Identifying potential binding modes and explaining partitioning behavior using flexible alignments and multidimensional scaling

A method is described for the rapid and automatic analysis of flexible molecular alignments using multidimensional scaling and a normalized scoring scheme. A projection scheme was devised to separate orientational and conformational effects. It is shown that the approach can be utilized for the identification of common binding orientations or to the study of differences in partioning behavior. It is suggested that the method can be employed as a novel approach exploring molecular similarity as a dynamic property, so that it includes aspects of motion (by way of mutual orientations), conformations and molecular properties.     

高聚物固体电解质聚氧化乙烯－溴化铜复阻抗谱及介电常数的静水压效应

采用分子量５００万的聚氧化乙烯和无水溴化铜，通过混溶蒸发法制备成高聚物固体电解质Ｐ（ＥＯ）ｎ－ＣｕＢｒ２薄膜，并在０．１～３００ＭＰａ范围不同的流体静水压下详细测量其复平面阻抗谱，分别得到在不同压力下离子电导率和介电常数与测量频率的关系．进一步解谱准确地求出Ｐ（ＥＯ）ｎ－ＣｕＢｒ２（ｎ＝１２、１６）薄膜离子电导率和介电常数的静水压效应，并结合Ｘ－光物相分析，根据离子迁移通道的物理图象和高聚物的极化机构进行了初步的讨论．添加２０％的增塑剂碳酸丙烯酯，较大改进了压力下的导电性．１２０～３００ＭＰａ的离子电导率提高一个数量级     

Influences of the Hydrophobicity of the Heme-binding Pocket on the Properties and Functions of Cytochrome b_5 Mutants

IntroductionElectrontransferreactionsarethekeystepsinphoto synthesis ,respirationandmanyotherbiochemicalprocess es.1Cytochromeb5isaredoxproteinexistingwidelyinnature ,whichactsasanelectron carrierduringvariouselectrontransferprocessesinthebiologicalsystem .2Cytochromeb5isamembraneproteinwithmolecularweightofapproximately 16kDa ,ofwhichthehydrophobicC terminaldomainanchorscytochromeb5tothemem brane ,andthehydrophilicN terminaldomaincontainshemeprostheticgroupandexhibitsthebiologicalfunctionsof…     

Densities and Apparent Molar Volumes of Aqueous NaNO3 Solutions at Temperatures from 292 to 573 K and at Pressures Up to 30 MPa

Densities of four aqueous NaNO₃ solutions (0.100, 0.303, 0.580, 0.892 mol-kg^–1 H₂O) have been measured in the liquid phase with a constant-volume piezometer immersed in a precision liquid thermostat. Measurements were made at ten isotherms between 292 and 573 K. The range of pressure was 0.1–30 MPa. The total uncertainty of density, pressure, temperature, and concentration measurements were estimated to be less than 0.06%, 0.05%, 10 mK, and 0.014%, respectively. Values of saturated densities were determined by extrapolating experimental P- data to the vapor pressure at fixed temperature and composition. Apparent molar volumes were derived using measured values of density for the solutions and for pure water. The apparent molar volumes were extrapolated to zero concentration to yield partial molar volumes at infinite dilution. The temperature, pressure, and concentration dependence of partial and apparent molar volumes were studied. The measured values of density and apparent and partial molar volume were compared with data reported in the literature.     

Molecular Ionics of Anion Receptor Molecules: A Microcalorimetric Study

The coordination of divalent and monovalent inorganic anions to synthetic polyammonium receptors is investigated in aqueous solution around neutral pH by titration calorimetry and NMR spectroscopy. High-affinity 1:1 complexes are formed by a pyrrole type cryptand (1) with sulfate and phosphate, characterized by association constants of almost 107 M^-1. Affinities close to 105 M^-1 are found for polyazacryptands (3 and 4) exhibiting F^-/Cl^- selectivity. The binding affinities and the anion selectivities are mainly caused by the charges of ligands and anions, which is discussed on the basis of simple calculations of the electrostatic contribution to the anion/receptor interactions. The binding of all investigated anions is exothermic at 298.2 K. The contribution of the large negative ΔH values to the free energy of anion binding of the pyrrole type ligand is partially compensated by marked negative ΔS values. These unfavorable entropic contributions are attributed to the additional inclusion of water molecules in the anion/receptor complexes. This revised version was published online in July 2006 with corrections to the Cover Date.     

Determination of adsorption and speciation of chromium species by saltbush (Atriplex canescens) biomass using a combination of XAS and ICP-OES

Studies were performed to determine the effect of pH on chromium (Cr) binding by native, esterified, and hydrolyzed saltbush (Atriplex canescens) biomass. In addition, X-ray absorption spectroscopy studies were performed to determine the oxidation state of Cr atoms bound to the biomass. The amounts of Cr adsorbed by saltbush biomass were determined by inductively coupled plasma-optical emission spectroscopy (ICP-OES). For Cr(III), the results showed that the percentages bound by native stems, leaves, and flowers at pH 4.0 were 98%, 97%, and 91%, respectively. On the other hand, the Cr(VI) binding by the three tissues of the native and hydrolyzed saltbush biomass decreased as pH increased. At pH 2.0 the stems, leaves, and flowers of native biomass bound 31%, 49%, and 46%, of Cr(VI), respectively. The results of the XAS experiments showed that Cr(VI) was reduced in some extend to Cr(III) by saltbush biomass at both pH 2.0 and pH 5.0. The XANES analysis of the Cr(III) reaction with the saltbush biomass parts showed an octahedral arrangement of oxygen atoms around the central Cr(III) atom. The EXAFS studies of saltbush plant samples confirmed these results.     

Dependence of the rate constants on the treatment of internal rotation modes: the reaction OH + CH3SH --> CH3S + H2O as an example

The title reaction has been used as an example to test the importance of using a hindered rotor treatment instead of a harmonic oscillator model for calculating vibrational partition functions corresponding to low-frequency internal rotation modes. First, a normal-mode analysis according to the Ayala and Schlegel's algorithm has been used to identify the internal rotation modes of methanethiol and the transition state structure. Then, after calculation of the energy barrier for each internal rotation, the corresponding hindered rotor partition functions have been calculated following the CW scheme of Chuang and Truhlar. The results show that the anharmonic treatment produces a rather modest improvement of the rate constants at room temperature or below.     

酞菁（H_2TAP）的X－射线光电子能谱（XPS）

酞菁（Ｈ_２ＴＡＰ）的Ｘ－射线光电子能谱（ＸＰＳ）朱志昂，卜显和，刘月霞（南开大学化学系天津３０００７１）ＰａｕｌＧ．Ｇａｓｓｍａｎ（美国明尼苏达大学化学系）关键词酞青，ＸＰＳ，Ｃ１ｓ电子结合能，Ｎ１ｓ电子结合能酞菁及其金属配合物作为叶绿素，血红素的?..     

介质对配合物稳定性的影响——Ⅱ.Cu(SCN)+—NaNO3—二氧六环—水体系

本文用分光光度法确定了25℃时配阳离子Cu(SCN)~+在NaNO_3—二氧六环—H_2O介质中的稳定常数。溶剂组成变化范围为0,5,10,15和20wt％二氧六环,离子强度范围为0.2～3.0moledm~(-3),溶液的pH=1.5～1.6。本文提出了基于Pitzer方程式的最小二乘多项式逼近法,确定出各种不同组成混合溶剂中配合物的热力学稳定常数。讨论了该常数和一级介质效应与溶剂组成和介电常数的关系。