dehybridization of the dsDNA. In concentrated ectoine solution (2.5 M), almost all water molecules interact with ectoine. Under this condition, ectoine is able to interact directly with DNA. Density functional theory (DFT) calculations demonstrate that the direct interaction involves the nitrogen atoms in ectoine and phosphate groups in the DNA molecule. The results of the quantum-chemical calculations show that rearrangements in the ribose-phosphate backbone, caused by a direct interaction with ectoine, facilitates contacts between the O atom in the phosphate group and H atoms in a nucleic acid base. In the PM IRRA spectra, an increase in the number of IR absorption modes in the base pair frequency region proves that the hydrogen bonds between bases become weaker. Thus, a sequence of reorientations caused by interaction with ectoine leads to a breakdown of hydrogen bonds between bases in the double helix.

Silyl Chalconium Ions: Synthesis, Structure and Application in Hydrodefluorination Reactions.

The synthesis of two series of silylated chalconium borates, 9 and 10, which are based on the peri-naphthyl and peri-acenaphthyl framework, is reported (chalcogen (Ch): O, S, Se, Te). NMR investigations of the selenium- and tellurium-containing precursor silanes 3 d-f and 8 d, f revealed a significant through-space J-coupling between the chalcogen nuclei and the Me2 SiH group. Experimental and computational results typify the synthesized cations 9 and 10 as chalconium ions. The imposed ring strain weakens the Si-Ch linkage compared to acyclic chalconium ions. This attenuation of the Si-Ch bond strength is more pronounced in the acenaphthene series. Surprisingly, the Si-O bonds in oxonium ions 9 a and 10 a are the weakest Si-Ch linkage in both series. The synthesized silyl chalconium borates are active in hydrodefluorination reactions of alkyl fluorides with silanes. A cooperative activation of the silane by the Lewis acidic (silicon) and by the Lewis basic side (chalcogen) is suggested.