HFSiS构型及其稳定性的理论研究

利用密度泛函理论对三线态HFSiS分子结构及其稳定性进行了详细的理论研究.在B3LYP/6-311G**水平上计算出了各驻点的优化构型、振动频率,并对各个振动模式加以归属,在同样的理论水平上进行了IRC计算;CCSD(T)结合6-311G**基组对于驻点进行单点能及相对能量的计算;根据振动模式分析来阐明三线态势能面上各驻点之间的变化,并与单线态势能面进行比较.计算结果表明,三线态HFSiS分子存在6种异构体,3HFSiS结构在动力学和热力学上都是最稳定的,实验上应该可以观测到;在两组键旋转异构体当中,结构-2具有一定的动力学稳定性,而结构-1动力学稳定性较差;3SiSHF在动力学上和热力学上都是最不稳定的结构.     

N9H9链状异构体的结构与稳定性的理论研究

采用密度泛函理论(DFT)B3LYP方法,在6-311++G**基组水平上对N9H9可能存在的链状异构体进行了几何优化,得到46种稳定链状异构体.应用自然键轨道理论NBO和分子中的原子理论AIM分析了这些链状异构体的成键特征和相对稳定性,G3MP2方法计算了各异构体的精确能量及在298K时的生成热△fH°(298 K),并计算了由Peter Politzer等人所介绍的相对比冲量.研究蛄果表明:各异构体中N原子孤对电子与N=N形成了P→π共轭作用是影响双键相邻的N-N键长变化的主要原因,并且对异构体的稳定性起着重要作用.所有异构体中N=N位于链端的稳定性较兰,其中B9最稳定,B6稳定性最差;C5是所有异构体中生成热最大的,也是相对比冲量最大的.     

巯基苯并咪唑在银电极表面的自组装吸附特性及表面增强拉曼光谱

采用循环伏安法处理Ag电极,得到活化的具有表面增强拉曼光谱(SERS)效应的粗糙Ag表面,进一步采用激光拉曼光谱探讨了2-巯基苯并咪唑(MBI)在其表面的自组装分子层的吸附特性。实验表明,在活性Ag表面的MBI自组装分子层能够产生理想的SERS效应,其强度随探针分子MBI浓度的增加先提高后减弱,达到一定浓度时因受其空间位阻等因素的影响,增强效应减弱。MBI在1×10^-6 mol·L^-1 浓度时增强效果最大。拉曼增强效应随着体系酸度的变化有着明显不同,在强酸性条件下的增强效应明显优于中性和碱性条件。MBI分子存在两种不同的异构体和在不同酸度下存在3种不同的存在形态,并形成动态平衡。pH <2时,MBI分子主要以硫酮式MBI⁺存在,并以巯基上的S:与活性Ag以配位方式吸附成键,其整个大π键平面垂直地吸附于Ag表面,产生相对较大的SERS信号。pH >2时,由于硫酮式和硫醇式与活性Ag的键合方式和能力不同,硫醇式上的S与Ag以S-Ag共价方式同时双键侧上的N以配位方式协同参与吸附成键,比硫酮式MBI⁺的单纯配位吸附要强,因而形成了竞争吸附,表现为SERS在pH=2~3.7之间的急剧下降。MBI硫醇式由于以S-Ag、N-Ag键的协同吸附,形成了倾斜侧卧式垂直吸附,而使拉曼增强效应相对减弱。     

N9H9链状异构体的结构与稳定性的理论研究

采用密度泛函理论(DFT)B3LYP方法,在6-311＋＋G**基组水平上对N9H9可能存在的链状构型进行了几何优化,得到46种稳定链状异构体。应用自然键轨道理论NBO和分子中的原子理论AIM分析了这些化合物的成键特征和相对稳定性,G3MP2方法计算了各异构体的精确能量及在298K时的生成热ΔfHө(298K),并计算了由Peter Politzer等人所介绍的相对比冲量。研究结果表明：各异构体中N原子孤对电子与N＝N形成了p→π共轭作用是影响双键相邻的N－N键长变化的主要原因,并且对异构体的稳定性起着重要作用。所有异构体中N＝N位于链端的稳定性较差,其中B9最稳定, B6稳定性最差;C5是所有异构体中生成热最大的,也是相对比冲量最大的。     

硫代巴比妥酸多晶型的太赫兹光谱和DFT理论分析

硫代巴比妥酸是目前多晶型种类较丰富的一类固体药物。利用太赫兹时域光谱(THz-TDS)技术对硫代巴比妥酸晶型Ⅰ,Ⅱ,Ⅲ,Ⅳ和水合晶型进行表征分析,得到明显不同的太赫兹光谱,表明THz光谱技术可以有效鉴别硫代巴比妥酸不同类多晶型。硫代巴比妥酸晶型Ⅳ为异构多晶型,它在0.65 THz处的宽峰以及1.02,1.41 THz处的吸收峰明显区别于晶型Ⅰ和Ⅱ简单的物理混合。运用密度泛函理论(DFT)对硫代巴比妥酸晶型Ⅳ的两种可能结构进行了分子结构优化和光谱模拟,模拟结果显示其中的结构a在0.41/0.47,0.89和1.35 THz处具有吸收峰,与实验结果较吻合。由此推断晶型Ⅳ由硫代巴比妥酸异构体A的硫酮键中的S7和异构体B酰胺中的H23构成第一处氢键,异构体B硫酮键中的S20和异构体A酰胺中的H13形成第二处氢键。本文还结合理论模拟结果对硫代巴比妥酸晶型Ⅳ的振动模式进行归属。     

糖苷端差异构体的波谱研究 Ⅲ.全乙酰化芳基1-硫代-α和β糖苷的FT-IR

近年的研究表明,许多的1-硫代糖苷衍生物具有一些特殊的生理活性,引起了人们对1-硫代糖苷的合成及性能研究的强烈兴趣。为此,我们采用立体专一性的方法合成了一系列全乙酰化芳基1-硫代-α和β糖苷,并用~(13)C-NMR谱数据对其构型进行了确证。本文中我们将报导1-硫代-D-木糖苷和1-硫代-D-乳糖苷,两对端差异构体的付里叶红外光谱吸收,比较α和β异构体的差异,归属α和β异构体的特征吸收。     

新型鸟嘌呤类似物y-鸟嘌呤及其异构体电子光谱性质的理论研究

荧光核酸碱基类似物的设计合成是众多研究领域的热点课题. 本文利用密度泛函理论(DFT)和含时密度泛函理论(TDDFT)考察了新型鸟嘌呤类似物y-鸟嘌呤(yG-t1) 及其五个异构体(yG-t2到yG-t6)的结构性质、电子性质和光谱性质, 同时考察了甲醇溶剂和碱基配对对其光谱性质的影响. 研究表明, 气相中y-鸟嘌呤的标准结构并不是最稳定的结构, 其具有三个能量相近的异构体, y-鸟嘌呤最有可能以这三种形式存在. 光谱性质研究表明y-鸟嘌呤的最大吸收波长比天然鸟嘌呤大得多, 人们可以对其进行选择性激发. y- 鸟嘌呤的标准结构与其异构体显示出不同的光谱特性, 因此可以利用其电子光谱指纹对它们进行区分. 研究发现甲醇溶剂将使y-鸟嘌呤标准结构的最大吸收波长和荧光发生蓝移, 而使其他异构体相应值发生红移; 与胞嘧啶配对将使yG-t1, yG-t2, yG-t5 和yG-t6的最大吸收波长和荧光波长发生蓝移, 表明y-鸟嘌呤的电子光谱性质受环境影响较大.     

苯硫酚分子内质子转移取代基效应的理论研究

在B3LYP/6-311+G(d, p)水平上研究了2-(1H-咪唑)苯硫酚(1d)、2-(噁唑)苯硫酚(2d) 、2-(噻唑)苯硫酚(3d)及其衍生物的基态质子转移过程, 探讨取代基电子效应对质子转移的影响. 结果表明: 吸电子引入后分子平面电子密度减小, N2-H1间距减小, 分子内氢键增强, 醇式到酮式质子转移能垒减小; 供电子基引入后分子平面电子密度增大, N2-H1间距增大, 分子内氢键减弱, 质子转移能垒增大. Localized orbital locator(LOL)分析表明: 取代基的引入对N1原子成键性质产生影响明显. 三者质子转移能垒大小为1d<3d<2d, 取代基引后能垒相对大小不变.     

苯硫酚分子内质子转移取代基效应的理论研究

在B3LYP/6-311+G(d,p)水平上研究了2-(1H-咪唑)苯硫酚(1d)、2-(噁唑)苯硫酚(2d)、2-(噻唑)苯硫酚(3d)及其衍生物的基态质子转移过程,探讨取代基电子效应对质子转移的影响.结果表明:吸电子引入后分子平面电子密度减小,N2-H1间距减小,分子内氢键增强,醇式到酮式质子转移能垒减小;供电子基引入后分子平面电子密度增大,N2-H1间距增大,分子内氢键减弱,质子转移能垒增大.Localized orbital locator(LOL)分析表明:取代基的引入对N1原子成键性质产生影响明显.三者质子转移能垒大小为1d3d2d,取代基引后能垒相对大小不变.     

新型三唑硫酮席夫碱的微波合成与结构表征

微波辐射条件下,以氨基均三唑硫醇与查尔酮为原料,通过亲核取代反应,制备了3-（4-氨基-5-巯基-3-对甲苯基均三唑-1-氮代）-1,3-二苯-1-丙酮（3）,（3）与系列芳香醛经缩合反应,合成了4种三唑硫酮席夫碱（4a-4d）.探讨了各实验因素对收率的影响,得到了优化的工艺条件：n（芳香醛）∶n（氨基三唑硫酮）=1∶1.1微波功率500W,催化剂冰醋酸2mL,反应时间4-7min,溶剂DMF,收率为65％-77％.利用IR、MS、1H NMR对目标产物进行了结构表征.     

从头计算研究1-甲基-次黄嘌呤的电离能

采用从头计算B3LYP/Aug-cc-pVDZ方法研究了1-甲基-次黄嘌呤最稳定的六种可变异构体. 两种异构体N7H 和N9H有着相当的能量,远比其它异构体稳定. 理论计算了各种可变异构体的转动常数和偶极矩. 运用电子传播子理论P3近似方法计算稳定异构体外价壳层轨道的电离能,计算结果与光电子能谱实验结果符合较好. 根据异构体的相对能量以及理论模拟电离能谱和实验光电子能谱之间的比较,说明在气相光电子能谱实验中至少存在两种可变异构体.     

Theoretical kinetics study of thymine tautomerism and interaction of Na+ with its tautomers

The current work is a theoretical study of the tautomerism of thymine in the gas phase. Eighteen structures were found in the isomerisation reaction of thymine, some of which are reported for the first time. Thirty hydrogen transfer reactions were carried out. In 24 of the reactions, the hydrogen abstractions N―H→O, N―H→C and C―H→O were considered. The potential energy surface for all trajectories was determined for 18 tautomers and 40 transition states. The RRKM-TST model was used to calculate the rate constants of the reactions to examine their kinetics. Nonlinear least-squares fitting was used to calculate the rate constants expressions. The interaction of sodium ion and tautomers in the gas phase was also investigated. Three types of interaction of metal cations with thymine were found. In the first, metal cations interact with a lone pair of nitrogen or oxygen tautomers. The second type is the interaction of metal cations with two nitrogen and oxygen of tautomers. The last type is the interaction of metal cations and the electron density of the π-system of thymine in which the metal ion is perpendicular to the ring of tautomers. The stability ranking of the thymine tautomers and their complexes was also determined.     

Mass spectrometric and ab initio study of the interaction between 9-methylguanine and amino acid amide group

The temperature dependent field ionization mass spectrometry method combined with ab initio calculations was used to determine the interaction energies and the structures of 9-methylguanine-acrylamide dimers. Acrylamide mimics the side chain amide group of the natural amino acids asparagine and glutamine. The experimental enthalpy of the dimer formation derived from the van't Hoff plot is ?59.5 ± 3.8 kJ mol^?1. The value is higher than interaction energies between acrylamide and other nucleic acid bases which were determined to be ?57.0 for 1-methylcytosine, ?52.0 for 9-methyladenine, and ?40.6 kJ mol^?1 for 1-methyl-uracil. In total, eight hydrogen bonded dimers formed by the three lowest energy 9-methylguanine tautomers and acrylamide were found in the quantum chemical calculations performed at the DFT/B3LYP/6-31++G?? and MP2/6-31++G?? levels of theory. The relative stability and the interaction energies of the dimers were calculated accounting for the basis set superposition error and the zero-point vibrational energy correction. The lowest energy dimer found in the calculations is formed by acrylamide (Ac) with the keto tautomer of 9-methylguanine (Gk). It is stabilized by two intermolecular H bonds, C6=O(Gk) · · · H—N(Ac) and Nl—H(Gk) · · ·O(Ac), and it is more stable than the second lowest energy dimer by ≈ 25 kJ mol^?1. The calculated interaction energies of the lowest energy 9-methylguanine-acrylamide dimer are ?65.0 kJ mol^?1 and ?67.7 kJ mol^?1 at the MP2 and DFT levels of theory, respectively. The experimental enthalpy of the dimer formation is in good agreement with both the calculated interaction energies of the GkAc dimer and much higher than the interaction energies calculated for all other 9-methylguanine-acrylamide dimers. This proved that only one dimer was present in the experimental samples. To verify whether acrylamide is a good model of the amino acid-amide group, we performed direct calculations of the 9-methylguanine-glutamine dimers at the same levels of theory as used for the complexes involving acrylamide. The interaction energies found for the lowest energy 9-methylguanine-glutamine dimer are ?65.1 kJ mon^?1 (MP2/6-31++G??) and ?66.2 kJ mol^?1 (DFT/B3LYP/6-31++G??) and these values are very close (within 0.5 kJ mol^?1) to the interaction energies obtained for the 9-methylguanine-acrylamide dimers.     

Experimental (FT‐IR) and theoretical (DFT) studies on prototropy and H‐bond formation for pyrazine‐2‐amidoxime

The results of the first structural studies (with the use of both experimental and theoretical methods) on pyrazine‐2‐amidoxime (PAOX) were shown and discussed. FT‐IR spectra were recorded in different concentrations of the PAOX in apolar solvent to check the possibility of the inter‐ or intramolecular hydrogen‐bond formation. All possible tautomers–rotamers of PAOX were then theoretically considered at the DFT(B3LYP)/6‐311+G** level in vacuo. For selected isomers, calculations were also performed at higher levels of theory {B3LYP/6‐311+G(3df,2p) and G3B3}. Based on the results of DFT calculations, the most stable isomers were found, and their total free energies and infrared spectra were calculated. The energy variation plots for the N8?C7?N9?O10 and N1?C2?C7?N9 dihedral angles were also computed to find two energy barriers, one for E/Z isomerization around the C7?N9 double bond and the other one for rotation of the pyrazinyl ring around the C2?C7 single bond. The results show that the stability of the PAOX isomers strongly depend on their configuration and orientation of the substituents. The possibilities of inter‐ and intramolecular hydrogen bonds were also experimentally and theoretically checked. Finally, a potential of mean force was determined in CHCl₃ for a dimer of PAOX with hexamethylphosphoramide. Both, experimental and theoretical results are in agreement. Copyright © 2016 John Wiley & Sons, Ltd.     

Theoretical study on the molecular tautomerism of the 3-hydroxy-pyridin-4-one system

3-hydroxy-pyridin-4-one is a parent molecule for the family of hydroxypyridinones that are known in coordination chemistry as efficient metal ions chelators. In this work, relative stabilities of some possible tautomers were investigated using several quantum chemical methods: CBS (complete basis set methods), Gn, DFT (density functional theory), Hartree–Fock and MP2. Performed calculations show that the system under consideration exists as a mixture of two tautomers with comparable energies. Among them, the hydroxypyridinone structure of the studied molecular system seems to be a bit more stable than the o-dihydroxypyridine one, by a few kJ/mol only. Aromaticity and intra-molecular hydrogen bonding are the main effects influencing the stability of the studied tautomeric structures. Consequently, aromatic effects were calculated using several indices of aromaticity: HOMA (harmonic oscillator model of aromaticity), NICS (nucleus independent chemical shift), H, PDI (para delocalisation index), MCI (multi-centre index) and ASE (aromatic stabilisation energy). The strength of possible intra-molecular hydrogen bonds (H-bonds) was determined by means of the AIM (atoms-in-molecules) method and by calculating enthalpies for theoretical reactions that do or do not involve H-bonds. The AIM method was employed to understand how variations in atomic energies influence the stability of different tautomeric structures.     

硼、氮取代二聚苯中碳原子导致层间相互作用本质变化研究

在MP2/aug-cc-pVTZ水平下优化了二聚苯及其碳被硼、氮原子取代的几何构型;计算了这些二聚体的CCSD(T)/CBS相互作用能;并用SAPT2+/aug-cc-pVDZ分析了相互作用能成分.探索了硼、氮取代二聚苯中碳原子所导致层间相互作用本质变化.结果表明:稳定构型而言,从苯(C_6H_6)、1-氮-2-硼杂苯(BNC_4H_6)、1,3-二氮-2,4-二硼杂苯(B_2N_2C_2H_6)二聚体的平行移位(PD)构型向无机苯(B_3N_3H_6)二聚体的夹心(S)构型转变,其中C_6H_6和B_3N_3H_6二聚体稳定构型的堆叠型式分别与之相对应的石墨烯(GE)和六方氮化硼(h-BN)2D层间材料的堆叠型式相一致.硼、氮原子取代二聚苯中的碳原子后使其相互作用能增大,其中BNC_4H_6和B_2N_2C_2H_6二聚体的相互作用能增大较为明显.所研究体系二聚体稳定构型均以色散能为主导、静电能次之、诱导能相对较小.硼、氮取代二聚苯中碳原子后其静电能对总吸引能的贡献明显增大.     

密度泛函方法研究气相胞嘧啶的互变异构化

分别采用7种基组、3种理论方法对胞嘧啶异构体Cyt1的结构进行优化,通过与Cyt1的实验结果进行比较,选取了适合研究胞嘧啶分子的B3LYP/6311+G方法.用该方法对胞嘧啶分子的8种异构体构型进行了充分优化,研究了其中能量较低的6种胞嘧啶异构体的互变异构化过程.对于得到的所有优化构型都进行了频率分析.对于基态构型,所有的频率都是正的;对于过渡态构型,只有一个虚频.同时,做了详尽的内禀反应坐标计算,以保证所得到的过渡态连接相应的始末异构体.所有给出的能量都已做了零点能校正.理论研究结果可以对已有的实验结果给予合理解释.     

Hydrogen's isotopic exchange reaction in the C‐methyl sides in the medicinal agent xymedon: NMR spectroscopy and ab initio calculations

The kinetics of intramolecular and intermolecular exchange processes in xymedon (1‐(2‐hydroxyethyl)‐4,6‐dimethyl‐1,2‐dihydropyrimidin‐2‐one, a regeneratory, wound‐healing drug) and its analogue were investigated in the solution. Hydrogen's mobility was detected in the C‐methyl sides of these compounds. This mobility was monitored via NMR in the hydrogen/deuterium exchange reaction in water. Two models were proposed as explanations for this hydrogen‐deuterium exchange. According to the main model, the key intermediates of these reactions are low‐energy tautomers of xymedon in which the N³ is protonated following which one proton leaves either 6‐Me or 4‐Me and thus its hybridization is changed. This hydrogen‐to‐deuterium exchange reaction is much faster under acidic conditions although it also occurs in alkaline conditions. Methylation via MeOTs or MeI leads to products with a quaternized ring N³ atom in which a hydrogen‐to‐deuterium exchange reaction also takes place, although the rates of the 6‐Me and 4‐Me hydrogens exchange are reversed. According to density functional theory calculations, the presence of methyl groups at the C⁴/C⁶ positions and of the C═O fragment is crucial to remarkably lower the energies of these “rare” tautomers. The exact position of the C═O in heterocycle is also very important in the tautomers' relative stability.     

Calorimetric and computational study of 2H-1, 4-benzoxazin-3(4H)-one and of related species

The standard molar enthalpy of formation in the gas phase of 2H-1,4-benzoxazin-3(4H)-one was derived from the standard energy of combustion determined by static bomb combustion calorimetry in oxygen atmosphere and from the standard sublimation enthalpy determined by Calvet microcalorimetry. In addition, we report the results of a systematic theoretical study of the keto and enol tautomers in benzoxazinones and diones using density functional theory. The keto tautomers are computed to be more stable than the enols. Tautomerization energies are reported.     

The influence of CH … π interaction on coupling constants across N … H–F hydrogen bond in a substituted T-shaped configuration: a theoretical study

For studying the influence of CH?…?π interaction on coupling constants across N?…?H–F hydrogen bond in a substituted T-shaped configuration, X-benzene⊥(FH?…?pyrazine?…?HF) complexes are chosen as a working model. NMR calculations are performed at B3LYP/6-311++G(d,p) and PBE0/6-311++G(d,p) levels. Here, correlations between energetic, geometrical and topological parameters and coupling constants are investigated. The results indicate that direct correlations exist between strength of N?…?H hydrogen bond, electron-donating power of substituents and |^2hJ_N?F|. Also, |^2hJ_N?F| increases as cooperative and synergistic energies become more negative. These behaviours are reversed for ^1hJ_N?H. Due to contradictory behaviours of FC and PSO terms, an irregular trend is observed for ¹J_H?F.