All-atom Molecular Dynamic Simulations and NMR Spectra Study on Intermolecular Interactionsof N,N-dimethylacetamide-Water System

采用分子动力学模拟方法结合核磁共振化学位移系统研究了N,N-二甲基乙酰胺(DMA)水溶液体系全浓度范围的弱相互作用. 并对动力学模拟结果和核磁共振化学位移进行了比较. 径向分布函数表明体系中强氢键和C-H···O弱相互作用并存. 氢键网络分析体现了DMA水溶液结构中存在着不同的溶液结构区域. 随浓度和温度变化核磁共振化学位移值用于研究形成氢键的变化情况,并和模拟得到的结果进行比较,模拟和实验结果得到了较好的吻合.     

Structures and Hydrogen Bonding Interactions in Urea-water System Studied by All-atom MD Simulation and Chemical Shifts in NMR Spectrum

采用分子动力学模拟方法结合核磁共振化学位移和粘度对尿素水溶液在稀浓度范围内的结构和弱相互作用进行研究. 从径向分布函数(RDF)分析看出,尿素水溶液中存在着几种不同类型、不同氢键形成能力的传统氢键. 氢键网络分析发现尿素水溶液体系在水富集区域,水分子倾向于自身缔合形成稳定的分子簇结构,而随着尿素浓度的逐渐增加,水的有序结构受到破坏,水分子和尿素分子发生了交叉缔合作用形成氢键,尿素分子有形成自身缔合的趋势. 分子动力学统计的平均氢键数与核磁共振化学位移和粘度数据结果进行比较,发现它们的变化趋势一致,证明了实验和理论结果有很强的可靠性.     

分子动力学模拟研究DMSO-水体系的结构和相互作用

用分子动力学模拟方法结合核磁共振化学位移和红外光谱结果,研究二甲基亚砜DMSO水溶液在全浓度范围内的结构和弱相互作用. 表明径向分布函数分析,DMSO水溶液中既存在着传统的强氢键又存在C—H…O弱相互作用. 氢键网络分析发现DMSO水溶液体系在水富集区域,水分子倾向于自身缔合形成稳定的分子簇结构,而随着DMSO浓度的逐渐增加,水的有序结构受到破坏. DMSO的摩尔分数为0.35是一个特殊点,多种性质偏离理想混合最远. 水分子和DMSO分子发生了交叉缔合作用形成稳定的分子聚集体. 分子动力学统计的平均氢键数与核磁共振化学位移和红外波数变化数据结果进行比较,结果吻合很好.     

溴代1-己基-3-甲基咪唑离子液体与丙酮的相互作用

运用核磁共振氢谱和碳谱手段,研究了室温离了液体溴代1-己基-3-甲基咪唑([C6mim]Br)在不同浓度的离子液体/丙酮混合体系中的1H和13C化学位移．实验结果表明,离了液体[C6mim]Br的阴离子与丙酮甲基上的氢原子相互作用并形成了氢键．量子化学计算结果与核磁共振实验结果一致．     

AT1受体拮抗剂缬沙坦化学位移的量子化学计算研究

核磁共振波谱实验能够通过谱峰化学位移归属确定化合物分子结构,同时理论计算预测化学位移有助于核磁共振对化合物的谱峰归属. 该文基于李芳等人的核磁共振实验以及分子动力学模拟结果,采用量子化学方法预测了缬沙坦（Valsartan）在SDS胶束中2种构象的化学位移. 通过比较不同量子化学方法和基组的计算结果,特别是采用了ONIOM模型考虑了胶束环境对药物分子化学位移的影响,表明Valsartan在SDS胶束溶液中所存在的2种构象可以通过理论计算加以区分,且这2种构象的化学位移理论预测值与NMR实验值吻合得很好. 本工作表明在计算复杂体系化合物的化学位移时,理论模型应该考虑环境效应的影响.     

固体丁酸类代谢物13C化学位移的结构依赖性

丁酸类代谢物广泛存在于动物、植物和微生物中,且具有多种重要的生理功能,但它们的固体核磁共振参数、分子动力学性质及其结构依赖性并未得到清楚的认识. 该文使用高分辨交叉极化与魔角旋转核磁共振（¹³C CPMAS）实验技术,分析了一系列固体丁酸类代谢物的¹³C化学位移, 发现了这些代谢物的¹³C化学位移与其分子结构的一些相关性规律. 另外还发现,固体丁酸类代谢物与其在溶液中的¹³C化学位移有显著的差异. 这些代谢物中甲基参与的疏水作用以及羟基、氨基和羧基参与的氢键作用均对其化学位移大小有重要的影响. 上述结果为认识代谢物的结构和功能以及功能对结构的依赖性提供了重要信息.     

β-环糊精与几种菁染料包合物的动态结构及包合平衡的NMR研究

用核磁共振方法研究了β-CD与三种菁染料3,3′-二（3-磺丙基）噻菁三乙胺盐(dyeA)、3,3′-二（3-磺丙基）-5-氯-噻菁三乙胺盐(dyeB)和3,3′-二（3-磺丙基）-5,5′-二苯基-9-乙基恶碳菁(dyeC)在溶液中的包合现象和包合物的动态结构,实验发现β-CD环糊精疏水腔中的H-3和H-5以及三种菁染料的芳环上质子的化学位移由于形成包合物而发生明显变化,而且峰的位置随包合程度的不同而不同. 实验中发现包合物的荧光强度随β-CD浓度增加而减弱,相应计算表明β-CD与三种菁染料形成了1∶1的包合物.本文研究了三种包合物中主体部分OH-3和OH-6的化学位移随温度变化的情况,获得了包合物中氢键强弱的信息,通过NMR化学位移滴定法计算得到了三种包合物在水溶液中的稳定常数,在上述工作的基础上,本文提出了三种包合物的结构模型,描述了客体进入主体腔中的动态过程.     

两种固体席夫碱15N化学屏蔽研究中的分子内氢键作用

应用量子化学基本原理,对两种固体化合物席夫碱类的¹⁵N化学位移的分子内氢键效应进行了研究.为简化计算,本文在计算过程中采用一种简化模型.其分子几何结构参数采用优化值.本文结果表明:理论值成功地再现了两种固体化合物的¹⁵N化学屏蔽值,证实了¹⁵N在分子内氢键形成过程中的屏蔽行为.本文证实当有分子内氢键形成时(大约为0.2nm),¹⁵N化学位移向高频区大约移动50ppm.本文结果对理论上定量估计氢键强度可能会有重要作用.     

β-环糊精与几种菁染料包合物的动态结构及包合平衡的NMR研究

用核磁共振方法研究了β-CD与三种菁染料3,3′-二（3-磺丙基）噻菁三乙胺盐(d-yeA)、3,3′-二（3-磺丙基）-5-氯-噻菁三乙胺盐(dyeB)和3,3′-二（3-磺丙基） -5,5′-二苯基-9-乙基恶碳菁(dyeC)在溶液中的包合现象和包合物的动态结构,实验发现β-CD环糊精疏水腔中的H-3和H-5以及三种菁染料的芳环上质子的化学位移由于形成包合物而发生明显变化, 而且峰的位置随包合程度的不同而不同. 实验中发现包合物的荧光强度随β-CD浓度增加而减弱,相应计算表明β-CD与三种菁染料形成了1∶1的包合物.本文研究了三种包合物中主体部分OH-3和OH-6的化学位移随温度变化的情况,获得了包合物中氢键强弱的信息, 通过NMR化学位移滴定法计算得到了三种包合物在水溶液中的稳定常数, 在上述工作的基础上,本文提出了三种包合物的结构模型,描述了客体进入主体腔中的动态过程.     

3种黄酮醇类化合物核磁共振碳谱的理论研究

在B3LYP/6-31G水平下优化了3种黄酮醇类（山奈酚,槲皮素,杨梅素）化合物的几何构型. 在振动分析中,均未出现虚频率. 在B3LYP/6-31G的水平下计算了该类化合物的核磁共振碳谱. 研究结果表明：3种分子均有分子内氢键形成,且分子内氢键的键长为0.17~0.18 nm左右 . 本文讨论了羟基引入之后对邻近C的化学位移的影响. 从取代基对NMR的影响来看,随着取代基对苯环的供电子能力的加强,取代基邻近的一些C的化学位移有所改变.      

Studies on the structures and interactions of glutathione in aqueous solution by molecular dynamics simulations and NMR spectroscopy

All-atom molecular simulations and temperature-dependent NMR have been used to investigate the conformations and hydrogen bonds of glutathione (GSH) in aqueous solution. The simulations start from three different initial conformations. The properties are characterized by intramolecular distances, radius of gyration, root-mean-square deviation, and solvent-accessible surface. GSH is highly flexible in aqueous solutions in the simulations. Moreover, conformations can covert between “extended” and “folded” states. Interestingly, the two different hydrogen atoms in cysteine (H_N2) and glycin (H_N3) show different capabilities in forming NH?OW hydrogen bonds. The temperature-dependent NMR results of the different amide hydrogen atoms also show agreements with the MD simulations. Competing formation of GSH hydrogen-bonding interactions in aqueous solutions leads to hydrogen-bonding networks and the distribution of conformations. These changes will affect the activity of GSH under physiological conditions.     

二维NOESY核磁共振波谱结合全原子分子动力学模拟研究肌肽在水溶液中的构象变化

采用二维NOESY核磁共振波谱结合全原子分子动力学模拟研究了肌肽在水溶液中的构象变化和相互作用. 以分子内距离、回转半径、RMSD以及溶剂可接触表面积等性质进行表征. 分子动力学模拟显示肌肽分子在水溶液中表现出了较高的柔性,其构象在伸展、折叠之间互相转换,大部分情况下是以伸展的构象为主导的,而折叠构象较少. 二维NOESY核磁共振实验证实了模拟的结果,实验与理论得到很好的吻合.     

界面氢键对受限水结构和动态特性的影响

应用反应力场分子动力学方法, 模拟了水限制在全羟基化二氧化硅晶体表面间的弛豫过程, 研究了基底表面与水形成的界面氢键, 及其对受限水结构和动态特性行为的影响. 当基底表面硅醇固定时, 靠近基底表面水分子中的氧原子与基底表面的氢原子形成强氢键, 这使得靠近表面水分子中的氧原子比对应的氢原子更靠近基底表面, 从而水分子的偶极矩远离表面. 当基底表面硅醇可动时, 靠近基底表面水分子与基底表面原子形成两种强氢键, 一种是水分子中的氧原子与表面的氢原子形成的强氢键, 数量较少, 另一种是水分子中的氢原子与表面的氧原子形成的强氢键, 数量较多, 这使得靠近表面水分子中的氢原子比对应的氧原子更靠近表面, 从而水分子的偶极矩指向表面. 在相同几何间距下, 当基底表面硅醇可动时, 表面的活动性使得几何限制作用减弱, 导致了受限水分层现象没有固定表面限制下的明显. 此外, 固定表面比可动表面与水形成的界面氢键作用较强, 数量较多, 导致了可动表面限制下水的运动更为剧烈.     

Computer simulations of dynamic crossover phenomena in nanoconfined water

In order to study dynamic crossover phenomena in nanoconfined water we performed a series of molecular dynamics (MD) computer simulations of water clusters adsorbed in zeolites, which are microporous crystalline aluminosilicates containing channels and cavities of nanometric dimensions. We used a sophisticated empirical potential for water, including the full flexibility of the molecule and the correct response to the electric field generated by the cations and by the charged atoms of the aluminosilicate framework. In addition, the full flexibility of the aluminosilicate framework was included in the calculations. Previously reported and new simulations of water confined in a number of different types of zeolites in the temperature range 100-300 K and at various coverage are discussed in connection with the experimental data. Dynamic crossover phenomena are found in all the considered cases, in spite of the different shape and size of the clusters, even when the confinement hinders the formation of tetrahedral hydrogen bonds for water molecules. Hypotheses about the possible dynamic crossover mechanisms are proposed.     

Molecular dynamics investigation of water adsorption on rutile surfaces

Born-Oppenheimer molecular dynamics (MD) simulations were performed in the framework of the semi-empirical molecular orbital method MSINDO to study water adsorption on rutile surfaces. Monolayer and doublelayer water coverage was considered on the rutile (1 1 0) and (1 0 0) surfaces and the adsorbate structures were determined. Vibrational density of states of hydrogen atoms were calculated by constant temperature MD simulations at 100 K. These were used to interpret the experimental vibrational spectrum by assigning all peaks to the particular types of hydrogen atoms.     

Microstructure,Rheology, and Potential Oil Absorbency of Poly(Butyl Methacrylate) and Poly(Hydroxyethyl Methacrylate) Blends

To prepare oil-absorptive polymers with moderate cross-linking structure, poly(butyl methacrylate) (PBMA) was synthesized as a linear hydrophobic polymer by suspension polymerization. In addition, hydroxyethyl methacrylate (HEMA), as a monomer, which could construct a network structure among the macromolecules via hydrogen bond interactions, was solution polymerized in dimethylacetamide (DMAc) with PBMA, yielding a polymer blend of PBMA and PHEMA. The solution of the polymer blend was investigated by rotational viscometry and extended rheometry. The results showed that the viscosity varied greatly with the temperature and shear rate for three different compositions. Fourier transform infrared (FTIR) spectra indicated that an entanglement or interlocking cross-linking structure of molecular chains was constructed by hydrogen bonds. The results from nuclear magnetic resonance (NMR) spectra exhibited a downfield movement of the proton peak as influenced by end groups or hydroxyls in the polymer chains. The rheological measurements demonstrated that the cross-linking structure greatly affected the rheological behavior of the blend solution. In addition, the cross-linking structure was also evaluated by oil absorbency of films.     

A multinuclear magnetic resonance study of intramolecular hydrogen bonding in some Schiff and Schiff-Mannich bases in solution and in the solid state

Two Schiff bases; N, N′-bis(5-bromosalicylidene)-1,2-diaminoethane, BS, and 7-[(1-{5-bromo-2-hydroxyphenyl} methylidene)amino]-4-methylcoumarin, Sc, and two appropriate Schiff–Mannich bases, N, N′-bis{5-bromo-3-[(diethylamino)methyl]salicylidene}-1,2-diaminoethane, BSM, and 7-[(1-{5-bromo-3-[(diethylamino)methyl]-2-hydroxyphenyl} methylidene)amino]-4-methylcoumarin, SMc, capable of intramolecular hydrogen bonding have been investigated by multinuclear magnetic resonance methods in both solid and liquid phases. In all of the compounds under investigation tautomeric equilibrium involving an intramolecular hydrogen bond has been found. The Schiff–Mannich bases, which can form two different kinds of H bonds at room temperature, form relatively weak H bonds with the imino nitrogen atoms. At low temperatures the tautomeric proton exchange becomes slow on the NMR time scale and both hydrogen-bonded forms can be observed by ¹H, ¹³C, and ¹⁵N NMR methods. In the solid state the tautomeric process is frozen and only one H-bonded form is present. On the basis of 13C and ¹⁵N CPMAS NMR spectra this is identified as the form with hydrogen bonds involving the imino groups. This conclusion is in good agreement with previous results obtained by X-ray diffraction methods.

The investigated Schiff bases (BS and Sc) form relatively weak H bonds. The proton position in the hydrogen bridge, estimated from ¹⁵N and ¹³C chemical shifts, is very similar in both the solution and solid phases. In chloroform solution the observed tautomeric equilibria are almost insensitive to a temperature change within the range 223 to 303 K.     

NTO及其铷盐水溶液光谱研究

用Raman光谱和FTIR光谱对NTO晶体和不同pH值的水溶液以及配合物Rb(NTO)·H2O的水溶液进行了研究。从已测定的单晶结构表明金属离子与NTO-的CNO,CO基团和水分子中的氮、氧原子键合。Raman和FTIR光谱特征的主强峰也表明是在NTO-的CNO2和CO基团的氧和氮原子与金属离子形成弱配位键。该配合物饱和水溶液的振动光谱峰与晶体的振动光谱峰基本上吻合。表明该配合物在水中键合未发生变化,因而NTO的碱金属配合物在水溶液中的振动光谱峰归属可以用晶体中键的形成来说明。讨论了金属离子与NTO必需在碱性水中才能形成NTO的金属配合物机理。     

Modeling vibrational spectra of indole in water

Vibrational spectra of indole in the isolated state and in aqueous solution have been calculated using a B3LYP/6-311++G(d, p) method. The influence of water as a solvent on vibrational spectra of indole was examined with due regard for intermolecular interactions (SCRF method) and explicit consideration of the effect of hydrogen bonds (1:1 indole:water complex).