Intrinsic interaction mode of an inhalation anesthetic with globular proteins: a comparative study on ligand recognition

Interaction mode of an inhalation anesthetic halothane with water-soluble globular proteins, myoglobin (Mgb) and lysozyme (Lys), was studied by differential scanning calorimetry (DSC) and viscometry, and the results were compared with those of bovine serum albumin (BSA). The anesthetic sensitivity was markedly different among the proteins: Mgb was destabilized, Lys was slightly destabilized, and BSA was conversely stabilized. Further, the interaction mode was quite different from those of specific binders for the proteins. The anesthetic sensitivity was highly correlated with the hydrophilicity on the protein surface (Mgb?<?Lys?<?BSA) and the rigidity of the protein structure (BSA????Mgb?<?Lys). We showed that the anesthetic sensitivity among globular proteins can be roughly classified into four categories, and proteins with small hydrophilicity and soft structure are suitable as model proteins of anesthesia. By contrast, the binding of the specific binders was characterized by the lower effective concentrations. The molar ratio of the binder to the protein at the effective concentration was well consistent with the binding number determined from the X-ray structural analysis. Moreover, the interaction mode of the binder was not necessarily in accord with the mode expected from the change in the protein structure. Considering the above facts, we can systematically interpret the effect of an anesthetic on globular proteins by four factors: (1) hydrophobicity of an anesthetic, (2) hydrophilicity of a protein surface, (3) rigidity of a protein structure, and (4) molar ratio of an anesthetic to a protein at the effective concentration.     

Hypervalent nonbonded interactions of a divalent sulfur atom. Implications in protein architecture and the functions

In organic molecules a divalent sulfur atom sometimes adopts weak coordination to a proximate heteroatom (X). Such hypervalent nonbonded S···X interactions can control the molecular structure and chemical reactivity of organic molecules, as well as their assembly and packing in the solid state. In the last decade, similar hypervalent interactions have been demonstrated by statistical database analysis to be present in protein structures. In this review, weak interactions between a divalent sulfur atom and an oxygen or nitrogen atom in proteins are highlighted with several examples. S···O interactions in proteins showed obviously different structural features from those in organic molecules (i.e., π(o) → σ(s)* versus n(o) → σ(s)* directionality). The difference was ascribed to the HOMO of the amide group, which expands in the vertical direction (π(o)) rather than in the plane (n(o)). S···X interactions in four model proteins, phospholipase A? (PLA?), ribonuclease A (RNase A), insulin, and lysozyme, have also been analyzed. The results suggested that S···X interactions would be important factors that control not only the three-dimensional structure of proteins but also their functions to some extent. Thus, S···X interactions will be useful tools for protein engineering and the ligand design.     

Determination factor of <110> direction growth in microcrystalline silicon thin film deposition

We have proposed the mechanism of the <110> directional growth of microcrystalline silicon (μc-Si) thin films deposited by PECVD (plasma enhanced chemical vapor deposition) from SiH₄ and H₂ gas mixture, where dimeric radicals act a key role to form bridge nuclei for the ledge formation on the (110) facet. In order to look further into details of the mechanism, we investigated other important factors that influence the growth of μc-Si in <110> direction in terms of their impact on crystallinity with varying deposition temperature. The enhancement of surface diffusion length of radicals is inferred from the enlargement of the crystalline grain size accompanied with the increase of the deposition temperature. The growth in <110> direction is also promoted as the deposition temperature increases. Therefore, it is suggested that the surface diffusion length of radicals is another key factor that governs the crystalline growth in <110> direction. The growth mechanism of μc-Si thin films in <110> direction is discussed in terms of the relation between the surface diffusion length of monomeric radicals depending on the substrate surface temperature and the average space of bridges depending on the density of dimeric radicals on the growing surface.     

Addition of S‐Heterocyclic Carbenes to Fullerenes: Formation and Characterization of Dithiomethano‐Bridged Derivatives

The reactions of novel S‐heterocyclic carbenes (SHCs), which were prepared by the cycloaddition of disilenes and digermenes to CS₂, with C₆₀ and Sc₃N@I_h‐C₈₀ afforded the corresponding methano‐bridged fullerenes. The [6,6]‐closed and [6,6]‐open structures were characterized for the SHC adducts of C₆₀ and Sc₃N@I_h‐C₈₀, respectively. These derivatives exhibited relatively low oxidation potentials, indicative of the electron‐donating effects of the SHC addends. The electronic properties of the SHC derivatives were clarified by the density functional theory calculations.     

A statistical-mechanical theory of self-diffusion in glass-forming liquids

A statistical-mechanical theory of self-diffusion in glass-forming liquids is presented. A non-Markov linear Langevin equation is derived from a Newton equation by employing the Tokuyama-Mori projection operator method. The memory function is explicitly written in terms of the force-force correlation functions. The equations for the mean-square displacement, the mean-fourth displacement, and the non-Gaussian parameter are then formally derived. The present theory is applied to the glass transitions in the glass-forming liquids to discuss the crossover phenomena in the dynamics of a single particle from a short-time ballistic motion to a long-time self-diffusion process via a β (caging) stage. The effects of the renormalized friction coefficient on self-diffusion are thus explored with the aid of analyses of the simulation results by the mean-field theory proposed recently by the present author. It is thus shown that the relaxation time of the renormalized memory function is given by the β-relaxation time. It is also shown that for times longer than the β-relaxation time the dynamics of a single particle is identical to that discussed in the suspensions.     

13C‐TmDOTA as versatile thermometer compound for solid‐state NMR of hydrated lipid bilayer membranes

Recent advances in solid‐state nuclear magnetic resonance (NMR) techniques, such as magic angle spinning and high‐power decoupling, have dramatically increased the sensitivity and resolution of NMR. However, these NMR techniques generate extra heat, causing a temperature difference between the sample in the rotor and the variable temperature gas. This extra heating is a particularly crucial problem for hydrated lipid membrane samples. Thus, to develop an NMR thermometer that is suitable for hydrated lipid samples, thulium‐1,4,7,10‐tetraazacyclododecane‐1,4,7,10‐tetraacetate (TmDOTA) was synthesized and labeled with ¹³C (i.e., ¹³C‐TmDOTA) to increase the NMR sensitivity. The complex was mixed with a hydrated lipid membrane, and the system was subjected to solid‐state NMR and differential scanning calorimetric analyses. The physical properties of the lipid bilayer and the quality of the NMR spectra of the membrane were negligibly affected by the presence of ¹³C‐TmDOTA, and the ¹³C chemical shift of the complex exhibited a large‐temperature dependence. The results demonstrated that ¹³C‐TmDOTA could be successfully used as a thermometer to accurately monitor temperature changes induced by ¹H decoupling pulses and/or by magic angle spinning and the temperature distribution of the sample inside the rotor. Thus, ¹³C‐TmDOTA was shown to be a versatile thermometer for hydrated lipid assemblies. Copyright © 2015 John Wiley & Sons, Ltd.     

Halogenated cladosporols produced by the sodium halide-supplemented fermentation of the plant-associated fungus Cladosporium sp. TMPU1621

A new cladosporol derivative, 2-chloro-cladosporol D (6), was isolated together with known cladosporol (1), cladosporols B–D (2–4), and cladosporol F (5) from the culture broth of plant-associated Cladosporium sp. TMPU1621. The structure of 6 was elucidated from spectroscopic analyses including NMR and MS data. The productivity of 6 increased in 3% NaCl-supplemented medium; therefore, fermentation of the producing fungus TMPU1621 with 3% NaBr was investigated, leading to the induced production of a new halogenated cladosporol, 2-bromo-cladosporol D (7). Compound 2 showed the lowest MIC values of 3.13 and 12.5?μg/mL against two MRSA strains, ATCC43300 and ATCC700698, respectively.     

Periodic finite elements in two-layer tidal flow

The aim of this paper is to present the finite element method and its application to quasi-steady periodic two-layer tidal flow in estuaries and coastal seas. Formulating the weighted residual equations, using quadratic polynomials for velocity and linear polynomials for water elevation as interpolation functions and employing the periodic Galerkin method, the nonlinear simultaneous equations can be derived. The present method is used for the simulation analysis of the Niigata Port redevelopment planning.     

The 3-CN-4-MU dye laser in ethanol containing various amounts of water,acid or alkali

Dye laser emission from 3-cyano-4-methylumbelliferone in alcoholic solutions containing various amounts of water, acid, or alkali was studied, and the best solvent compositions for the dye were determined. By nitrogen laser pumping, (1) anhydrous ethanolic solution gave very intense laser emission in 400–470 nm region. (2) Aqueous ethanol solutions containing more than 4% of water gave laser of longer-wavelength region, 440–510 nm. Among them, the solution of 16% in water content gave the highest powers. Addition of very small amount of perchloric acid solution to them resulted in a slight expansion of the tuning range toward the shorter wavelength without reducing the intensities. By flashlamp pumping, (3) only the laser of the longer-wavelength region was obtained with aqueous ethanol solutions. The optimum water content to give the highest power was 35–45%.