Numerical calculation of the combinatorial entropy of partially ordered ice

Using a one-parameter case as an example, we demonstrate that multicanonical simulations allow for accurate estimates of the residual combinatorial entropy of partially ordered ice. For the considered case, corrections to an (approximate) analytical formula are found to be small, never exceeding 0.5%. The method allows one as well to calculate combinatorial entropies for other systems.     

Thermodynamic modelling of the partially ordered solid solution Hf5−xNbxGe4 supported by ab initio calculations

The site preferences in the solid solution phase Hf_5−xNb_xGe₄ (0 < x < 3.8) were modelled with the “Compound Energy Formalism” model. The ground state energies of the end members calculated from ab initio density functional theory were taken as input parameters for the model. These ground state energies were computed for models with either fixed atomic positions or fully relaxed structures. The results of the former computation were used for the construction of a simplified model. Site fractions modelled with both, original and simplified models fit well to the experimental values, confirming the almost stepwise substitution mechanism in this compound. Non-linear trends of the lattice parameters found experimentally could be reproduced very well.     

Enantioselective recognition by a highly ordered porphyrin-assembly on a chiral molecular gel

Enantioselective recognition of amino acids was achieved by using a highly ordered chiral assembly of achiral porphyrin on a chiral molecular gel. Exceptionally high enantioselectivity was observed for histidine derivatives by monitoring the CD patterns and fluorescence quenching, K(SV) (l): 26.3 × 10(3) M(-1); K(SV)(D)-enantiomer: 7.03 × 10(3) M(-1).     

Improved estimation of the ranking probabilities in partial orders using random linear extensions by approximation of the mutual ranking probability

The application of partial order theory and Hasse diagram technique in environmental science is getting increasing attention. One of the latest developments in the field of Hasse diagram technique is the use of random linear extensions to estimate ranking probabilities. In the original algorithm for estimating the ranking probability it is assumed that the order between two incomparable pair of objects can be chosen randomly. However, if the total set of linear extensions is considered there is a specific probability that one object will be larger than another, which can be far from 50%. In this study it is investigated if an approximation of the mutual ranking probability can improve the algorithm. Applying an approximation of the mutual ranking probability the estimation of the ranking probabilities are significantly improved. Using a test set of 39 partial orders with randomly chosen values the relative mean root square difference (MRSD) decrease in average from 7.9% to 2.2% and a maximum relative improvement of 90% can be found. In the most successful case the relative MRSD goes as low as 0.77%.     

Preparation of ordered films containing a phenylene ethynylene oligomer by the Langmuir-Blodgett technique

This paper reports the fabrication and characterization of Langmuir and Langmuir-Blodgett (LB) films incorporating an oligo(phenylene-ethynylene) (OPE) derivative, namely, 4-[4-(4-hexyloxyphenylethynyl)-phenylethynyl]-benzoic acid (HBPEB). Conditions appropriate for deposition of monolayers of HBPEB at the air-water interface have been established and the resulting Langmuir films characterized by a combination of surface pressure and surface potential versus area per molecule isotherms, Brewster angle microscopy, and ultraviolet reflection spectroscopy. The Langmuir films are readily transferred onto solid substrates, and one-layer LB films transferred at several surface pressures onto mica substrates have been analyzed by means of atomic force microscopy, from which it can be concluded that 14 mN/m is an optimum surface pressure of transference, giving well-ordered homogeneous films without three-dimensional defects and a low surface roughness. The optical and emissive properties of the LB films have been determined with significant blue-shifted absorption spectra indicating formation of two-dimensional H aggregates and a Stokes shift illustrating the effects of the solid-like environment on the molecular chromophore.     

Enantiospecific kinking of DNA by a partially intercalating metal complex

Opposite enantiomers of [Ru(phenanthroline)(3)](2+) affect the persistence length of DNA differently, a long speculated effect of helix kinking. Our molecular dynamics simulations confirm a substantial change of duplex secondary structure produced by wedge-intercalation of one but not the other enantiomer. This effect is exploited by several classes of DNA operative proteins.     

Improved performance of lithium-sulfur battery by a functional separator design

Journal of Solid State Electrochemistry - A novel polyacrylamide/mixed carbon black-coated separator was fabricated for lithium-sulfur batteries. It is demonstrated that the coated separator...     

Quick method for analysis of anisotropic ESR spectra of particles with a g factor having rhombic symmetry in partially ordered and unordered systems

The exact integral expression describing the form of the anisotropic ESR spectrum of particles with a g factor having rhombic symmetry and a spin S=1/2 has been expanded into a rapidly converging series. This has made it possible to formulate simple rules for the quick analysis of experimental spectra in the case of individual absorption lines with Gaussian and Lorentzian shapes and to determine the corrections associated with the approximate nature of the approach. The rules obtained are universal, i.e., they are equally valid for the ESR spectra of both unordered and partially ordered systems. They can be used to determine the components of the g factor, the width of an individual absorption line, and the orientational distribution functions of the particles in a sample from spectra with sufficient accuracy. The applicability of the expressions obtained has been demonstrated by comparing them with exact computer-simulated ESR spectra.Translated from Teoreticheskaya i Éksperimental'naya Khimiya, Vol. 24, No. 6, pp. 738–742, November–December, 1988.     

Simulation study on the translocation of a partially charged polymer through a nanopore

The translocation of a partially charged polymer through a neutral nanopore under external electrical field is studied by using dynamic Monte Carlo method on a simple cubic lattice. One monomer in the polymer is charged and it suffers a driving force when it locates inside the pore. Two time scales, mean first passage time τ(FP) with the first monomer restricted to never draw back into cis side and translocation time τ for polymer continuously threading through nanopore, are calculated. The first passage time τ(FP) decreases with the increase in the driving force f, and the dependence of τ(FP) on the position of charged monomer M is in agreement with the theoretical results using Fokker-Planck equation [A. Mohan, A. B. Kolomeisky, and M. Pasquali, J. Chem. Phys. 128, 125104 (2008)]. But the dependence of τ on M shows a different behavior: It increases with f for M < N/2 with N the polymer length. The novel behavior of τ is explained qualitatively from dynamics of polymer during the translocation process and from the free energy landscape.     

Amino-functionalization of large-pore mesoscopically ordered silica by a one-step hyperbranching polymerization of a surface-grown polyethyleneimine

A simple method for surface functionalization of large-pore mesoporous silica by hyperbranching polymerization resulting in a high loading of amine groups is presented.     

Preparation of an ordered array of cyanine complex microdomes by a simple dewetting method

We demonstrate a simple method for fabricating a two-dimensional array of microdomes that consist of cyanine dye complexes. Investigation of the morphology and the fluorescence emission of microdomes was carried out before/after annealing. The principal of microdome formation is "dewetting," which is a self-organization phenomena. Generally, one can observe dewetting when a liquid film breaks spontaneously on a nonwettable substrate, leaving droplets or patterns on the substrate. A cyanine dye complex was prepared from a cationic cyanine dye and an anionic amphiphile, or vice versa, an anionic dye and a cationic amphiphile. When a chloroform solution of the cyanine complex was spread on a glass substrate by a roller, microdomes of the cyanine dye complex formed in dewetted films. The roller draws the three-phase line (the air-solid-liquid boundary of the droplet of the chloroform solution) with a constant rate. Thus dewetting can be controlled and leads to a two-dimensional ordered array of uniform sized microdomes. The diameter and height of microdomes decrease with increasing roller speed. Fluorescence microscopy shows that the cyanine dye complex formed J-aggregates. Annealing caused transformation of the dome morphology and a change of the fluorescence spectra. The microdome transformed into anisotropic crystals or became amorphous depending on the molecular structure of the cyanine dye.     

Rechargeable sodium-ion battery based on a cathode of copper hexacyanoferrate

Journal of Solid State Electrochemistry - In this work, the performance of copper (II) hexacyanoferrate(III) (CuHCF) as a cathode material for sodium-ion batteries was studied. The compound was...     

Determination of the kinetic parameters of rhodanese by electrophoretically mediated microanalysis in a partially filled capillary

Electrophoretically mediated microanalysis (EMMA) was applied for the study of kinetic parameters of the bisubstrate enzymatic reaction of rhodanese. The Michaelis constants (K(m)) for both substrates and the effect of temperature on rhodanese reaction were evaluated by means of the combination of the EMMA methodology with a partial filling technique. In this setup, the part of the capillary is filled with the buffer best for the enzymatic reaction whereas, the rest of the capillary is filled with the background electrolyte optimal for separation of substrates and products. The enzymatic reaction was performed in 25 mM N-(2-hydroxymethyl)piperazine-2'-(2-ethanesulfonic acid) (HEPES) buffer (pH 8.5) while the low pH background electrolyte 100 mM beta-alanine-HCl (pH 3.5) was used for separation of substrates and products that are the inorganic anions. The estimated value of K(m) for thiosulfate of 1.30 x 10(-2) M was consistent with previously published values; the K(m) for cyanide of 7.6 x 10(-3) M was determined for the first time. In addition, the type of kinetic mechanism of enzymatic reaction was also elucidated. The finding of the double displacement (ping-pong) mechanism is in accordance with previous literature data. Also, the experimentally determined temperature optimum of the rhodanese-catalyzed reaction around 20-25 degrees C agreed with literature values.     

Data mining by total ranking methods: a case study on optimisation of the "pulp and bleaching" process in the paper industry

Total order ranking methods are multicriteria decision making techniques used for the ranking of various alternatives on the basis of more than one criterion. The criteria, which are the standards by which the elements of the system are judged are not always in agreement, they can be conflicting, motivating the need to find an overall optimum that can deviate from the optima of one or more of the single criteria. Total order ranking methods are based on an aggregation of the criteria in a scalar function, i.e. an order or ranking index, which allow to sort elements according to its numerical value. Several evaluation methods which define a ranking parameter generating a total order ranking have been proposed in the literature. Four total order ranking methods are here described: Desirability functions, Utility functions, Dominance functions and Absolute Reference method. These methods have been compared to each other by applying them to a decision making problem in the paper industry. Various bleaching processes have been analysed and compared on the basis of multiple criteria, the aim being to find out best bleaching process among the ones proposed in the last years as alternative to chlorine bleaching process which is of high environmental impact due to the potential for chlorinated dioxin production.     

Characterization of DNA hybridization on partially aminated diamond by aromatic compounds

Here, we report a novel method of micropatterning oligonucleotides via aromatic groups as linkers on partially amino-terminated diamond and the inherence on subsequent hybridization. The covalent immobilization of probe oligonucleotides and characterization of immobilized probe oligonucleotides with carboxylic compounds were investigated by X-ray photoelectron spectroscopy (XPS). To confirm the effects of linker flexibility in a low amino group on diamond for probe oligonucleotides, three kinds of dicarboxylic compound--adipic acid, terephthalic acid, and trimesic acid--were used for immobilization of probe oligonucleotides, like linkers; and these oligonucleotides were hybridized with target oligonucleotides labeled with Cy 5 on the micropatterned diamond surface. The hybridization intensities determined by epifluorescence microscopy were compared and analyzed.     

Design of ordered bimodal mesoporous silica materials by using a mixed fluorinated-hydrogenated surfactant-based system

Mesoporous silica materials have been prepared using aqueous solutions of hydrogenated-fluorinated surfactant mixtures. The phase behavior of the C18H35(OC2H4)10-C6F15C2H4(OC2H4)11OH [RH18(EO)10-RF6(EO)11] mixture in aqueous solution was first established at the temperature at which the silica source is added, i.e., 20 or 40 degrees C. We have delimited the different phase domains. Concerning the mesostructured silica, whatever the temperature at which the silica source is added, mesoporous material with a hexagonal array of their channel is formed via a cooperative templating mechanism (CTM), if the content of RF6(EO)11 in the surfactant mixture is lower than 50%. Moreover, when the silica source is added at 40 degrees C, the recovered materials exhibit a bimodal pore size distribution. The appearance of this bimodality has been related to the coexistence of hydrogenated micelles with fluorinated wormlike micelles. By contrast, the bimodality is not observed when the silica source is added at 20 degrees C.     

Molecular-dynamics simulation of the effect of ions on a liquid-liquid interface for a partially miscible mixture

Molecular-dynamics simulations were performed to model the effect of added salt ions on the liquid-liquid interface in a partially miscible system. Simulations of the interface between saturated phases of a model 1-hexanol+water system show a bilayer structure of 1-hexanol molecules at the interface with -OH heads of the first layer directed into the water phase and the opposite orientation for the second layer. The alignment of the polar -OH groups at the interface stabilizes a charge separation of sodium and chloride ions when salt is introduced into the aqueous phase, producing an electrical double layer. Chloride ions aggregate nearer the interface and sodium ions move toward the bulk water phase, consistent with the explanation that the -OH alignment presents a region of partial positive charges to which the hydrated chloride atoms are attracted. Ions near the interface were found to be less solvated than those in the bulk phase. An electric field was also applied to drive ions through the interface. Ions crossing the interface tended to shed water molecules as they entered the hexanol bilayer, leaving a trail of water molecules. Stabilization and facilitated transport of the ion by interactions with the second layer of hexanol molecules appeared to be an important step in the mechanism of sodium ion transport.     

Synthesis of (R)-mellein by a partially reducing iterative polyketide synthase

Mellein and the related 3,4-dihydroisocoumarins are a family of natural products with interesting biological properties. The mechanisms of dihydroisocoumarin biosynthesis remain largely speculative today. Here we report the synthesis of mellein by a partially reducing iterative polyketide synthase (PR-PKS) as a pentaketide product. Remarkably, despite the head-to-tail homology shared with several fungal and bacterial PR-PKSs, the mellein synthase exhibits a distinct keto reduction pattern in the synthesis of the pentaketide. We present evidence to show that the ketoreductase (KR) domain alone is able to recognize and differentiate the polyketide intermediates, which provides a mechanistic explanation for the programmed keto reduction in these PR-PKSs.