Theoretical Modeling of the Surface-Guided Self-Assembly of Functional Molecules

Directing the self-assembly of organic building blocks with 2D templates has been a promising method to create molecular superstructures having unique physicochemical properties. In this work the on-surface self-assembly of simple ditopic functional molecules confined inside periodic nanotemplates was modeled by means of the lattice Monte Carlo simulation method. Two types of confinement, that is honeycomb porous networks and parallel grooves of controlled diameter and width were used in the calculations. Additionally, the effect of (pro)chirality of the adsorbing molecules on the outcome of the templated self-assembly was examined. To that end, enantiopure and racemic assemblies were studied and the resulting structures were identified and classified. The obtained findings demonstrated that suitable tuning of the structural parameters of the templates enables directing the self-assembly towards linear and cyclic aggregates with controlled size. Moreover, chiral resolution of the molecular conformers using honeycomb networks with adjusted pore size was found possible. Our theoretical predictions can be helpful in designing structured surfaces to direct self-assembly and polymerization of organic functional building blocks.     

Blue-Shift Hydrogen Bonds in Silyltriptycene Derivatives: Antibonding σ* Orbitals of the Si−C Bond as Effective Acceptors of Electron Density

Triptycene derivatives are widely utilized in different fields of chemistry and materials sciences. Their physicochemical properties, often of pivotal importance for the rational design of triptycene-based functional materials, are influenced by noncovalent interactions between substituents mounted on the triptycene skeleton. Herein, a unique interaction between electron-rich substituents in the peri position and the silyl group located on the bridgehead sp³-carbon is discussed on the example of 1,4-dichloro-9-(p-methoxyphenyl)-silyltriptycene (TRPCl) which exists in solution in the form of two rotamers differing by dispositions, syn or anti, of the Si−C_Ph (the C_Ph atom is from the p-methoxyphenyl group) bond against the peri-Cl atom. For the first time, substantial differences between the Si−C_Ph bonds in these two dispositions are identified, based on indirect experimental and direct theoretical evidence. For these two orientations, the experimental ¹J(Si,C_Ph) values differ by as much as 10 percent. The differences are explained in terms of effective electron density transfer from the peri-Cl atom to the antibonding σ* orbitals of the Si−X bonds (X=H, C_Ph) oriented anti to that atom. The electronic effects are revealed by an NBO analysis. Connections of these observations with the notion of blue-shifting hydrogen bonds are discussed.     

Accurate Modelling of Group Electrostatic Potential and Distributed Polarizability in Dipeptides

Within the scope of accurate structure-property correlations in biomolecules, this work investigates how conformations and electronic configurations of biologically relevant macromolecules affect their intermolecular potentials. With the purpose of testing the suitability of a simple and universal model, the dipeptides are made from the assembly of their building blocks, namely the amino acid residuals or, more finely tuned, the individual functional groups. The model makes use of functional-group electrostatic potentials (GEP) and distributed polarizabilities (GDP), which enable an in depth analysis of the correlation between structural features and property build-up. GEPs and GDPs are calculated for various conformers and protonation states of L-alanyl-L-alanine, glycyl-L-alanine, L-alanylglycine, and glycylglycine, which are prototypic molecules to model the pertinent functional groups. The model provides GEPs that reproduce the exact potential to an average accuracy of ca. 0.05 au. The good agreement between the properties estimated with the simple model and those calculated with state-of-the-art quantum chemical methods encourages further testing of the predictive power of this model, simulating for example interaction energies and optoelectronic properties.     

Anti-Stokes Yb3+ emission--valuable structure information in spectra of rare earth compounds measured with FT-Raman spectrometers

Raman spectroscopy is a powerful and simple method which proved to be very useful in studies of solids. The most widely used Raman spectrometers are FT-Raman instruments with YAG:Nd(3+) laser as an excitation source. However, in the case of samples containing rare earth elements, the quality of FT-Raman spectra is often low due to strong fluorescence effects. We show that, in such cases, anti-Stokes part of the Raman spectra often contains strong, well resolved bands identified as multiphonon-assisted emission bands of Yb(3+) present as an impurity. We show on several examples that analysis of these bands may provide useful structure information, similar to that obtained by "Eu structure probe" method in optical spectroscopy. The Yb(3+) emission can be also measured using standard luminescence detection systems. However, the application of FT-Raman system allows one to obtain good quality spectra in a much cheaper, easier and faster way (in times as short as a few seconds). Moreover, high-sensitivity of FT-Raman spectrometers allows to detect even very small amounts of Yb(3+) impurity.     

Symmetry-based magnetic anisotropy in the trigonal bipyramidal cluster [Tp2(Me3tacn)3Cu3Fe2(CN)6]4+

Reaction of [(Me3tacn)Cu(H2O)2]2+ (Me3tacn = N,N',N' '-trimethyl-1,4,7-triazacyclononane) with [TpFe(CN)3]- (Tp- = hydrotris(pyrazolyl)borate) in a mixture of ethanol and acetonitrile affords the pentanuclear cluster [Tp2(Me3tacn)3Cu3Fe2(CN)6]4+. Single-crystal X-ray analysis reveals a trigonal bipyramidal structure featuring a D3h-symmetry core in which two opposing FeIII (S = 1/2) centers are linked through cyanide bridges to an equatorial triangle of three CuII (S = 1/2) centers. Fits to variable-temperature dc magnetic susceptibility data are consistent with ferromagnetic coupling to give an S = 5/2 ground state, while fits to low-temperature magnetization data indicate the presence of a large axial zero-field splitting (D = -5.7 cm-1). Frequency dependence observed in the ac magnetic susceptibility data confirms single-molecule magnet behavior, with an effective spin reversal barrier of Ueff = 16 cm-1. When compared with the much lower anisotropy barrier previously observed for the face-centered cubic cluster [Tp8(H2O)6Cu6Fe8(CN)6]4+, the results demonstrate the enormous influence of the geometry in which a given set of metal ions are arranged.     

Phase separation in binary polymer/liquid crystal mixtures: network breaking and domain growth by coalescence-induced coalescence

A small-angle light scattering (SALS) technique together with optical microscopy observation are used to investigate phase separation kinetics in films of low molecular weight thermotropic liquid crystal (4-cyano-4'-n-octyl-biphenyl, 8CB) with flexible polymer (polystyrene, PS). The growth of domains is studied as a function of time, film thickness, and film composition. The light scattering results are correlated with the images obtained by optical microscopy observation. In this paper, we study the breaking of a bicontinuous network of polymer in liquid crystal into droplets and their further growth via the coalescence-induced coalescence mechanism. The appearance of droplets in the system leads to a strong scattering at small wave vectors, while the bicontinuous network gives a peak at a nonzero wave vector. Superposition of these scattering intensities leads to the appearance of a second peak in the full scattering intensity signal, when the bicontinuous network starts to break up into disjointed elongated domains. Finally, both peaks merge into a single peak, which moves quickly toward zero wave vectors, indicating a complete transformation of elongated domains into spherical droplets of variable size. We found that the separation process does not depend on the size of the system. Irrespective of the sample thickness, the network breaks into fragments always at the same time after temperature quench. On the basis of morphological analysis, we found that the average size of the droplets which formed from the network grows with time, t, as t(alpha), alpha = 0.9 +/- 0.1, in the isotropic phase and in the nematic phase.     

MALDI-TOF/TOF de novo sequence analysis of 2-D PAGE-separated proteins from Halorhodospira halophila, a bacterium with unsequenced genome

Because protein identifications rely on matches with sequence databases, high-throughput proteomics is currently largely restricted to those species for which comprehensive sequence databases are available. The identification of proteins derived from organisms with unsequenced genomes mainly depends on homology searching. Here, we report the use of a simplified, gel-based, chemical derivatization strategy for de novo sequence analysis using a MALDI-TOF/TOF mass spectrometer. This approach allows the determination of de novo peptide sequences of up to 20 amino acid residues in length. The protocol was applied on a proteomic study of 2-D PAGE-separated proteins from Halorhodospira halophila, an extremophilic eubacterium with yet unsequenced genome. Using three different homology-based search algorithms, we were able to identify more than 30 proteins from this organism using subpicomole quantities of protein.     

Hazard in reaction of titanium raw materials with sulphuric acid

The reaction of ilmenite titanium raw material with sulphuric acid was investigated in ‘hazard’ type calorimetric system. The investigations show the essential influence of initial temperature, particle size distribution and concentration of sulphuric acid on rate and heat power of reaction and determine the limits of safety of the process and also its efficiency.     

Polyurethane anionomers synthesised with aromatic, aliphatic or cycloaliphatic diisocyanates, polyoxyethylene glycol and 2,2-bis-(hydroxymethyl)propionic acid. Part II. Supermolecular structure. Thermal properties

Small angle X-ray scattering and differential scanning calorimetry methods were employed to characterise the internal order of structural phases present in polyurethane coatings obtained as a result of water evaporation from anionomer dispersions. Those anionomers were produced in the reaction of aromatic, cycloaliphatic and aliphatic diisocyanates with polyoxyethylene glycol, 2,2-bis-(hydroxymethyl)propionic acid and 1,6-hexamethylenediamine. The decisive effects were found from ionic and polar structures within the rigid urethane and urea segments on the ordered arrangement degree of the supermolecular structures in the obtained anionomers. That becomes apparent in differential scanning calorimetry thermograms and contributes to improved thermal stability of the produced polyurethane coatings.     

Synthesis and characterization of hollandite-type material intended for the specific containment of radioactive cesium

The hollandite Ba₁Cs_0.28Fe_0.82Al_1.46Ti_5.72O₁₆, which has been proposed for the cesium-specific conditioning, can be synthesized either by an alcoxyde or a dry route. In both cases, a two-step protocol is applied, i.e., a calcination at 1000 °C followed by a sintering at 1200 °C. After sintering, both synthetic processes lead to a tetragonal form. According to the X-ray diffraction (XRD) patterns collected at the barium and the cesium K absorption edges, the different positions of these two elements have been evidenced with a more centered position in the oxygen cubic site of the tunnel for Ba than for Cs. On the contrary, after calcination, the two synthetic routes yield different products. The alcoxyde route gives rise to a mixture of the aforementioned Cs- and Ba-containing tetragonal I4/m hollandite, a Cs-only-containing monoclinic I2/m hollandite and an unidentified phase with a weak coherence length containing only Ba. The dry route yields a single tetragonal hollandite material containing Ba and Cs slightly different in composition from the targeted compound.