Chemical shift driven geometry optimization

A new method for refinement of 3D molecular structures by geometry optimization is presented. Prerequisites are a force field and a very fast procedure for the calculation of chemical shifts in every step of optimization. To the energy, provided by the force field (COSMOS force field), a pseudoenergy, depending on the difference between experimental and calculated chemical shifts, is added. In addition to the energy gradients, pseudoforces are computed. This requires the derivatives of the chemical shifts with respect to the coordinates. The pseudoforces are analytically derived from the integral expressions of the bond polarization theory. Single chemical shift values attributed to corresponding atoms are considered for structural correction. As a first example, this method is applied for proton position refinement of the D-mannitol X-ray structure. A crystal structure refinement with 13C chemical shift pseudoforces is carried out.     

氨基酸的光化学诱导动态核极化

维生素B₂与氨基酸和氨基酸衍生物水溶液体系的光化学诱导动态核极化(photo chemically induced dynamic nuclear polarization, CIDNP)研究表明,在维生素B₂作为光敏化剂的体系中,N-乙酰-L-酪氨酸和N_α-乙酰-L-组氨酸显示很强的极化信号,而其它氨基酸和衍生物则未观察到。     

Inclusion of dynamic σ-π polarization in π-electronab initio calculations

Summary A method is presented, whereby dynamic - polarization, i.e. the correlation effect expressed by simultaneous (-*, -*) excitations, can be approximately included in a multi-reference configuration interaction (MRCI) or multi-configurational self-consistent field (MC-SCF) calculation, without need to explicitly correlate the sigma orbitals. The method, which we call the capacitance matrix method, is based on the use of conventional one-electron integrals, from which a polarization potential (SPP) contribution is computed and added to the one- and two-electron Hamiltonian. In the present form, the method requires one parameter for each type of atom, and one for each type of bond. These parameters were adjusted to reproduce the dynamic - polarization energy, computed by restricted multi-reference CI calculations, of a number of states of different hydrocarbons, and the agreement was within a few percent. Using the same parameters in CAS (Complete Active Space) SCF calculations of various states of benzene gives excitation energies, when SPP is included, which is comparable to those obtained by much more elaborate MRCI calculations.     

电场和应力作用下氮钝化扶手型氧化锌纳米带的电子结构和磁特性

采用密度泛函理论(DFT)方法,在LDA+U水平下详细研究了电场和应力作用下氮钝化扶手型氧化锌纳米带(NA8-ZnONRs)的电子结构和磁特性。对体系的电子结构和磁性进行详细的计算,结果表明：本征扶手型氧化锌纳米带(A8-ZnONRs)是无磁性P型半导体。氮钝化后NA8-ZnONRs具有铁磁金属性,其磁性主要来源于N2p轨道(2.56μ_B)和O2p轨道(0.69μ_B)电子的自旋极化,总磁矩为3.21μ_B。NA8-ZnONRs体系对X方向电场有较强的响应,通过调节X方向电场的幅度,可以有效调节体系的磁矩。在X方向电场作用下体系仍具有铁磁金属性,磁性也主要来源于N2p和O2p轨道电子的自旋极化。施加X方向应力作用后,体系仍表现为铁磁金属性。与NA8-ZnONRs纳米带磁矩相比,体系的总磁矩均发生了较大幅度的增长,表明体系对应力作用具有较明显的相应。但随着应力幅度的调节,总磁矩的变化较平坦。表明施加应力可以有效调节体系的磁矩,但在较小应力范围内,体系对应力变化的相应不明显。     

电极界面浓差极化对锂金属沉积的影响

锂金属作为下一代高能量密度电池的理想负极材料受到研究人员广泛关注。然而,锂枝晶生长引起的安全隐患和循环寿命短等问题严重影响了锂金属电池的实用化进程。本文以电化学现象和理论为依据,从浓差极化角度详细分析锂金属电沉积过程中枝晶生长、死锂形成和全电池失效机制,并对目前研究较多的多孔宿主电极中的浓差极化及枝晶抑制进行分析,提出锂金属界面浓差电池现象。本文得到的结论为研究人员更深入地探究锂金属保护策略提供了理论依据。     

固体核磁共振Multiple-CP定量技术的参数优化与应用研究

固体核磁共振Multiple-CP定量技术可实现对不同体系、 不同定量信息的检测. 然而, Multiple-CP对样品属性的宽容度较低, 其中有关样品属性的核磁共振参数包括氢的自旋晶格弛豫时间(T_1,H)、 交叉弛豫时 间(T_CH)和自旋锁定场下氢的自旋晶格弛豫时间(T_{\mathrm{1}\rho }^{\text{?}\mathrm{H}})等. 因而需要系统地掌握Multiple-CP各种实验参数与样品上述特性参数之间的关系, 从而确定Multiple-CP技术可适用的体系范围以及最优的实验参数范围. 基于此, 首先以L-丙氨酸为模型样品, 探讨在Multiple-CP实验中弛豫恢复时间(t_d)、 交叉极化接触时间(t_p)和交叉极化次数(n) 3种实验参数对分子中基团比例测量结果的影响规律. 并以L-缬氨酸、 L-丙氨酸/L-缬氨酸的混合物为模型样品, 探讨样品特性参数的差异性对Multiple-CP实验参数范围的影响. 实验结果表明, t_p受T_CH和\text{?}{T}_{\mathrm{1}\rho }^{\text{?}\mathrm{H}}的影响较大. 对于纯净物或均相体系, T_CH是影响t_p参数设置的关键. 依据实验数据发现, 当样品中各基团T_CH差异度小于8%时, 实验对t_p的宽容度较高; 对于混合物体系, 需同时考虑混合物中组分\text{?}{T}_{\mathrm{1}\rho }^{\text{?}\mathrm{H}\text{?}}差异度的影响. 当组分\text{?}{T}_{\mathrm{1}\rho }^{\text{?}\mathrm{H}\text{?}}差异度为32%、 各基团T_CH差异度为21%时, Multiple-CP对t_p的宽容度高, 可在较宽的参数范围内实现定量检测. 而当T_CH差异度较大时, 获取定量结果时t_p的参数范围较小, 实验条件较苛刻. Multiple-CP定量方法更适用于T_CH和\text{?}{T}_{\mathrm{1}\rho }^{\text{?}\mathrm{H}\text{?}}差异度较小的样品体系的定量研究. 通过研究样品T_CH和\text{?}{T}_{\mathrm{1}\rho }^{\text{?}\mathrm{H}\text{?}}对实验参数的影响, 总结了Multiple-CP方法所适用的样品体系特征, 为使用Multiple-CP进行定量检测提供可参考的参数设置方案.     

Dynamic nuclear polarization studies of nitroxyl spin probes in agarose gel using Overhauser‐enhanced magnetic resonance imaging

Agarose is a tissue‐equivalent material and its imaging characteristics similar to those of real tissues. Hence, the dynamic nuclear polarization studies of 3‐carboxy‐2,2,5,5‐tetramethyl‐pyrrolidine‐1‐oxyl (carboxy‐PROXYL) in agarose gel were carried out. The dynamic nuclear polarization parameters such as spin lattice relaxation time, longitudinal relaxivity, leakage factor, saturation parameter and coupling parameter were estimated for 2 mM carboxy‐PROXYL in phosphate‐buffered saline solution and water/agarose mixture (99 : 1). From these results, the spin probe concentration was optimized as 2 mM, and the reduction in enhancement was observed for carboxy‐PROXYL in water/agarose mixture (99 : 1) compared with phosphate‐buffered saline solution. Phantom imaging was also performed with 2 mM concentration of carboxy‐PROXYL in various concentrations of agarose gel at various radio frequency power levels. The results from the dynamic nuclear polarization measurements agree well with the phantom imaging results. These results pave the way for designing model system for human tissues suited to the biological applications of electron spin resonance/Overhauser‐enhanced magnetic resonance imaging.     

新型(Z)-2-[(苯氧基)(芳基)]次甲基-2-丁烯酸酯类化合物的合成

以三苯基膦为催化剂,氮气保护下在苯中实现了取代苯酚与α-取代-2,3-丁二烯酸酯的β'-极化加成反应,合成了16个新型(Z)-2-[(苯氧基)(芳基)]次甲基-2-丁烯酸酯类化合物,其结构经1H NMR,13C NMR和MS(ESI)表征。     

The self‐consistent charge density functional tight‐binding theory study of carbon adatoms using tuned Hubbard U parameters

The self‐consistent charge density functional tight‐binding (DFTB) theory is a useful tool for realizing the electronic structures of large molecular complex systems. In this study, the electronic structure of C₆₁ formed by fullerene C₆₀ with a carbon adatom is analyzed, using the fully localized limit and pseudo self‐interaction correction methods of DFTB to adjust the Hubbard U parameter (DFTB + U). The results show that both the methods used to adjust U can significantly reduce the molecular orbital energy of occupied states localized on the defect carbon atom and improve the gap between highest occupied molecular orbital(HOMO) and lowest unoccupied molecular orbital(LUMO) of C₆₁. This work will provide a methodological reference point for future DFTB calculations of the electronic structures of carbon materials.     

Using polarizable POSSIM force field and fuzzy‐border continuum solvent model to calculate pKa shifts of protein residues

Our Fuzzy‐Border (FB) continuum solvent model has been extended and modified to produce hydration parameters for small molecules using POlarizable Simulations Second‐order Interaction Model (POSSIM) framework with an average error of 0.136 kcal/mol. It was then used to compute pK _a shifts for carboxylic and basic residues of the turkey ovomucoid third domain (OMTKY3) protein. The average unsigned errors in the acid and base pK _a values were 0.37 and 0.4 pH units, respectively, versus 0.58 and 0.7 pH units as calculated with a previous version of polarizable protein force field and Poisson Boltzmann continuum solvent. This POSSIM/FB result is produced with explicit refitting of the hydration parameters to the pK _a values of the carboxylic and basic residues of the OMTKY3 protein; thus, the values of the acidity constants can be viewed as additional fitting target data. In addition to calculating pK _a shifts for the OMTKY3 residues, we have studied aspartic acid residues of Rnase Sa. This was done without any further refitting of the parameters and agreement with the experimental pK _a values is within an average unsigned error of 0.65 pH units. This result included the Asp79 residue that is buried and thus has a high experimental pK _a value of 7.37 units. Thus, the presented model is capable or reproducing pK _a results for residues in an environment that is significantly different from the solvated protein surface used in the fitting. Therefore, the POSSIM force field and the FB continuum solvent parameters have been demonstrated to be sufficiently robust and transferable. © 2016 Wiley Periodicals, Inc.