A new GROMOS force field for hexopyranose-based carbohydrates

A new parameter set (referred to as 45A4) is developed for the explicit-solvent simulation of hexopyranose-based carbohydrates. This set is compatible with the most recent version of the GROMOS force field for proteins, nucleic acids, and lipids, and the SPC water model. The parametrization procedure relies on: (1) reassigning the atomic partial charges based on a fit to the quantum-mechanical electrostatic potential around a trisaccharide; (2) refining the torsional potential parameters associated with the rotations of the hydroxymethyl, hydroxyl, and anomeric alkoxy groups by fitting to corresponding quantum-mechanical profiles for hexopyranosides; (3) adapting the torsional potential parameters determining the ring conformation so as to stabilize the (experimentally predominant) (4)C(1) chair conformation. The other (van der Waals and nontorsional covalent) parameters and the rules for third and excluded neighbors are taken directly from the most recent version of the GROMOS force field (except for one additional exclusion). The new set is general enough to define parameters for any (unbranched) hexopyranose-based mono-, di-, oligo- or polysaccharide. In the present article, this force field is validated for a limited set of monosaccharides (alpha- and beta-D-glucose, alpha- and beta-D-galactose) and disaccharides (trehalose, maltose, and cellobiose) in solution, by comparing the results of simulations to available experimental data. More extensive validation will be the scope of a forthcoming article. (c) 2005 Wiley Periodicals, Inc. J Comput Chem 26: 1400-1412, 2005.     

Amplified quenching of a conjugated polyelectrolyte by cyanine dyes

The conjugated polyelectrolyte PPESO3 features a poly(phenylene ethynylene) backbone substituted with anionic 3-sulfonatopropyloxy groups. PPESO3 is quenched very efficiently (KSV > 10(6) M(-1)) by cationic energy transfer quenchers in an amplified quenching process. In the present investigation, steady-state and picosecond time-resolved fluorescence spectroscopy are used to examine amplified quenching of PPESO3 by a series of cyanine dyes via singlet-singlet energy transfer. The goal of this work is to understand the mechanism of amplified quenching and to characterize important parameters that govern the amplification process. Steady-state fluorescence quenching of PPESO3 by three cationic oxacarbocyanine dyes in methanol solution shows that the quenching efficiency does not correlate with the Forster radius computed from spectral overlap of the PPESO3 fluorescence with the cyanines' absorption. The quenching efficiency is controlled by the stability of the polymer-dye association complex. When quenching studies are carried out in water where PPESO3 is aggregated, changes observed in the absorption and fluorescence spectra of 1,1',3,3,3',3'-hexamethylindotricarbocyanine iodide (HMIDC) indicate that the polymer templates the formation of a J-aggregate of the dye. The fluorescence dynamics in the PPESO3/HMIDC system were probed by time-resolved upconversion and the results show that PPESO3 to HMIDC energy transfer occurs on two distinctive time scales. At low HMIDC concentration, the dynamics are dominated by an energy transfer pathway with a time scale faster than 4 ps. With increasing HMIDC concentration, an energy pathway with a time scale of 0.1-1 ns is active. The prompt pathway (tau < 4 ps) is attributed to quenching of delocalized PPESO3 excitons created near the HMIDC association site, whereas the slow phase is attributed to intra- and interchain exciton diffusion to the HMIDC.     

Kb/Ka X-ray intensity ratios in calcium and potassium compounds

Summary Kb/Ka X-ray intensity ratios of some K and Ca compounds were studied. The samples were excited with 59.5 keV g-rays emitted from 75 mCi ²⁴¹Am radioisotope source and characteristic K X-ray from the samples were counted by means of an Si(Li) detector which has a resolution 155 eV at 5.9 keV. We found that Kb/Ka X-ray intensity ratios are changed by chemical effect for different K and Ca compounds. The experimental values were compared with the calculated theoretical values for elemental K and Ca.     

An Efficient Strategy to Orthogonally Protected (R)- and (S)-alpha-Methyl(alkyl)serine-Containing Peptides via a Novel Azlactone/Oxazoline Interconversion Reaction

A novel strategy for the synthesis of (R)- and (S)-alpha-methyl(alkyl)serine-containing peptides is presented. Using (S)-phenylalanine cyclohexylamide 6 as chiral auxiliary, the optically pure azlactones (R)- and (S)-2 were synthesized via a novel azlactone/oxazoline interconversion reaction (Figures 3 and 6). These azlactones constitute fully protected and activated synthetic equivalents of (R)- and (S)-alpha-methylserine and can be directly incorporated into peptides without further protective group manipulations. Like other alpha,alpha-dialkylated glycines, optically pure alpha-alkylserines can be used to stabilize beta-turn and alpha-helical conformations in short peptides.     

Preparation,structure and catalytic properties of a binuclear Pd(0) complex with bridging silylene ligands

In contrast to the N-heterocyclic carbene (NHC) 1, the homologous N-heterocyclic silylene (NHS) 4 acts as a bridging ligand to Pd(0), giving rise to the dinuclear complex 5 which is catalytically active in Suzuki reactions.     

Preliminary Analyses of Radionuclides in Afşin-Elbistan Lignite Samples

This preliminary study describes the concentration of radionuclides ²³⁸U, ²³²Th, ⁴⁰K, and ²²⁶Ra in Afin-Elbistan lignite samples which are primarily used for power generation in the Afin-Elbistan Coal-Fired Power Plant. The results show that the concentration of ²³⁸U is higher in the Afin-Elbistan lignite compared to various world coals whereas the opposite is observed with ²³²Th and ⁴⁰K.     

Infrared multiphoton dissociation of CF3Br

The CF₂, Br, and F products of 9.2 μ multiphoton dissociation of CF₃Br have been spectroscopically monitored. Primary dissociation leads to CF₃ + Br, while secondary dissociation of CF₃ leads to CF₂ + F. Both the Br and F atoms are found to have average recoil energies close to those of thermal (300 K) atoms. Comparison of these results to calculations based on RRKM theory indicates that CF₃Br dissociates from levels 2–5 photons above the CF₃ + Br threshold.     

Voltammetric determination of mercury levels in tuna fish

Summary A reliable and rapid procedure for the determination of Hg in fish by differential pulse anodic-stripping voltammetry (DPASV) at the gold electrode has been developed for use in food control and marine ecotoxicology. Potentialities and performance are demonstrated by the investigation of tuna fish. Samples of 0.5–2.5 g are subjected to pressurized digestion with HNO₃/HClO₄ (71). The resulting analyte solution is irradiated in closed flasks with ultraviolet light in presence of H₂O₂ to decompose dissolved organic substances. This is followed by DPASV with two standard additions. The relative standard deviation for the lower g/g range is below 5%. Comparative determination by gas chromatography confirmed that in fish-muscle mercury exists almost completely in the form of toxic organomercurials, i. e. methyl- and dimethylmercury.

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Voltammetrische Bestimmung von Quecksilber in Thunfischen

Zusammenfassung Für die Lebensmittelkontrolle und marine Ökotoxikologie wurde eine neue spurenanalytische Alternative zur raschen und zuverlässigen Bestimmung des Quecksilbergehaltes in Fisch unter Einsatz der differentiellen Pulsinversvoltammetrie (DPIV) und Verwendung einer Goldscheibenelektrode entwickelt.Möglichkeiten und Leistungsfähigkeit der Methode werden durch die Untersuchung von Thunfisch demonstriert. Proben von 0,5 bis 2,5 g Frischgewicht werden zunächst einem Druckaufschluß mit HNO₃/HClO₄ (71) unterworfen. Die resultierende Analytlösung wird zum Abbau gelöster organischer Substanzen im geschlossenen Gefäß einer UV-Bestrahlung (70° C, 150 W Quecksilberlampe, 4 h) unter oxydierenden Bedingungen (H₂O₂) unterzogen. Anschließend erfolgt die voltammetrische Bestimmung mit DPIV unter Vornahme von zwei Eichzusätzen. Die relative Standardabweichung liegt im unteren mg/kg-Bereich unter 5%. Die Richtigkeit wurde durch Vergleichsbestimmung mit der Gaschromatographie getestet. Die Übereinstimmung der ermittelten Quecksilbergehalte bestätigt, daß im Muskelfleisch von Fisch das Quecksilber nahezu vollständig in toxischen organischen

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Taken in part from the Ph. D. Thesis of R. Ahmed. Presented at the 8th International Microchemical Symposium, Graz, August 25–30, 1980.     

Photodissociation of dimethylnitrosamine

Photodissociation of (CH₃)₂N-NO following S₁(nπ^*) ← S₀ excitation yields (CH₃)₂N^? and NO with a quantum yield of 1.03 ± 0.10. These fragments recombine leaving no stable photopioducts. A fraction of NO produced by photolysis is vibrationally excited. The rate of the NO(v = 1) relaxation in collision with (CH₃)₂N-NO, measured by IR fluorescence, is (1.47 ± 0.03) × 10⁴ s^?1 Torr^?1.     

Grid-free DFT implementation of local and gradient-corrected XC functionals

Following an approach to density functional theory calculations based on the matrix representation of operators, we implemented a scheme as an alternative to traditional grid-based methods. These techniques allow integrals over exchange-correlation operators to be evaluated through matrix manipulations. Both local and gradient-corrected functionals can be treated in a similar way. After deriving all the required expressions, selected examples with various functionals are given. Received: 7 March 1998 / Accepted: 21 May 1998 / Published on line: 6 August 1998