An Unconventional Approach to Induce Liquid‐Crystalline Phases of Triazine‐Based Dendrons by Breaking Their Self‐Assembly into Dimers

Three triazine‐based dendrons ( 1 a – c ) were successfully prepared in 70–83 % yields. These newly prepared dendrons are found to be liquid crystalline (LC). Computational investigations on molecular conformations and dipoles of triazine‐based dendrons reveal that the substituent on the central triazine unit interrupts strong dipole or H‐bond interactions to avoid dimeric formation. The obtained dendrons, not favouring self‐assembly into dimers but showing LC behaviours, provides evidence for an approach contrary to the conventional method of inducing LC behaviours of dendrons by dimer or trimer formation, mostly through H‐bond interactions.     

Effect of chemical structures of polyimides on photosensitivity of liquid crystal alignment using a polarized UV exposure

Unidirectional liquid crystal (LC) alignment produced by polarized UV exposure was examined using polyimides (PIs) synthesized using different diamines. The dichroic ratio of the resulting LC cells suggests that the UV photosensitivity is primarily controlled by the chemical structures of the PIs used. The UV absorption and fluorescence spectra of the PI films, and molecular conformations of the diamines, indicate that the photosensitivity is controlled by the UV absorption efficiencies and molecular conformations of the PIs.     

Novel cyanoterphenyl self-assembly monolayers on Au(111) studied by ellipsometry, x-ray photoelectron spectroscopy, and vibrational spectroscopies

The self-assembled monolayers (SAMs) of two asymmetric disulfides derivatives (namely, LC1 and LC2) were prepared on Au(111). The disulfides contain a pure alkyl chain and an alkyl chain terminated by a cyanoterphenyl group. LC1 and LC2 differ by the way the cyanoterphenyl group is attached onto the alkyl chain: it is expected to be aligned with the alkyl chain in the case of LC1 and perpendicular to it in the case of LC2 (T shape). The consequences in terms of surface coverage, chemical composition, and molecular conformation of the two SAMs are studied using ellipsometry, x-ray photoelectron spectroscopy (XPS), reflection absorption infrared spectroscopy (RAIRS), and broadband femtosecond sum-frequency generation (SFG). A model of coverage and tilt angle based on ellipsometry and XPS results shows that the SAM "manages" the large size of the terphenyl group by lowering the terphenyl containing chain coverage and by increasing the tilt. In the case of LC2, the disulfide breaks during molecular assembly, less terphenyl chains adsorb than pure alkyl chains, and the overall chain coverage is smaller than for LC1. RAIRS and SFG results show that these differences in surface coverage correspond to a drastically different orientation of the terphenyl axis, which lies nearly parallel to the surface for LC2, while it is tilted by approximately 28 degrees for LC1. This shows that the terphenyl group takes much more space on the surface in the case of LC2 and explains why the terphenyl coverage is found smaller for LC2. The anomalous SFG relative intensities observed in the region of CH stretch between CH2 and CH3 modes, and symmetric and antisymmetric modes, show that the chains are not in the fully stretched, all-trans conformation, LC2 being probably more distorted than LC1. These distorsions allow the molecules to occupy the space available below the large terphenyl group. The relative intensities of symmetric and antisymmetric modes are discussed qualitatively for some typical molecular conformations and orientations of the alkyl chain.     

Conformation,ordering and mobility of macromolecules in aromatic polyesters as studied by IR and solid-state NMR spectroscopy

Thermotropic main-chain LC polyesters have been studied with the aid of IR and NMR spectroscopy. Rigid mesogens and mesogens with a possibility of conformational isomerism were examined. The dependence of the order parameters of the mesogens and spacers on the chemical structure of the polymer has been determined. The IR spectroscopy data and the data of the calculation of the possible conformations of the mesogen and the spacer confirm the theoretical predictions about the straightening of macromolecules in the anisotropic melt. Solid-state ²H NMR spectra show that p-oxybenzoic rings adjacent to a flexible spacer are more mobile than inner terphthalic rings. In decamethylene spacer the contrary holds true: the mobility of inner methylene groups is more marked than that of the α-methylene groups bound to the mesogen.     

Targeted analysis of glycomics liquid chromatography/mass spectrometry data

Hydrophilic interaction chromatography (HILIC) liquid chromatography/mass spectrometry (LC/MS) is appropriate for all native and reductively aminated glycan classes. HILIC carries the advantage that retention times vary predictably according to oligosaccharide composition. Chromatographic conditions are compatible with sensitive and reproducible glycomics analysis of large numbers of samples. The data are extremely useful for quantitative profiling of glycans expressed in biological tissues. With these analytical developments, the rate-limiting factor for widespread use of HILIC LC/MS in glycomics is the analysis of the data. In order to eliminate this problem, a Java-based open source software tool, Manatee, was developed for targeted analysis of HILIC LC/MS glycan datasets. This tool uses user-defined lists of compositions that specify the glycan chemical space in a given biological context. The program accepts high-resolution LC/MS data using the public mzXML format and is capable of processing a large data file in a few minutes on a standard desktop computer. The program allows mining of HILIC LC/MS data with an output compatible with multivariate statistical analysis. It is envisaged that the Manatee tool will complement more computationally intensive LC/MS processing tools based on deconvolution and deisotoping of LC/MS data. The capabilities of the tool were demonstrated using a set of HILIC LC/MS data on organ-specific heparan sulfates.     

Truxene‐Based Columnar Liquid Crystals: Self‐Assembled Structures and Electro‐Active Properties

Columnar liquid‐crystalline (LC) truxene derivatives containing branched flexible alkyl chains have been designed and synthesized. The dicyanomethylene and dithiafulvene substituents have been introduced into the π‐conjugated truxene framework to tune their electronic and redox properties as well as the molecular assembled structures. The π‐conjugated cores of dicyanomethylene‐ and dithiafulvene‐appended truxenes adopt bowl‐shaped conformations, giving rise to a large intrinsic dipole moment perpendicular to the aromatic framework. These molecules form stable columnar LC structures through intermolecular dipole–dipole interactions. The redox properties of LC truxene derivatives have been examined by cyclic voltammetry. The dicyanomethylene‐appended truxene shows the reversible four‐step electrochemical reductions, whereas the dithiafulvene‐appended truxene undergoes three‐step oxidations.     

Photoluminescence of a 5CB liquid crystal–organomontmorillonite nanoparticle heterocomposite

Photoluminescence (PL) of a heterocomposite, consisting of the nematic liquid crystal (LC) 4-pentyl-4´-cyanobiphenyl (5CB) and anisometric nanoparticles of montmorillonite (MMT) clay, modified by cetyltrimethylammonium bromide (CTAB) has been investigated at 4.2 and 300 K. The incorporation of this organoclay (B4) to 5CB decreases the emission intensity by 7–8 times due to efficient resonant quenching of the exciting energy by the organoclay. The spectrum shifts to a long-wave region, with this effect being considerably larger at low temperatures. Graphical separation of complex bands, corresponding to the bulk 5CB and 5СВ?+?В4 heterosystem at both temperatures revealed that the presence of the organoclay resulted in a significant growth of LC dimer quantity, shifting spectra towards longer wavelengths. Changes in the 5CB luminescence under organoclay influence can be explained by quite strong interphase interactions specified earlier by infrared spectroscopy between the MMT surface and LC, and by a realisation of more flat conformations of 5CB molecules. Confinement effects prevent full crystallisation of 5CB in the 5CB?+?B4 composite, and LC dimer structures located in the organoclay near-surface layers on the outer surface of the nanoparticles and inside its galleries remain in a larger amount, at low temperature, when compared to bulk 5CB. The remaining LC crystallises and photoluminescence from the 5CB monomers becomes intense.     

Theoretical study on 5-nitrofuryl thiosemicarbazone radicals electronic properties

Theoretical studies of molecular conformations and electronic properties calculations of eight 5-nitrofuryl thiosemicarbazone free radicals, by means of ab initio (R/UHF), and DFT (R/UB3LYP) methods are presented and discussed in comparison with ESR and electrochemical experimental data. DFT calculated hyperfine coupling constants were used for the simulation of experimental spectra. We observed the molecules adopt mainly two conformations, both showing a pattern of spin density delocalization unusual for free radicals formed from aromatic nitrocompounds. Energy potential surfaces scaning through a determined dihedral angle were drawn to evaluate whether these conformations could coexist in equilibrium. Fukui and molecular orbital analysis were compared with ESR data as reactivity local indexes.     

Exploiting the complementary nature of LC/MALDI/MS/MS and LC/ESI/MS/MS for increased proteome coverage

The goal of this work was to evaluate the improvement in proteome coverage of complex protein mixtures gained by analyzing samples using both LC/ESI/MS/MS and LC/MALDI/MS/MS. Parallel analyses of a single sample were accomplished by interfacing a Probot fractionation system with a nanoscale LC system. The Probot was configured to perform a post-column split such that a fraction (20%) of the column effluent was sent for on-line LC/ESI/MS/MS data acquisition, and the majority of the sample (80%) was mixed with a matrix solution and deposited onto the MALDI target plate. The split-flow approach takes advantage of the concentration sensitive nature of ESI and provides sufficient quantity of sample for MALDI/MS/MS. Hybrid quadrupole time-of-flight mass spectrometers were used to acquire LC/ESI/MS/MS data and LC/MALDI/MS/MS data from a tryptic digest of a preparation of mammalian mitochondrial ribosomes. The mass spectrometers were configured to operate in a data dependent acquisition mode in which precursor ions observed in MS survey scans are automatically selected for interrogation by MS/MS. This type of acquisition scheme maximizes the number of peptide fragmentation spectra obtained and is commonly referred to as shotgun analysis. While a significant degree of overlap (63%) was observed between the proteins identified in the LC/ESI/MS/MS and LC/MALDI/MS/MS data sets, both unique peptides and unique proteins were observed by each method. These results demonstrate that improved proteome coverage can be obtained using a combination of these ionization techniques.     

Ultra-performance liquid chromatography/tandem mass spectrometric quantification of structurally diverse drug mixtures using an ESI-APCI multimode ionization source

We report in this paper an ultra-performance liquid chromatography/tandem mass spectrometric (UPLC(R)/MS/MS) method utilizing an ESI-APCI multimode ionization source to quantify structurally diverse analytes. Eight commercial drugs were used as test compounds. Each LC injection was completed in 1 min using a UPLC system coupled with MS/MS multiple reaction monitoring (MRM) detection. Results from three separate sets of experiments are reported. In the first set of experiments, the eight test compounds were analyzed as a single mixture. The mass spectrometer was switching rapidly among four ionization modes (ESI+, ESI-, APCI-, and APCI+) during an LC run. Approximately 8-10 data points were collected across each LC peak. This was insufficient for a quantitative analysis. In the second set of experiments, four compounds were analyzed as a single mixture. The mass spectrometer was switching rapidly among four ionization modes during an LC run. Approximately 15 data points were obtained for each LC peak. Quantification results were obtained with a limit of detection (LOD) as low as 0.01 ng/mL. For the third set of experiments, the eight test compounds were analyzed as a batch. During each LC injection, a single compound was analyzed. The mass spectrometer was detecting at a particular ionization mode during each LC injection. More than 20 data points were obtained for each LC peak. Quantification results were also obtained. This single-compound analytical method was applied to a microsomal stability test. Compared with a typical HPLC method currently used for the microsomal stability test, the injection-to-injection cycle time was reduced to 1.5 min (UPLC method) from 3.5 min (HPLC method). The microsome stability results were comparable with those obtained by traditional HPLC/MS/MS.     

Influence of the physical state of phospholipid monolayers on protein binding

Langmuir monolayers were used to characterize the influence of the physical state of phospholipid monolayers on the binding of protein Retinis Pigmentosa 2 (RP2). The binding parameters of RP2 (maximum insertion pressure (MIP), synergy and ΔΠ(0)) in monolayers were thus analyzed in the presence of phospholipids bearing increasing fatty acyl chain lengths at temperatures where their liquid-expanded (LE), liquid-condensed (LC), or solid-condensed (SC) states can be individually observed. The data show that a larger value of synergy is observed in the LC/SC states than in the LE state, independent of the fatty acyl chain length of phospholipids. Moreover, both the MIP and the ΔΠ(0) increase with the fatty acyl chain length when phospholipids are in the LC/SC state, whereas those binding parameters remain almost unchanged when phospholipids are in the LE state. This effect of the phospholipid physical state on the binding of RP2 was further demonstrated by measurements performed in the presence of a phospholipid monolayer showing a phase transition from the LE to the LC state at room temperature. The data collected are showing that very similar values of MIP but very different values of synergy and ΔΠ(0) are obtained in the LE (below the phase transition) and LC (above the phase transition) states. In addition, the binding parameters of RP2 in the LE (below the phase transition) as well as in the LC (above the phase transition) states were found to be indistinguishable from those where single LC and LE states are respectively observed. The preference of RP2 for binding phospholipids in the LC state was then confirmed by the observation of a large modification of the shape of the LC domains in the phase transition. Therefore, protein binding parameters can be strongly influenced by the physical state of phospholipid monolayers. Moreover, measurements performed with the α/β domain of RP2 strongly suggest that the β helix of RP2 plays a major role in the preferential binding of this protein to phospholipids in the LC state.     

Comprehensive two-dimensional liquid chromatography for the characterization of functional acrylate polymers

Comprehensive two-dimensional liquid chromatography-size-exclusion chromatography (LC x SEC) was investigated as a tool for the characterization of functional poly(methyl methacrylate) (PMMA) polymers. Ultraviolet-absorbance and evaporative light-scattering detection (ELSD) were used. A simple method to quantify ELSD data is presented. Each data point from the ELSD chromatogram can be converted into a mass concentration using experimental calibration curves. The qualitative and quantitative information obtained on two representative samples is used to demonstrate the applicability of LC x SEC for determining the mutually dependent molar-mass distributions (MMD) and functionality-type distributions (FTD) of functional polymers. The influence of the molar mass on the retention behavior in LC was investigated using LC x SEC for hydroxyl-functional PMMA polymers. The critical conditions, at which retention is--by definition--independent of molar mass, were not exactly the same for PMMA series with different end-groups. Our observations are in close agreement with theoretical curves reported in the literature. However, for practical applications of LC x SEC it is not strictly necessary to work at the exact critical solvent composition. Near-critical conditions are often sufficient to determine the mutually dependent distributions (MMD and FTD) of functional polymers.     

Molecular mechanics conformational analysis of tylosin

The conformations of the 16-membered macrolide antibiotic tylosin were studied with molecular mechanics (AMBER* force field) including modelling of the effect of the solvent on the conformational preferences (GB/SA). A Monte Carlo conformational search procedure was used for finding the most probable low-energy conformations. The present study provides complementary data to recently reported analysis of the conformations of tylosin based on NMR techniques. A search for the low-energy conformations of protynolide, a 16-membered lactone containing the same aglycone as tylosin, was also carried out, and the results were compared with the observed conformation in the crystal as well as with the most probable conformations of the macrocyclic ring of tylosin. The dependence of the results on force field was also studied by utilizing the MM3 force field. Some particular conformations were computed with the semiempirical molecular orbital methods AM1 and PM3.     

Comprehensive structural studies of 2',3'-difluorinated nucleosides: comparison of theory, solution, and solid state

The conformations of three 2',3'-difluoro uridine nucleosides were studied by X-ray crystallography, NMR spectroscopy, and ab initio calculations in an attempt to define the roles that the two vicinal fluorine atoms play in the puckering preferences of the furanose ring. Two of the compounds examined contained fluorine atoms in either the arabino or xylo dispositions at C2' and C3' of a 2',3'-dideoxyuridine system. The third compound also incorporated fluorine atoms in the xylo configuration on the furanose ring but was substituted with a 6-azauracil base in place of uracil. A battery of NMR experiments in D 2O solution was used to identify conformational preferences primarily from coupling constant and NOE data. Both (1)H and (19)F NMR data were used to ascertain the preferred sugar pucker of the furanose ring through the use of the program PSEUROT. Compound-dependent parameters used in the PSEUROT calculations were newly derived from complete sets of conformations calculated from high-level ab initio methods. The solution and theoretical data were compared to the conformations of each molecule in the solid state. It was shown that both gauche and antiperiplanar effects may be operative to maintain a pseudodiaxial arrangement of the C2' and C3' vicinal fluorine atoms. These data, along with previously reported data by us and others concerning monofluorinated nucleoside conformations, were used to propose a model of how fluorine influences different aspects of nucleoside conformations.     

Liquid-crystalline polymer systems: From the past to the present

In the first part of this review, in a brief historical perspective, we consider the evolution of the scientific activity of Nikolai Al’fredovich Platé, Academician of the Russian Academy of Sciences: from grafted polymer systems to comb-shaped and liquid-crystalline polymers. The main biographical data on Platé are related to his scientific work at Moscow State University, and his research-development strategy to create and study of LC polymers with comb-shaped structure is considered. The second part of the article is devoted to discussion of scientific directions in this area that were developed in the last five years at the Laboratory of Chemical Transformations of Polymers, where Platé started his scientific activity. Special attention is paid to the research data on photochromic liquid-crystal polymers and composites. A concept of the preparation of multifunctional comb-shaped LC polymers containing mesogenic, photochromic, and chiral groups, as well as functional (crown ether) fragments, is presented. The photo-orientational processes occurring in photochromic LC polymers, which were used to prepare “command” surfaces and photo-orientators, are considered in detail. The preparation of a new class of photochromic polyamides with azobenzene, cinnamoyl and coumarin groups, which have been proposed for the obtaining of polymer films with latent data recording, is described. The phase behaviors and photo-optical properties of synthesized photochromic triple LC block copolymers are reported. Examples of holograms based on cholesteric LC blends, which allow double recording on the same polymer film, are presented. The results of investigations of light-controlled cholesteric polymer-stabilized LC networks with crown ether fragments in the compositions of macromolecules that are able to form complexes with metal ions are presented. The methods of preparation of photocontrolled and electrically controlled polymer LC nanocomposites with nanoparticles, as well as research data on their photo-optical properties, are considered.     

A DSC study of the liquid crystalline phases of salmon sperm DNA

Thermodynamic stabilities of the liquid crystalline (LC) and gel (G) phases of salmon sperm DNA were investigated by differential scanning calorimetry (DSC). The enthalpic and the entropic components of the thermal denaturation free energy are briefly discussed. In order to evaluate the thermodynamic data for the denaturation of the gel (G) phase of DNA and compare it with those for the LC DNA phase, a hypothesis for the thermal denaturation mechanism of G DNA is proposed. A comparison between these two sets of data has shown that DNA in the LC phase is thermally and thermodynamically more stable than in the G phase over the temperature range which was investigated.     

Induction of the Columnar Phase of Unconventional Dendrimers by Breaking the C2 Symmetry of Molecules

Two triazine‐based unconventional dendrimers were prepared and characterized by ¹H and ¹³C NMR spectroscopy, mass spectrometry, and elemental analysis. Differential scanning calorimetry, polarizing microscopy, and powder XRD studies showed that these dendrimers display columnar liquid‐crystalline phases during thermal treatment. This is ascribable to breaking of their C₂ symmetry. The molecular conformations of prepared dendrimers were obtained by computer simulation with the MM3 model of the CaChe program in the gas phase. The simulation showed that the conformations of the prepared dendrimers are rather flat and disfavor formation of the LC phase. However, due to C₂‐symmetry breaking, the prepared dendrimers have structural isomers in the solid state and thus show the desired columnar phases. This new strategy should be applicable to other types of unconventional dendrimers with rigid frameworks.     

二氢吡啶类化合物的三维定量构效关系

通过分子力学和量子化学计算,得出两种二氢吡啶衍生物的低能构象,再应用比较分子力场分析方法(CoMFA)和比较分子相似性指数分析方法(CoMSIA)分别对两种构象的43个二氢吡啶衍生物进行3D-QSAR研究. 计算结果表明,用两种方法建立的两种构象的构效关系模型均有较好的预测能力.通过分析CoMFA和CoMSIA的系数等势图,直观地了解二氢吡啶衍生物的结构对生物活性的影响,为进一步设计高活性的二氢吡啶衍生物提供一定的理论依据.     

Computation of 3D queries for ROCS based virtual screens

Rapid overlay of chemical structures (ROCS) is a method that aligns molecules based on shape and/or chemical similarity. It is often used in 3D ligand-based virtual screening. Given a query consisting of a single conformation of an active molecule ROCS can generate highly enriched hit lists. Typically the chosen query conformation is a minimum energy structure. Can better enrichment be obtained using conformations other than the minimum energy structure? To answer this question a methodology has been developed called CORAL (COnformational analysis, Rocs ALignment). For a given set of molecule conformations it computes optimized conformations for ROCS screening. It does so by clustering all conformations of a chosen molecule set using pairwise ROCS combo scores. The best representative conformation is that which has the highest average overlap with the rest of the conformations in the cluster. It is these best representative conformations that are then used for virtual screening. CORAL was tested by performing virtual screening experiments with the 40 DUD (Directory of Useful Decoys) data sets. Both CORAL and minimum energy queries were used. The recognition capability of each query was quantified as the area under the ROC curve (AUC). Results show that the CORAL AUC values are on average larger than the minimum energy AUC values. This demonstrates that one can indeed obtain better ROCS enrichments with conformations other than the minimum energy structure. As a result, CORAL analysis can be a valuable first step in virtual screening workflows using ROCS.