DNA Interaction with Coordination Compounds of Cd(II)containing 1,10-Phenanthroline.

The experimental study of the DNA interaction with three cadmium coordination compounds [Cd(phen)](CHCO), [Cd(phen)(HO)](CHCO), and [Cd(phen)(HO)](CHCO) was carried out using spectrophotometry, viscosity, and dynamic light scattering methods. The role of the solution ionic strength (concentration of NaCl) was analyzed. All compounds can penetrate (fully or partly) to the major or minor DNA grooves.

Electrostatic Interactions in the Formation of DNA Complexes with Cis- and Trans-Isomers of Azobenzene-Containing Surfactants in Solutions with Di- and Trivalent Metal Ions.

The effect of the presence of divalent and trivalent metal ions in solutions upon DNA packaging induced by the photosensitive azobenzene-containing surfactant is considered. It has been shown that the addition of divalent and trivalent metal ions does not affect the DNA-surfactant interaction for both the cis- and the trans-isomers of the surfactant. At the same time, the ionic strength of the solution, which is provided by a certain concentration of the salt, has a huge impact.

Novel Mixed Matrix Membranes Based on Poly(vinylidene fluoride): Development, Characterization, Modeling.

Membrane technology is an actively developing area of modern societies; with the help of high-performance membranes, it is possible to separate various mixtures for many industrial tasks. The objective of this study was to develop novel effective membranes based on poly(vinylidene fluoride) (PVDF) by its modification with various nanoparticles (TiO, Ag-TiO, GO-TiO, and MWCNT/TiO). Two types of membranes have been developed: dense membranes for pervaporation and porous membranes for ultrafiltration.

Influence of the Chemical Structure on the Mechanical Relaxation of Dendrimers.

The rheological properties of macromolecules represent one of the fundamental features of polymer systems which expand the possibilities of using and developing new materials based on them. In this work, we studied the shear-stress relaxation of the second generation PAMAM and PPI dendrimer melts by atomistic molecular dynamics simulation. The time dependences of relaxation modulus () and the frequency dependences of the storage and loss moduli were obtained.

Alizarin as a potential protector of proteins against damage caused by hydroperoxyl radical.

Alizarin is a natural anthraquinone molecule with moderate antioxidative capacity. Some earlier investigations indicated that it can inhibit osteosarcoma and breast carcinoma cell proliferation by inhibiting of phosphorylation process of ERK protein (extracellular signal-regulated kinases). Several mechanisms of deactivation of one of the most reactive oxygen species, hydroperoxyl radical, by alizarin are estimated: hydrogen atom abstraction (HAA), radical adduct formation (RAF), and single electron transfer (SET).

Cis-Isomers of Photosensitive Cationic Azobenzene Surfactants in DNA Solutions at Different NaCl Concentrations: Experiment and Modeling.

The DNA interaction with cis-isomers of photosensitive azobenzene-containing surfactants was studied by both experimental methods and computer simulation. It was shown that before the organization of micelles, such surfactants in the cis-conformation form associates of only a single type with a disordered orientation of molecules. In contrast, for trans-isomers, there exist two types of associates with head-to-head or head-to-tail orientations of molecules in dependence on salt concentration in a solution.

Some Features of Surfactant Organization in DNA Solutions at Various NaCl Concentrations.

The photosensitive azobenzene-containing surfactant C-Azo-OCTMAB is a promising agent for reversible DNA packaging in a solution. The simulation of the trans-isomer surfactant organization into associates in a solution with and without salt as well as its binding to DNA at different NaCl concentrations was carried out by molecular dynamics. Experimental data obtained by spectral and hydrodynamic methods were used to verify the results of simulation.

NMR Spectroscopic Studies of Cation Dynamics in Symmetrically-Substituted Imidazolium-Based Ionic Liquid Crystals.

Ionic liquid crystals (ILCs) present a new class of non-molecular soft materials with a unique combination of high ionic conductivity and anisotropy of physicochemical properties. Symmetrically-substituted long-chain imidazolium-based mesogenic ionic liquids exhibiting a smectic liquid crystalline phase were investigated by solid state NMR spectroscopy and computational methods. The aim of the study was to reveal the correlation between cation size and structure, local dynamics, and orientational order in the layered mesophase.

Understanding ionic mesophase stabilization by hydration: a solid-state NMR study.

The correlation between the water contribution to hydrogen bonding within ionic sublayer, mesophase order parameter, and ion translational self-diffusion in the layered ionic liquid crystalline phase is investigated. Changes in hydrogen bonding, conformational and translational dynamics, and orientational order upon hydration were followed by solid-state NMR combined with density functional theory (DFT) analysis. We observed that the smectic mesophase of monohydrated imidazolium-based ionic liquids, which was stabilized in a wider temperature range compared to that of anhydrous materials, counterintuitively exhibited a lower orientational order of organic cations.

Role of Mono- and Divalent Ions in Peptide Glu-Asp-Arg-DNA Interaction.

The interaction of the regulatory biologically active peptide Glu-Asp-Arg (EDR) with DNA is considered by spectral, NMR, viscosimetry, and molecular dynamics methods. It was shown that EDR can partly penetrate into the major groove of DNA and affect the base atoms, mainly the N7 and O6 of guanine. It was observed that Mg ions can promote DNA-EDR interaction due to their effective screening of the negatively charged phosphate groups of DNA.

Representation of DNA environment: Spiral staircase distribution function.

In the present study, we investigated the local structure of DNA and its environment using a new visualization technique. The spiral staircase distribution function (SSDF) is determined as two-dimensional density distribution of atoms of water and ligands in local reference frames linked with each base pair of poly-DNA molecule, either GC or AT. This property of SSDF provides opportunity to study sequence-specific binding of ions, peptides, and other agents derived from a molecular dynamics computer simulation.

Experimental strategies for C-N dipolar NMR spectroscopy in liquid crystals at the natural isotopic abundance.

Direct dipolar spin couplings are informative and sensitive probes for a wide range of dynamic processes and structural properties at atomic, molecular and supramolecular levels in liquid crystals and other anisotropic materials. Usually, heteronuclear 13C-1H dipolar couplings in liquid crystals with natural 13C abundance are measured. Recording 13C-15N NMR dipolar spectra in unlabeled materials is challenging because of the unfavorable combination of two rare isotopes.

Theoretically possible spatial accuracy of geomagnetic maps used by migrating animals.

Many migrating animals, belonging to different taxa, annually move across the globe and cover hundreds and thousands of kilometres. Many of them are able to show site fidelity, i.e.

Comparative study of local structure of two cyanobiphenyl liquid crystals by molecular dynamics method.

Fully-atomistic molecular dynamics simulations were carried out on two similar cyanobiphenyl nematogens, HO-6OCB and 7OCB, in order to study effects of hydrogen bonds on local structure of liquid crystals. Comparable length of these two molecules provides more evident results on the effects of hydrogen bonding. The analysis of radial and cylindrical distribution functions clearly shows the differences in local structure of two mesogens.

Coarse-grain model of the benzene ring with para-substituents in the molecule.

A new two-site coarse-grain model of the benzene ring with substituents in the para-position is proposed for use with multiscale simulations. The model uses a modified Lennard-Jones potential and introduces an additional shifting parameter to the description of the atom-atom interactions. Furthermore, the model separates sets of parameters of Van-der-Waals interactions into inter- and intramolecular.