Hydration structure of human lysozyme investigated by molecular dynamics simulation and cryogenic X-ray crystal structure analyses: on the correlation between crystal water sites,solvent density,and solvent dipole

The hydration structure of human lysozyme was studied with cryogenic X-ray diffraction experiment and molecular dynamics simulations. The crystal structure analysis at a resolution of 1.4 A provided 405 crystal water molecules around the enzyme. In the simulations at 300 K, the crystal structure was immersed in explicit water molecules. We examined correlations between crystal water sites and two physical quantities calculated from the 1-ns simulation trajectories: the solvent density reflecting the time-averaged distribution of water molecules, and the solvent dipole measuring the orientational ordering of water molecules around the enzyme. The local high solvent density sites were consistent with the crystal water sites, and better correlation was observed around surface residues with smaller conformational fluctuations during the simulations. Solvent dipoles around those sites exhibited coherent and persistent ordering, indicating that the hydration water molecules at the crystal water sites were highly oriented through the interactions with hydrophilic residues. Those water molecules restrained the orientational motions of adjoining water molecules and induced a solvent dipole field, which was persistent during the simulations around the enzyme. The coherent ordering was particularly prominent in and around the active site cleft of the enzyme. Because the ordering was significant up to the third to fourth solvent layer region from the enzyme surface, the coherently ordered solvent dipoles likely contributed to the molecular recognition of the enzyme in a long-distance range. The present work may provide a new approach combining computational and the experimental studies to understand protein hydration.     

Sedimentation and drying dissipative patterns of colloidal silica (305 nm in diameter) suspensions in a glass dish and a watch glass

Sedimentation and drying dissipative structural patterns formed in the course of drying colloidal silica spheres (305 nm in diameter) in aqueous suspension have been studied in a glass dish and a watch glass. The broad ring sedimentation patterns formed within several tenth minutes in suspension state by the convectional flow of water and colloidal spheres. The sedimentary spheres always moved by the convectional flow of water, and the broad ring patterns became sharp with time. The width of the broad rings was sensitive to the change in the room temperature and/or humidity. In other words, the patterns became sharp or vague when the room parameters decreased or increased. Colorful macroscopic drying structures were composed of a broad ring and the wave-formed patterns. Iridescent colored fine patterns formed in the solidification processes on the bases of the sedimentation patterns. Beautiful drying patterns were observed for the suspension mixtures of CS300 and NaCl, and were different from the structures of CS300 or NaCl individuals, which support the synchronous cooperative interactions between the colloidal spheres and the salt.     

Flow immunoassay of trinitrophenol based on a surface plasmon resonance sensor using a one-pot immunoreaction with a high molecular weight conjugate

A surface plasmon resonance (SPR) immunosensor based on a competitive immunoreaction for the determination of trinitrophenol (TNP) is described. A goat anti-mouse IgG (1st antibody), which recognizes an Fc moiety of an antibody, was immobilized on a gold film of an SPR sensor chip by physical adsorption. A TNP solution containing a fixed concentration of a mouse anti-TNP monoclonal antibody (2nd antibody) and a TNP-keyhole limpet hemocyanin (KLH) conjugate was incubated in one-pot and introduced into the sensor chip. The TNP-KLH conjugate competes with TNP for binding with the 2nd antibody. The resulting complex of the 2nd antibody with the TNP-KLH conjugate was bound to the 1st antibody, which is immobilized on the sensor chip. The SPR sensor signal based on resonance angle shift is dependent on the concentration of TNP in the incubation solution in the range from 25 ppt to 25 ppb, and the coefficient of variation of the SPR signals for the 25 ppb TNP solution was determined to be 13% (n = 4). The experimental results for the adsorption constant of the 1st antibody on the sensor chip and the binding constant of the 1st antibody complex with the 2nd antibody are discussed, together with theoretical considerations.     

Improvement of the silver/silver chloride reference electrode and its application to pH measurement

When a silver/silver chloride (Ag AgCl ) reference electrode was used continuously in a low conductivity solution or reductive solution, it was often observed that stability of the liquid junction potential was lost. This phenomenon was remarkable with a Ag AgCl reference electrode compared to a calomel reference electrode. We found that 340 mg l(-1) of silver was dissolved in 3 M potassium chloride (KCl) internal solution as silver complex ions (AgCl(-(x-1))(x)) for x = 2 or 3. However, only 1.93 mg l(-1) of silver chloride (AgCl) can theoretically be dissolved in water. The complex ion that effused into the sample solution through the liquid junction clogged the liquid junction (e.g. porous ceramic) as AgCl, or as metallic silver (Ag) in reducing solution. Therefore, the constant effusion of KCl internal solution was inhibited, and the liquid junction potential became unstable or fluctuating. A new reference electrode was developed, which can eliminate AgCl(-(x-1))(x) in 3 M KCl internal solution by the use of chelating resins. A combination of this reference electrode with a pH electrode made long-term stable pH measurements possible.     

Studies on non-thiazolidinedione antidiabetic agents. 3. Preparation and biological activity of the metabolites of TAK-559

Preparation and biological activity of the metabolites of the potent antihyperglycemic and antihyperlipidemic agent, (E)-4-(4-[(5-methyl-2-phenyl-1,3-oxazol-4-yl)methoxy]benzyloxyimino)-4-phenylbutyric acid (TAK-559) (1), were investigated. Metabolites M-I (2), M-II (3), M-III (4) and M-IV (5) were synthesized and their biological activities were evaluated by in vitro and in vivo experiments. Compounds 2-4 activate human peroxisome proliferator-activated receptor gamma one (hPPARgamma1) and hPPARalpha, but their activities are weaker than those of TAK-559 (1). Compound 5 only activates hPPARgamma1 weakly. TAK-559 (1) showed potent in vivo plasma glucose and triglyceride lowering activities in Wistar fatty rats after intraperitoneal administration, while its metabolites (2-5) showed comparatively weak activities.     

Potentiometric and Spectroscopic Characterization of Copolypeptide-Surfactant Complexes Formed by a Cooperative Binding System

The binding behavior of an anionic surfactant, sodium dodecyl sulfate (SDS), to a series of L-lysine-containing copolypeptides in aqueous solutions was investigated in relation to the conformational change of copolypeptide-surfactant complexes with the use of potentiometric and spectroscopic techniques. The present results of CD spectra and the binding isotherm of SDS by copolypeptides of opposite charges can lead us to conclude that SDS binds cooperatively to the positively charged side groups of a series of copolypeptides used in this work, resulting in the formation of a micelle-like cluster due to an additional hydrophobic interaction among bound SDS ions. Solid-state properties of the stoichiometric copolypeptide-SDS complexes were also examined by using CD and FT-IR spectroscopies; (Lys, Tyr) (1:1) and (4:1) systems adopt a beta-pleated sheet conformation, while (Lys, Trp) (4:1) and (Lys, Phe) (1:1) systems adopt an alpha-helical conformation. Based on the results of FT-IR spectra, in all cases surfactant alkyl chains of SDS in the solid complexes were in an extended conformation. Copyright 2000 Academic Press.     

Glycosides of Atractylodes lancea

Five sesquiterpenoid glycosides (two guaiane-type glycosides and three eudesmane-type glucosides) and a glucoside of an acetylene derivative were newly isolated from the water-soluble portion of the methanolic extract of Atractylodes lancea rhizome together with 26 known compounds. Their structures were characterized as atractyloside A 14-O-beta-D-fructofuranoside, (1S,4S,5S,7R,10S)-10,11,14-trihydroxyguai-3-one 11-O-beta-D-glucopyranoside, (5R,7R,10S)-isopterocarpolone beta-D-glucopyranoside, cis-atractyloside I, (2R,3R,5R,7R,10S)-atractyloside G 2-O-beta-D-glucopyranoside, and (2E,8E)-2,8-decadiene-4,6-diyne-1,10-diol 1-O-beta-D-glucopyranoside on the basis of chemical and spectroscopic investigation. The presence of six characteristic guaiane-type glucosides in both rhizomes of A. lancea and Atractylodes japonica suggested a close chemotaxonomic relationship between them.     

Measurement of pork freshness using potentiometric sensor

This study evaluated pork freshness using potentiometric solid-state electrodes in order to detect chemical indices such as reduced compounds, organic compounds and sulfides, which are produced during the initial stage of putrefaction in meat. Pt, CuS and Ag₂S electrodes selected as solid-state electrodes have, respectively, been used to detect the organic compounds (regarded as chemical indices of deterioration in meat freshness). The outputs of these electrodes have been analyzed by principal component analysis (PCA) and multiple regression analysis (MRA) in order to find the correlation with the results of viable bacterial counts. By using the potentiometric sensor, the pork freshness was evaluated and the PCA and MRA corresponded to the degree of bacterial increases more simply and rapidly than other methods such as viable bacterial counts or a biosensor.     

Photoacoustic spectrometric determination of trace phosphorus as molybdenum blue adsorbed on uniform anion-exchange beads

Photoacoustic spectrometry was applied to the determination of phosphorus as molybdenum blue species adsorbed on an anion-exchange resin (10 mg of uniform beads). The photoacoustic intensity of ten resin particles on a glass plate was measured at 760 nm. The calibration graph obtained was linear in the range of 0.05–0.5 μg of phosphorus. The relative standard deviation for ten determinations of 0.3 μg P was 5.0%. The detection limit was 2 ng P ml^?1.