BrSSCl和SSBrCl相对稳定性的理论研究

采用量子化学中的密度泛函理论，在B3LYP／6-311 G(3df)水平上全优化得到了S2BrCl分子线型和分叉型2种异构体的平衡结构，同时对可能发生的分子内原子迁移过程的过渡态进行了考察。计算结果表明，从能量角度看，线型的BrSSCl为稳定构型。采用统计热力学及过渡态理论，研究了Z种平衡结构之间相互转化的热力学和动力学性质。根据计算结果，无论是Cl迁移还是Br迁移，分子内的原子迁移都需要较高的活化能，并且迁移速度较慢。     

Catalytic antibodies for complex reactions

Success in generating catalytic antibodies as enzyme mimics lies in the strategic design of the transition-state analog (TSA) for the reaction of interest, and careful development of screening processes for the selection of antibodies that are catalysts. Typically, the choice of TSA structure is straightforward, and the criterion for selection in screening is often binding of the TSA to the antibody in a microtiter-plate assay. This article emphasizes the problems of TSA design in complex reactions and the importance of selecting antibodies on the basis of catalysis as well as binding to the TSA. The target reaction is the derivatization of primary amines with naphthalene-2,3-dicarboxaldehyde (NDA) in the presence of cyanideion. The desired outcome is selective catalysis of formation of the fluorescent derivative in preference to nonfluorescent side-products. In the study, TSA design was directed toward the reaction branch leading to the fluorescent product. Here, we describe a microtiter plate-based assay that is capable of detecting antibodies showing catalytic activity atan early stage. Of the antibodies selected, 36% showed no appreciable binding to any of the substrates tested, but did show catalytic activity in deriving one or more of the amino acids screened. In contrast, only two out of 77 clones that showed binding did not show catalysis. Thus, in this complex system, observation of binding is a good predictor of the presence of catalytic activity, and failure to observe binding is a poor predictor of the absence of catalytic activity.     

Viscosities of Some Tetraalkylammonium and Alkali-Metal Salts in N,N-Dimethylacetamide at 25°C

The viscosities of solutions of tetrapropylammonium bromide (Pr₄NBr), tetrabutylammonium bromide (Bu₄NBr), tetrapentylammonium bromide (Pen₄NBr), tetrahexylammonium bromide (Hex₄NBr), tetraheptylammonium bromide (Hep₄NBr), tetraoctylammonium bromide (Oct₄NBr), tetrabutylammonium tetraphenylborate (Bu₄NBPh₄), sodium tetraphenylborate (NaBPh₄), and potassium tetraphenylborate (KBPh₄) in N,N-dimethylacetamide are reported at 25^°C. The viscosity data havebeen analyzed by the Jones-Dole equation for associated electrolytes to evaluate the viscosity B coefficients of the electrolytes. These data have also been analyzed by the transition-state theory to obtain the contribution of the solutes to the free energy of activation for viscous flow of the solution. The ionic contribution to the viscosity B coefficient and the free energy of activation for viscous flow have been estimated using of the reference electrolyte Bu₄NBPh₄. The bromide, tetraphenylborate, and tetraalkylammonium ions are found to be weakly solvated in N,N-dimethylacetamide, whereas significant solvation has been detected for sodium and potassium ions. The viscosity of the solvent is greatly modified by the presence of all the ions investigated here with the exception of the bromide ion.     

S2BrH的构型及其异构化反应的理论研究

由于在合成化学、大气化学和环境保护中的重要性，过硫化物XSSX(X=H，CH3，F，Cl等)被广泛研究。本文采用量子化学的密度泛函方法(DFT)，对S2BrH可能存在的2种构型的几何结构、相对稳定性以及可能的分子内原子迁移过程进行研究，探讨分叉型异构体SSBrH存在的可能性。     

Direct dynamics study on hydrogen abstraction reaction of CF3CHOHCF3 with OH radical

Dual-level direct dynamics method is employed to investigate the H-abstraction reaction CF₃CHOHCF₃ with OH radical. Two hydrogen-abstraction reaction channels are possible: one from the methylene (–CH–) position and the other from the hydroxyl (–OH) position. The minimum energy path is calculated at the B3LYP/6-311G(d,p) level, and the energetic information is further refined by a new powerful and inexpensive BMC-CCSD method. To testify the accuracy of the structures and the energies, the recently developed hybrid density functional theory BB1K and higher level MC-QCISD are applied to this system. Hydrogen-bonded complexes are presented at both reactants and products sides of these two channels, which indicating that the reaction may proceed via an indirect mechanism. The rate constants for each reaction channel are evaluated by canonical variational transition state theory (CVT) with a small-curvature tunneling correction (SCT) over a wide range of temperatures from 200 to 2000 K. The calculated CVT/SCT rate constants are in good agreement with the available experimental values in the temperature region 250–430 K. The present results indicate that the two channels are competitive. At lower temperature, the reaction occurs mainly via the hydroxyl-H-abstraction channel, while the methylene-H-abstraction channel is preferred when the temperature is higher than 273 K.     

Metal Fluorides as Analogues for Studies on Phosphoryl Transfer Enzymes

The 1994 structure of a transition‐state analogue with AlF₄⁻ and GDP complexed to G1α, a small G protein, heralded a new field of research into the structure and mechanism of enzymes that manipulate the transfer of phosphoryl (PO₃⁻) groups. The number of enzyme structures in the PDB containing metal fluorides (MF_x) as ligands that imitate either a phosphoryl or a phosphate group was 357 at the end of 2016. They fall into three distinct geometrical classes: 1) Tetrahedral complexes based on BeF₃⁻ that mimic ground‐state phosphates; 2) octahedral complexes, primarily based on AlF₄⁻, which mimic “in‐line” anionic transition states for phosphoryl transfer; and 3) trigonal bipyramidal complexes, represented by MgF₃⁻ and putative AlF₃⁰ moieties, which mimic the geometry of the transition state. The interpretation of these structures provides a deeper mechanistic understanding into the behavior and manipulation of phosphate monoesters in molecular biology. This Review provides a comprehensive overview of these structures, their uses, and their computational development.     

Synthesis of Protected Hydroxyethylamine Transition-State Analogs of N-Ac-Muramyl-L-alanine

A novel N-acetyl-α-D-glucosamine derivative containing an epoxide moiety 5 has been synthesized and converted into a series of protected hydroxyethylamine transition-state analogs of N-Ac-muramyl-L-ala peptide 6a–e using a microwave-accelerated reaction.     

Direct ab initio dynamics studies on the hydrogen-abstraction reactions of OH radicals with HOX (X = F, Cl, and Br)

The hydrogen abstract reactions of OH radicals with HOF (R1), HOCl (R2), and HOBr (R3) have been studied systematically by a dual-level direct-dynamics method. The geometries and frequencies of all the stationary points are optimized at the MP2/6-311+G(2d, 2p) level of theory. A hydrogen-bonded complex is located at the product channel for the OH + HOBr reaction. To improve the energetics information along the minimum energy path (MEP), single-point energy calculations are carried out at the CCSD(T)/6-311++G(3df, 3pd) level of theory. Interpolated single-point energy (ISPE) method is employed to correct the energy profiles for the three reactions. It is found that neither the barrier heights (DeltaE) nor the H-O bond dissociation energies [D(H-O)] exhibit any clear-cut linear correlations with the halogen electronegative. The decrease of DeltaE and D(H-O) for the three reactions are in order of HOF > HOBr > HOCl. Rate constants for each reaction are calculated by canonical variational transition-state theory (CVT) with a small-curvature tunneling correction (SCT) within 200-2000 K. The agreement of the rate constants with available experimental values for reactions R2 and R3 at 298 K is good. Our results show that the variational effect is small while the tunneling correction has an important contribution in the calculation of rate constants in the low-temperature range. Due to the lack of the kinetic data of these reactions, the present theoretical results are expected to be useful and reasonable to estimate the dynamical properties of these reactions over a wide temperature range where no experimental value is available.     

Nonspecific catalysis by protein surfaces

Catalytic antibodies are the best availablea llaround enzyme mimics. They provide a unique experimental approach and some special insights into general questions about catalysis by enzymes. They offer enantiospecific reactions and levels of substrate binding that compare well with typical enzyme reactions, but not—so far—comparable catalytic efficiency. We and others have used the Kemp elimination as a probe of catalytic efficiency in antibodies. We compare these reactions with nonspecific catalysis by other proteins, and with catalysis by enzymes. Several simple reactions are catalyzed by theserum albumins with Michaelis-Menten kinetics, and can be shown to involve substrate binding and catalysis by local functional groups. Here, we report the details of one investigation, which implicate known binding sites on the protein surface and discuss implications for catalyst design and efficiency.     

Ab initio study of rate constants of the reaction: HCN + OH → CN + H2O

A method applying ab initio direct dynamics has been utilized in studying the hydrogen abstraction reaction HCN + OH → CN + H₂O. The geometries of the reactants, products, and the transition state have been optimized at the QCISD/6-311G(d, p) level. Single-point energies were further evaluated at the QCISD(T)/6-311+G(2df, 2p)//QCISD/6-311G(d, p) level. The barrier heights for the forward and reverse reactions were predicted to be 15.95 and 7.51 kcal mol⁻¹ at the QCISD(T)/6-311 + G(2df, 2p)//QCISD/6-311G(d, p) level, respectively. The reaction rate constants were calculated in the temperature range from 298 to 4,000 K using the canonical variational transition-state theory with a small-curvature tunneling correction. The results of the calculation show that the theoretical rate constants are in good agreement with experimental data over the measured temperature range of 400–2,600 K. Received: 18 August 2002 / Accepted: 30 August 2002 / Published online: 20 November 2002 Acknowledgements. Our thanks are due to D.G. Truhlar for providing the POLYRATE 8.2 program. This work was supported by the National Science Foundation of China. We also thank D.C. Fang and Y. M. Xie for their valuable help, and P.R. Yan for reading our paper. Correspondence to: Q. S. Li e-mail: qsli@mh.bit.edu.cn