Molecular mechanics and dynamics of biomolecules using a solvent continuum model

An easy implementation of molecular mechanics and molecular dynamics simulation using a continuum solvent model is presented that is particularly suitable for biomolecular simulations. The computation of solvation forces is made using the linear Poisson-Boltzmann equation (polar contribution) and the solvent-accessible surface area approach (nonpolar contribution). The feasibility of the methodology is demonstrated on a small protein and a small DNA hairpin. Although the parameters employed in this model must be refined to gain reliability, the performance of the method, with a standard choice of parameters, is comparable with results obtained by explicit water simulations. Copyright 2001 John Wiley & Sons, Inc. J Comput Chem 22: 1830-1842, 2001     

Pure and doped lanthanum cobaltites obtained by combustion method

We report the synthesis of La_1−xSr_xCoO₃ nanopowders by solution combustion method using metal nitrates and -alanine (alanine method) or urea (urea method) as fuel. The influence of metal nitrates/organic substance molar ratio and the type of fuel was investigated. The isolated complex precursors were characterized by atomic absorption spectroscopy (AAS), FT-IR spectra and DTA–TG analysis. The La_1−xSr_xCoO₃ (x = 0–0.3) powders were characterized by X-ray diffraction (XRD), scanning electron microscopy–energy-dispersive X-ray analysis (SEM–EDX), as well as by specific surface area measurements. XRD patterns indicate the formation of single-phase LaCoO₃ (rhombohedral) when as-synthesized powders were calcined at 873 K, 3 h in the case of the alanine method and at 1073 K, 3 h for urea-based system. Also, strontium doped lanthanum cobaltites obtained by both methods at 1273 K are single phase with rhombohedral perovskite-like structure as XRD data have proved. SEM investigation of pure and doped lanthanum cobaltites reveal that the samples prepared by both methods have fine particles with tendency of agglomerates formation with different shapes, spongy aspect and high porosity. La_1−xSr_xCoO₃ nanopowders obtained by alanine method have larger specific surface area values than those prepared by urea method.     

Preparation of high surface area ZrO2 and ZrO2-Y2O3 from the alkoxide

In order to obtain a catalyst support with a high surface area, ZrO₂ and ZrO₂-Y₂O₃ were prepared by the hydrolytic decomposition of the corresponding isopropoxide dissolved in benzene. The hydrolysis was carried out at 80°C using an excess amount of distilled water in flowing dry nitrogen. The precipitates thus obtained were dried at 100°C followed by calcination at 500°C in air or nitrogen for 1 h. The specific surface areas for both of the ZrO₂ and ZrO₂-Y₂O₃ increased with increasing amount of water added for hydrolysis, and the surface areas for ZrO₂-Y₂O₃ increased with increasing yttrium content. A ZrO₂ having a surface area of 130 m²/g was produced, and a stabilized tetragonal ZrO₂ with 15 mol% Y³⁺ having a surface area of 200 m²/g was produced. Furthermore, despite the difference in the ZrO₂ and ZrO₂-Y₂O₃ crystal structures, the lattice-strain of ZrO₂ has been unequivocally related to the surface area.     

煤粉在热分解过程中比表面积和孔隙结构的变化

用氮气等温吸附（７７Ｋ）方法测量了四种不同煤粉在热分解过程中的ＢＥＴ比表面积和孔隙结构。结果表明，不同煤种的比表面积在热分解过程中其变化有着相似的规律。在热分解温度低于５００℃时，煤粉所释放的挥发份主要来自煤粒外表面。当热分解温度高于５００℃后，煤粉释放出的挥发份主要来自煤粒内部深处。在８００℃时，由于煤的塑性，煤粒的部分孔减小和关闭，使其比表面积以及孔隙明显减少。在热分解温度高于８５０℃后，煤粉的比表面积随温度升高而急剧增大。     

A facile preparation of nanocrystalline Mo2C from graphite or carbon nanotubes

Nanocrystalline Mo₂C powders were successfully synthesized at 500 °C by reacting molybdenum chloride (MoCl₅) with C (graphite or carbon nanotube) in metallic sodium medium. X-ray powder diffractometer (XRD), transmission electron microscope (TEM), X-ray photoelectron spectroscope (XPS) and surface area analyzer (BET method) were used to characterize the samples. Experiments reveal that the carbon source used for the carbide synthesis has a great effect on the particle size and the surface area of the samples. When micro-sized graphite was used as C source the obtained nanocrystalline Mo₂C powder consists of particles of 30∼100 nm, with a surface area of 2.311 m²/g. When carbon nanotubes were used as C source, the as-synthesized Mo₂C sample is composed of particles of 20∼50 nm, with a surface area of 23.458 m²/g, which is an order of magnitude larger than that of the carbide prepared from the graphite.     

Effect of grinding on thermal reactivity of ceramic clay minerals

The effect of grinding on thermal behavior of pyrophyllite and talc as commonly used ceramic clay minerals was investigated by DTA, TG, emanation thermal analysis (ETA), B.E.T. surface area (s.a.) measurements, X-ray diffraction (XRD) and scanning electron microscopy (SEM). A vibratory mill was used in this study, grinding time was 5 min. It was found that the grinding caused an increase in surface area and a grain size reduction of the samples. From TG and DTA results it followed that grinding caused a decrease of the temperature at which the structure bound OH groups released. The formation of high temperature phases was enhanced with the ground samples. For the ground talc sample the crystallization of non-crystalline phase into orthorhombic enstatite was observed in the range of 800°C. For ground pyrophyllite a certain agglomeration of grains was observed in the range above 950°C. Moreover, for both clays the ETA characterized a closing up of subsurface irregularities caused by grinding as a decrease of the emanation rate in the range 250–400°C. The comparison of thermal analysis results with the results of other methods made it possible to better understand the effect of grinding on the ceramic clays.     

Hepatobiliary excretion and brain distribution of caffeine in rats using microdialysis

To investigate the pharmacokinetic mechanism of hepatobiliary excretion and brain distribution of caffeine, this study uses a method based on microdialysis technique and liquid chromatography that allows continuous and concurrent in vivo monitoring of extracellular caffeine in the blood, brain and bile of anesthetized rats following the administration of caffeine (3 or 10 mg/kg, i.v.) through the femoral vein. Dialysates of the blood, brain and bile were directly injected onto the liquid chromatographic system and no further clean-up procedures were required. The study design consisted of two groups of six rats in parallel: the rats of the control group received caffeine (3 or 10 mg/kg, i.v.) alone and those of the cyclosporine treated-group were injected cyclosporine (10 mg/kg, i.v.) 10 min prior to caffeine administration (3 or 10 mg/kg, i.v.). The decline of caffeine in the blood, brain striatum and bile suggested that caffeine had rapid exchange and equilibration between the peripheral compartment and the central nervous system. In addition, the results indicated that caffeine underwent hepatobiliary excretion and was distributed into brain. When cyclosporine was co-administered, the pharmacokinetic parameters were not significantly altered. The results of this study reveal that the pharmacokinetic mechanism of hepatobiliary excretion and brain distribution of caffeine might not relate to P-glycoprotein.     

Solvation of amino acid residues in water and urea-water mixtures: Volumes and heat capacities of 20 amino acids in water and in 8 molar urea at 25°C

The limiting partial molar volumes V ^o and heat capacities C _p ^o of 20 amino acids have been determined in water and in 8 molar urea at 25.0°C using flow calorimetry and flow densimetry. The side chain contributions to V ^o and C _p ^o were obtained as the difference between the properties of the various amino acids and those of glycine, both in water and in 8M urea. The solvent accessible surface area of the amino acid residues were obtained using a method developed by Hermann, and the total surface areas were separated into their hydrophobic A _Hb and hydrophilic components. In water, C _p ^o values for the various residues C _p ^o (R) were found well correlated with A _Hb , though much less so in the urea solution. Hence, C _p ^o (R) values, in water yield a good estimate of side chain hydrophobicity, but the (waterurea) transfer heat capacities appear strongly affected by specific solvation effects in the urea solution.Presented at the sixth Italian meeting on Calorimetry and Thermal Analysis (AICAT) held in Naples, December 4–7, 1984.     

Optimization of the electrophoretic deposition of YBa2Cu3O7−x superconducting large area coatings

Large area coatings (>10cm²) of the high temperature superconductor YBa₂Cu₃O_7–x (x = 0.1 – 0.2) (YBCO) have been prepared by scale up an electrophoretic deposition technique using silver sheets and Si-wafers coated with Ag or Au as substrates. Several parameters, like the kind of the solvent, the applied voltage, the distance between the electrodes, the initial concentration of the suspension and the temperature during the electrophoresis were investigated in order to attain high deposition rates, as well as uniform YBCO coatings with the proper stoichiometry. To obtain a strongly adherent and dense coating a subsequent appropriate sintering and annealing procedure has been developed. The coatings obtained were characterized for their stoichiometry and superconducting properties by X-ray diffraction (XRD), Raman spectroscopy and magnetic measurements. The homogeneity and thickness of the films and the average grain size of the deposited particles have been investigated by optical and scanning electron microscopy (SEM).