An analysis of the interaction energy in some SN2 reactions

The interaction energy between an incoming group X^– and the substrate CRH₂Y at the geometry of the transition state (TS) for bimolecular nucleophilic substitution reactions (with X, Y, and R equal to H and F) has been subjected to decomposition according to the Morokuma scheme. The influence of the basis set and of the geometry chosen for the TS is examined. The results bring out regular trends in the different terms of the decomposition along the whole set of reactions, but they are not sufficient to give a rationale of the energetic factors involved in these reactions.     

A Modular Approach for Interlocking Enzymes in Whatman Paper

A potentially universal approach is presented for enzyme attachment to cellulose that significantly enhances enzyme stability while retaining high activity, and involves no chemical functionalization of cellulose. Bovine serum albumin (BSA) was interlocked in cellulose to form a protein‐friendly surface (named BSA‐Paper), while also providing COOH and NH₂ groups for subsequent attachment of enzymes. The desired enzyme is then mixed with additional BSA and interlocked on BSA‐Paper. The second BSA layer dilutes and crosslinks the enzyme for improved stability. Laccase was tested as a model enzyme for interlocking on BSA‐Paper, and was found to retain over 100 % activity and was 240 times more stable at 25 °C (half life=180 d) than laccase. This new approach was also tested with a few other enzymes with encouraging results, thus providing a potentially universal method for stabilization of enzymes on cellulose with retention of high activities.     

The protonation of three-membered ring molecules Theab initio SCF versus the electrostatic picture of the proton approach

The protonation processes for eight three-membered ring molecules have been investigated using the SCF LCAO MO method with Gaussian basis sets and the results are compared with those obtained at the first order approximation, i.e. the electrostatic approximation. The electrostatic results are linearly connected with the SCF ones and are sufficient to get an ordering of the protonation energies in different chemical sites and to obtain reliable representations of the proton approaching paths.     

The influence of nanoparticle fillers on the morphology of a spin-cast thin film polymer blend

Polymer/nanoparticle composite films are receiving growing attention thanks to their potential for application in ultra-thin electronic and optical devices. Polymer blend demixing has been shown to be a suitable technique for the structuring of polymer thin films and the patterning of nanoparticles (NP) within them. In this work we show that the morphology of thin polymer films made by spin-casting a polymer blend solution containing NP fillers on a surface depends strongly on the concentration of NP fillers. More specifically, polystyrene/polymethylmethacrylate (PS/PMMA) films formed from a toluene solution, and which demix following a nucleation and growth mechanism, were studied. It was found that both the height and the surface density of PMMA domains increased as the concentration of CoPt:Cu NPs in the film was increased. We find that similar effects are induced in a NP-free PS/PMMA demixed film upon increasing the molecular weight of the PS molecules. This suggests that under certain conditions the NPs and the polymer molecules in the blend do not behave as separate species but form aggregates.     

Stochastically perturbed Landau-Ginzburg equations

We analyze several aspects of a reaction-diffusion equation in two space dimensions with cubic nonlinearity, stochastically perturbed by white noise in time and in space. This equation needs renormalization, and physical implications of this circumstance are discussed. In particular, for sufficiently large coupling constant the effective potential becomes a double well and rare transitions from one minimum to the other are possible. These, however, are revealed only by large-scale fluctuations which exhibit a bimodal distribution. Fluctuations below a critical scale have unimodal distribution and do not see the double well. This phenomenon is connected with the singular character of local fluctuations in two or more space dimensions. The theoretical results are confirmed by numerical simulations. The possible physical relevance of our results is illustrated in connection with the analysis of certain observations of atmospheric fields.     

High-throughput modeling of human G-protein coupled receptors: amino acid sequence alignment, three-dimensional model building, and receptor library screening

The current study describes the development of a computer package (GPCRmod) aimed at the high-throughput modeling of the therapeutically important family of human G-protein coupled receptors (GPCRs). GPCRmod first proposes a reliable alignment of the seven transmembrane domains (7 TMs) of most druggable human GPCRs based on pattern/motif recognition for each of the 7 TMs that are considered independently. It then converts the alignment into knowledge-based three-dimensional (3-D) models starting from a set of 3-D backbone templates and two separate rotamer libraries for side chain positioning. The 7 TMs of 277 human GPCRs have been accurately aligned, unambiguously clustered in three different classes (rhodopsin-like, secretin-like, metabotropic glutamate-like), and converted into high-quality 3-D models at a remarkable throughput (ca. 3s/model). A 3-D GPCR target library of 277 receptors has consequently been setup. Its utility for "in silico" inverse screening purpose has been demonstrated by recovering among top scorers the receptor of a selective GPCR antagonist as well as the receptors of a promiscuous antagonist. The current GPCR target library thus constitutes a 3-D database of choice to address as soon as possible the "virtual selectivity" profile of any GPCR antagonist or inverse agonist in an early hit optimization process.     

Ion chromatographic determination of sulfide and cyanide in real matrices by using pulsed amperometric detection on a silver electrode

The determination of free sulfide and cyanide by pulsed amperometric detection (PAD) at a silver-working electrode was improved through a deep de-oxygenation (at least 10 min) of both standard and real solutions containing the two analytes and adopting a two-potential waveform able to eliminate Ag working electrode fouling. The waveform stepped around the oxidation of Ag in the presence of 0.1-0.4 M hydroxyl ion, from -0.1 to 0.1 V versus saturated calomel electrode (SCE). The eluent composition (0.4 M NaOH plus 7.5 mM oxalate solution) allowed a very good column efficiency and selectivity. The presence of a polysulfide species was hypothesized in sulfide solutions that had not been de-oxygenated and aged. The polysulfide eluted just before sulfide and was confirmed by a chemical test with SO3(2-) producing the elimination of the polysulfide peak. Detection limits, according to the Hubaux-Vos method, were 1.0 and 2.0 microg/l for S2- and CN , respectively. We demonstrated good performance of the optimized method by repeatedly injecting standard solutions and by analyzing different real matrices. The method exhibited very good accuracy and repeatability (10 microg/l and a 500 microl injection loop, had a repeatability better than 3% for sulfide and 100 microg/l had a repeatability better than 1% for cyanide). The two-potential waveform ensured long-term stability of the electrode surface that required no manual polishing procedure for at least 1 month (20 analysis per day).     

Direct spectrophotometric determination of thiocyanate in serum and urine with a continuous-flow analyzer

A spectrophotometric method for the rapid measurement of thiocyanate in serum and urine without separation from interfering substances is described. Thiocyanate reacts immediately with chloramine-T in presence of iron(III) chloride catalyst to give cyanogen chloride, which reacts with a mixture of γ-picoline (4-methylpyridine) and barbituric acid to form a soluble violet—blue product, which is measured at 605 nm. Other components of physiological fluids react more slowly and do not interfere if the reaction time of the chlorinating step is kept very short. The proposed procedure is compared with a highly selective method, based on the oxidation of thiocyanate to cyanide, and good agreement was obtained for both serum and urine. The method is readily adapted to a continuous-flow procedure with a Technicon AutoAnalyzer.     

Gas-phase ion chemistry in germane-propane and germane-propene mixtures

Germane-propane and germane-propene gaseous mixtures were studied by ion trap mass spectrometry. Variations of ion abundances observed under different partial pressure ratios and mechanisms of ion-molecule reactions elucidated by multiple isolation steps are reported. In addition, the rate constants for the main reactions were experimentally determined and compared with the collisional rate constants to obtain the reaction efficiencies. The yield of ions containing both Ge and C atoms is higher in the germane-propene than in the germane-propane system. In the former mixture, chain propagation takes place starting from germane ions reacting with propene and proceeds with the formation of clusters such as Ge(2)C(4)H(n) (+) and Ge(3)CH(n) (+).