Quantum mechanics/molecular mechanics studies of triosephosphate isomerase-catalyzed reactions: effect of geometry and tunneling on proton-transfer rate constants

The role of tunneling for two proton-transfer steps in the reactions catalyzed by triosephosphate isomerase (TIM) has been studied. One step is the rate-limiting proton transfer from Calpha in the substrate to Glu 165, and the other is an intrasubstrate proton transfer proposed for the isomerization of the enediolate intermediate. The latter, which is not important in the wild-type enzyme but is a useful model system because of its simplicity, has also been examined in the gas phase and in solution. Variational transition-state theory with semiclassical ground-state tunneling was used for the calculation with potential energy surface determined by an AM1 method specifically parametrized for the TIM system. The effect of tunneling on the reaction rate was found to be less than a factor of 10 at room temperature; the tunneling becomes more important at lower temperature, as expected. The imaginary frequency (barrier) mode and modes that have large contributions to the reaction path curvature are localized on the atoms in the active site, within 4 A of the substrate. This suggests that only a small number of atoms that are close to the substrate and their motions (e.g., donor-acceptor vibration) directly determine the magnitude of tunneling. Atoms that are farther away influence the effect of tunneling indirectly by modulating the energetics of the proton transfer. For the intramolecular proton transfer, tunneling was found to be most important in the gas phase, to be similar in the enzyme, and to be the smallest in water. The major reason for this trend is that the barrier frequency is substantially lower in solution than in the gas phase and enzyme; the broader solution barrier is caused by the strong electrostatic interaction between the highly charged solute and the polar solvent molecules. Analysis of isotope effects showed that the conventional Arrenhius parameters are more useful as experimental criteria for determining the magnitude of tunneling than the widely used Swain-Schaad exponent (SSE). For the primary SSE, although values larger than the transition-state theory limit (3.3) occur when tunneling is included, there is no clear relationship between the calculated magnitudes of tunneling and the SSE. Also, the temperature dependence of the primary SSE is rather complex; the value of SSE tends to decrease as the temperature is lowered (i.e., when tunneling becomes more significant). For the secondary SSE, the results suggest that it is more relevant for evaluating the "coupled motion" between the secondary hydrogen and the reaction coordinate than the magnitude of tunneling. Although tunneling makes a significant contribution to the rate of proton transfer, it appears not to be a major aspect of the catalysis by TIM at room temperature; i.e., the tunneling factor of 10 is "small" relative to the overall rate acceleration by 10(9). For the intramolecular proton transfer, the tunneling in the enzyme is larger by a factor of 5 than in solution.     

C_(70)R_2(R=OH,CH_3)的结构和电子光谱

INDO方法研究了C70R2（R＝OH，CH3）4种异构体的结构和稳定性，表明1，9－C70（OH）2比7，8－C70（OH）2稳定，两者能量差为38．5kJ／mol，而7，8－C70（CH3）2比1，9－C70（CH3）2能量低23．0kJ／mol．以优化构型为基础，对C70R2（R＝OH，CH3）的电子光谱进行了理论预测．     

[SiMo_2~(Ⅴ)Mo_(10)~(Ⅵ)O_(40)]~(6-)及其钒取代物的量子化学研究

采用SCC－DV－Xα方法对α－Keggin结构硅钼二电子还原态杂多蓝阴离子［SiMo2（V）Mo10（VI）O40］6-和它的混合型钒取代物［SiV2（V）Mo10（VI）O40］6-进行了量子化学计算，获得了轨道能级、费米能级、各原子价电子布居、自由价态密度分析和分子轨道成分等信息．理论分析表明该杂多阴离子中所有原子Si、Mo、V、Oa、Ob、Oc和Od都参与反应，Oc和Od的成键能力较强，化学活性较大，有力地支持了实验结果．中心硅氧四面体结构发生畸变很小，但构成三金属簇的八面体结构都发生了较明显的畸变，其整体仍然保持α－Keggin结构．钒的取代增强了Mo2VO13三金属族中Od的活性．预测这两种杂多阴离子都有被继续还原和取代的趋势，[SiMo2(V)Mo10(VI)O40]6-的趋势更强．     

C_（60）的胺加成反应和电喷雾电离质谱（ESI－MS）检测

报道了Ｃ６０与１，３－丙二胺和Ｎ，Ｎ－二甲基－１，３－丙二胺的加合反应，反应产物未经预先离子化处理直接用ＥＳＬ－ＭＳ进行检测。由于反应产物从甲苯溶液中析出，避免了生成多胺基加合物，产物以单加成物为主。当加合反应在空气氛下进行时，有加合氧的产物Ｃ６０Ｏｎ（ＮＨ２—ＣＨ２ＣＨ２ＣＨ２ＮＲ２）ｍ（Ｒ＝Ｈ，ＣＨ３）存在。实验发现：Ｎ，Ｎ－二甲基－１，３－丙二胺比１，３－丙二胺更容易与Ｃ６０发生多胺基加成和氧加成反应。通过控制反应条件可制备Ｃ６０二胺的单加成产物。     

First principles study of the structure,electronic state,and stability of CmN2 clusters

Geometric and electronic properties of C_mN₂ (m = 1–14) clusters have been investigated by density functional theory using the hybrid B3LYP functional and the 6‐311G(d) basis set. Harmonic frequencies for these clusters are given to aid in the characterization of the ground states. These results show that C_mN₂ (m = 1–14) clusters form linear structures with D_∞h symmetry. Two N atoms favor to bond at ends in linear isomers. The chains with odd m have triplet ground states whereas the ones with even m have singlet ground states. The calculated HOMO–LUMO gaps and ionization potentials all show that the C_mN₂ (m = 1–14) clusters with even m are more stable than those with odd m, which is consistent with the observed even–odd alternation of the time‐of‐flight signal intensities. © 2003 Wiley Periodicals, Inc. Int J Quantum Chem, 2004     

新型聚醚的合成与表征

用高活性催化剂催化环氧丙烷开环聚合得到一类新型高质量聚醚。对产物进行IR和NMR表征和分析,并探讨了合成工艺条件。结果表明,调节单体与调节剂的比例,控制反应温度在100 5℃,压力在0.15 ~ 0.25 MPa ,可得到不饱和度低、相对分子质量可控、相对分子质量分布窄的聚醚产品。     

Synthesis of a Mimicking Hybrid of Annonaceous Acetogenin with Steroid for Antitumoral Activity Investigation

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Effect of Alkali Treatment on the Structure and Catalytic Properties of ZSM-5 Zeolite

Catalytic properties of ZSM-5 zeolite samples pretreated with NaOH solution have been investigated. The samples are characterized by XRD, SEM, chemical analysis, and N2 adsorption.The results indicate that mesopores are created in ZSM-5 crystals under alkali treatment without change the microporous structure and acidic strength of the zeolite, but the crystallinity is greatly decreased under severe treatment. IR indicates that the concentration of silanol is greatly enriched by alkali treatment. The etherification activities of ZSM-5 zeolites are greatly increased byalkali-treatment. The noticeably improved catalytic activity of treated samples is ascribed to the formation of mesopores and greatly enriched silanol group.     

Theoretical study on germanium cyanide radical GeCN and its ions

A detailed theoretical study is performed on the hitherto unknown germanium cyanide radical and its ions. The (2)Pi state GeCN lies 5.0 kcal/mol lower than the (2)Pi state GeNC at the coupled-cluster theory including single and double excitations and perturbative inclusion of triple excitations [CCSD(T)]/6-311++G(3df)//quadratic configuration interaction with single and double excitations (QCISD)/6-311G(d)+zero-point vibrational energy (ZPVE) level. For interconversion between them, two electronic state pathways (2)A(') and (2)A(") are located, with the latter being 0.7 kcal/mol more favorable than the former. On the (2)A(") path, the GeCN-->GeNC and GeNC-->GeCN conversion barriers are 14.5 and 9.5 kcal/mol, respectively. The detailed singlet and triplet potential-energy surfaces of both the cationic and anionic GeCN species are also investigated. On the ground-state electronic hypersurface, singlet GeNC(+) is 4.6 kcal/mol more stable than singlet GeCN(+), whereas triplet GeNC(-) is 10.0 kcal/mol less stable than triplet GeCN(-). The relative energy difference between the GeCN(0,+/-) and GeNC(0,+/-) can be well correlated with the number of vacant orbitals on the Ge atom. The stability of the neutral and ionic CGeN and cyclic cGeCN is also discussed. The predicted structures, spectroscopies, ionization, and affinity energies as well as the Renner-Teller properties are expected to provide reliable estimates for future characterization of the potential GeCN and GeNC radicals as well as their ionic counterparts both in the laboratory and in the interstellar space.     

The synthesis and electronic structure of a novel [NiS4Fe2(CO)6] radical cluster: implications for the active site of the [NiFe] hydrogenases

A novel [NiS4Fe2(CO)6]cluster (1: 'S(4)'=(CH(3)C(6)H(3)S(2))(2)(CH(2))(3)) has been synthesised, structurally characterised and has been shown to undergo a chemically reversible reduction process at -1.31 V versus Fc(+)/Fc to generate the EPR-active monoanion 1(-). Multifrequency Q-, X- and S-band EPR spectra of (61)Ni-enriched 1(-) show a well-resolved quartet hyperfine splitting in the low-field region due to the interaction with a single (61)Ni (I=3/2) nucleus. Simulations of the EPR spectra require the introduction of a single angle of non-coincidence between g(1) and A(1), and g(3) and A(3) to reproduce all of the features in the S- and X-band spectra. This behaviour provides a rare example of the detection and measurement of non-coincidence effects from frozen-solution EPR spectra without the need for single-crystal measurements, and in which the S-band experiment is sensitive to the non-coincidence. An analysis of the EPR spectra of 1(-) reveals a 24 % Ni contribution to the SOMO in 1(-), supporting a delocalisation of the spin-density across the NiFe(2) cluster. This observation is supported by IR spectroscopic results which show that the CO stretching frequencies, nu(CO), shift to lower frequency by about 70 cm(-1) when 1 is reduced to 1(-). Density functional calculations provide a framework for the interpretation of the spectroscopic properties of 1(-) and suggest that the SOMO is delocalised over the whole cluster, but with little S-centre participation. This electronic structure contrasts with that of the Ni-A, -B, -C and -L forms of [NiFe] hydrogenase in which there is considerable S participation in the SOMO.