多肽中氢键强度的理论研究

用B3LYP/6-31G^*法优化了多肽分子的几何构型,计算了各个构型的电荷分布和氢键酸度,进而对多肽分子中的氢键强度进行了研究.结果表明,多肽分子中氢键的强度同时取决于形成氢键的H…O原子间距R和N-H…O之间的键角β;多肽分子倾向于形成R值小、β值大的大环氢键.3₁₀螺旋结构的多肽分子中的氢键具有协同效应,分子越大,分子中氢键越多,氢键的协同效应越强.     

氢键概念的形成和发展

1902年,瑞士化学家维尔纳对氯化铵结构的解释为氢键概念的形成奠定了基础。1920年,美国化学家拉提麦尔和罗德布什首先认识了水中的氢键：2个八隅体所持的氢核构成的“弱键(weak bond)”。1928年,美国化学家鲍林在解释[FHF]^-的结构时首次使用“氢键(hydrogen bond)”一词,但并未对氢键的概念进行明确定义。1939年,鲍林在《化学键的本质》中明确提出了氢键的概念,并解释了氢键的性质,自此,氢键的概念正式形成。近年来,科学家经过深入研究发现了氢键的新类型：π型氢键、双氢键、金属氢键和单电子氢键。随着科学思想和科学技术的发展,关于氢键的认识也会越来越深入。     

快速预测分子间氢键强度的新方法

提出了一种快速预测分子间氢键强度的新方法。将其应用于29个分子间氢键体系中,计算单体间的氢键相互作用势能曲线,并与MP2方法得到的结果进行了比较。结果表明本文方法能够准确地预测出氢键键长和氢键能量,其精度可以与包含了BSSE校正的MP2结果相媲美,本文方法更简单,更快捷。本文方法可用于快速预测多肽、蛋白质体系中的氢键强度,应用前景广阔。     

氢氰酸、异氰酸与水氢键的量子化学研究

用LCAO-MO-SCF的ab initio方法, 在4-31G水平上, 对CNH…OH_2, NCH…OH_2, HNC…HOH, HCN…HOH四种氢键体系进行了能量梯度法的构型优化和计算, 并分别进行了Morokuma能量分解分析, 计算了各作用能对氢键形成的贡献。考察了各作用能随氢键键长的变化情况。从理论上解释了各氢键体系键能强弱次序的变化。在一般情况下,静电作用的大小可以决定氢键键能的强弱次序; 但在某些情况下, 电荷迁移作用也很重要, 需从这两方面综合考虑才能确定键能的强弱次序。     

DFT和热力学研究氢键协同效应及对关联1H NMR的影响

用DFT方法在B3LYP/6-311＋＋G (d,p)水平下研究了甲醇线性和环状分子簇. 对于不同大小的分子簇之间定义了协同因子. 计算得到的协同因子可以验证氢键的强协同效应, 环状分子簇之间的协同效应远远大于线性分子簇. 做为理论验证和比较, 热力学模型分别采用含氢键缔合的格子流体状态方程(LFHB), 以及含氢键协同效应的LFHB, 关联醇-惰性体系的¹H核磁共振化学位移. 考虑协同效应的关联结果优于原始的LFHB. 比较量子化学计算的和热力学模型中采用的协同因子, 认为甲醇和乙醇在溶液中更可能大部分以线性缔合形式存在.     

取代基对1-甲基尿嘧啶与N-甲基乙酰胺氢键复合物中氢键强度的影响

使用密度泛函理论B3LYP方法和二阶微扰理论MP2方法对由1-甲基尿嘧啶与N-甲基乙酰胺所形成的氢键复合物中的氢键强度进行了理论研究, 探讨了不同取代基取代氢键受体分子1-甲基尿嘧啶中的氢原子对氢键强度的影响和氢键的协同性. 研究表明: 供电子取代基使N－H…O＝C氢键键长r(H…O)缩短, 氢键强度增强; 吸电子取代基使N－H…O＝C氢键键长r(H…O)伸长, 氢键强度减弱. 自然键轨道(NBO)分析表明: 供电子基团使参与形成氢键的氢原子的正电荷增加, 使氧原子的负电荷增加, 使质子供体和受体分子间的电荷转移量增多; 吸电子基团则相反. 供电子基团使N－H…O＝C氢键中氧原子的孤对电子轨道n(O)对N－H的反键轨道σ^*(N－H)的二阶相互作用稳定化能增强, 吸电子基团使这种二阶相互作用稳定化能减弱. 取代基对与其相近的N－H…O＝C氢键影响更大.     

取代苯酚中共振增强的分子内氢键

根据晶体结构资料，计算了59个邻位取代苯酚中分子内氢键的几何．在STO－3G水平上计算了一些分子中原子部分电荷．结果表明，酚基氧与苯环上碳之间的键长，酚基上氢原子的部分电荷，酚基所在位置处的苯环环内角与取代苯酚的酸常数pKa均有近似线性关系，当邻位上存在硝基或羰基时，内氢键由于共振而得到显著的增强，据此可说明这一类酚的显著酸性     

取代基对N-H…O=C氢键三聚体中氢键强度的影响

使用MP2方法研究了氢键三聚体中N—H…O=C氢键强度, 探讨了氢键受体分子中不同取代基对N—H…O=C氢键强度的影响. 研究表明, 不同取代基对氢键三聚体中N—H…O=C氢键强度的影响是不同的: 取代基为供电子基团, 氢键键长r(H…O)缩短, 氢键强度增强; 取代基为吸电子基团, 氢键键长r(H…O)伸长, 氢键强度减弱. 自然键轨道(NBO)分析表明, N—H…O=C氢键强度越强, 氢键中氢原子的正电荷越多, 氧原子的负电荷越多, 质子供体和受体分子间的电荷转移越多. 供电子基团使N—H…O=C氢键中氧原子的孤对电子n(O)对N—H的反键轨道滓*(N—H)的二阶相互作用稳定化能增加, 吸电子基团使这种二阶相互作用稳定化能减小. 取代基对与其相近的N—H…O=C氢键影响更大.     

关于弯曲氢键本质的探讨

一、前言氢键是一种由氢原子参加成键的特殊类型的化学键,它可用简单的化学式 X—H…Y 表示。在氢键的研究中,一个重要的问题是关于氢键本质的问题。一般认为氢键主要是静电相互作用,即在 X—H…Y 中,X—H 基本上是共     

低阶煤中氢键作用的色散校正密度泛函理论研究

本研究以苯酚…苯酚、苯酚…苯、苯酚…二苯醚、苯酚…喹啉和苯甲酸…苯甲酸为对象，采用色散校正的密度泛函理论分别研究褐煤中自缔合OH、OH-π、OH-醚O、OH-N和COOH-COOH之间形成的氢键。此外，还研究了氢键供体中取代基(CH₃-、CH₃O-、OH-、NH₂-、COOH-和NO₂-)对氢键的影响。对上述复合物进行了几何优化，并计算了能量、Mulliken电荷分布及振动频率。从优化的结构中可以看出上述复合物之间都存在氢键，所有复合物中O-H键键长都比苯酚中自由羟基的长，这表明这些复合物之间存在相互作用。其中，羧酸…羧酸复合物中O-H键的键长最长。此外，通过Mulliken电荷分布可看出上述复合物之间存在电荷转移。基于振动频率分析，所有的O-H键伸缩振动都发生了红移，尤其是羧酸…羧酸和苯酚…喹啉复合物，这可为煤中羟基振动的红外光谱分析提供依据。根据键能不同氢键强度按以下顺序依次递减：COOH-COOH>OH-N > 自缔合OH≈OH-醚O > OH-π，这与振动频率的分析结果一致。此外，不同取代基对氢键作用的影响不同。     

A study of the hydrogen bond by means of comparative calculations

The nature of the hydrogen bond is investigated by means of a comparative analysis of some hydrogen bonded and hydrogen-like bonded systems. It is concluded that the hydrogen bond is determined by electrostatic interaction between the proton and the region of high electron density in the neighbour molecule.     

Anomalous Density and Permittivity Effects on the Structure of Water

The relationship between the structural peculiarities of the hydrogen bond net and the anomalous behavior of density and dielectric permittivity of water is investigated. The degree of ordering in the network of hydrogen bonds is described in terms of the structural functions, among which the most important ones are tetrahedricity and the mean number of hydrogen bonds per molecule. The temperature dependence of the number of hydrogen bonds per molecule is discussed in terms of the analysis of the experimental temperature dependences of density and permittivity of water on the saturation line. The estimated density of hexagonal ice at the melting point is reproduced in terms of the concepts suggested for analysis; the estimate is rather close to the experimental value. Possible applications of the new approach are discussed.     

Intermolecular-medium and intramolecular-weak hydrogen bonding chains in the crystals of chiral trifluoromethylated amino alcohols

A structural feature of hydrogen bonding chains found in the crystals of trifluoromethylated amino alcohols is reported. Hydrogen bondings of 3-(N,N-dialkylamino)-1,1,1-trifluoro-2-propanols construct chiral spiral hydrogen bonding chains. Lone pairs on the nitrogen atoms of the amino alcohols participate in two hydrogen bondings. Detailed structural analysis of the hydrogen bonds of the 3-(N,N-dimethylamino)-1,1,1-trifluoro-2-propanol suggested that the chain built up with alternating intermolecular-medium and intramolecular-weak hydrogen bonds. The medium intermolecular hydrogen bond, which transfers a proton from the hydroxy group to the amino nitrogen, would make a tentative zwitterionic form of the molecule. Then, electrostatic attraction between the charges in the zwitterion centers induced a weak intramolecular hydrogen bond.     

On the Relationship between Hydrogen Bond Strength and the Formation Energy in Resonance-Assisted Hydrogen Bonds

Resonance-assisted hydrogen bonds (RAHB) are intramolecular contacts that are characterised by being particularly energetic. This fact is often attributed to the delocalisation of π electrons in the system. In the present article, we assess this thesis via the examination of the effect of electron-withdrawing and electron-donating groups, namely −F, −Cl, −Br, −CF₃, −N(CH₃)₂, −OCH₃, −NHCOCH₃ on the strength of the RAHB in malondialdehyde by using the Quantum Theory of Atoms in Molecules (QTAIM) and the Interacting Quantum Atoms (IQA) analyses. We show that the influence of the investigated substituents on the strength of the investigated RAHBs depends largely on its position within the π skeleton. We also examine the relationship between the formation energy of the RAHB and the hydrogen bond interaction energy as defined by the IQA method of wave function analysis. We demonstrate that these substituents can have different effects on the formation and interaction energies, casting doubts regarding the use of different parameters as indicators of the RAHB formation energies. Finally, we also demonstrate how the energy density can offer an estimation of the IQA interaction energy, and therefore of the HB strength, at a reduced computational cost for these important interactions. We expected that the results reported herein will provide a valuable understanding in the assessment of the energetics of RAHB and other intramolecular interactions.     

Conformers and intramolecular hydrogen bonding of the oxalic acid monomer and its anions

Density functional theory, B3LYP/6‐31G** and B3LYP/6‐311+G(2d,p), and ab initio MP2/6‐31G** calculations have been carried out to investigate the conformers, transition states, and energy barriers of the conformational processes of oxalic acid and its anions. QCISD/6‐31G** geometrical optimization is also performed in the stable forms. Its calculated energy differences between the two most stable conformers are very near to the related observed value at 7.0 kJ/mol. It is found that the structures and relative energies of oxalic acid conformers predicted by these methods show similar results, and that the conformer L1 (C_2h) with the double‐interfunctional‐groups hydrogen bonds is the most stable conformer. The magnitude of hydrogen bond energies depends on the energy differences of various optimized structures. The hydrogen bond energies will be about 32 kJ/mol for interfunctional groups, 17 kJ/mol for weak interfunctional groups, 24 kJ/mol for intra‐COOH in (COOH)₂, and 60 kJ/mol for interfunctional groups in (COOH)COO⁻¹ ion if calculated using the B3LYP/6‐311+G(2d,p) method. © 2000 John Wiley & Sons, Inc. Int J Quant Chem 76: 541–551, 2000     

Structural and energetic consequences of the formation of intramolecular hydrogen bonds

Formation of intramolecular hydrogen bonds leads to structural modifications in the whole molecule, which are discussed on the basis of B3LYP/6-31G(d,p) calculations. The energy and the structure of various hydrogen-bonded and open conformers are considered for two groups of ortho-substituted phenols–N-dimethylaminomethylphenols (Mannich bases) and N-methylbenzylideneamines (Schiff bases). The energy of intramolecular hydrogen bond formation in Mannich bases was corrected for non-bonded interactions within the molecules, based on a thermodynamic cycle. Structural data were used to estimate the fraction of the ortho-quinoid (keto) form in particular tautomers. It is shown that proton transfer in Schiff bases leads to an increase of this fraction to about 40%, while opening of the hydrogen bond in the proton transferred form increases the keto fraction to 70%.     

Mutual Weakening of Hydrogen Bonds Between Hydrogen Fluoride and Proton Donors

The mutual effect of hydrogen bonds in BHF(HHal) _n complexes (Hal = F, Cl, Br, I; B = –, CH₃CN, NH₃; n = 1-3) was examined using the self-consistent field ab initio approach (6-31++G(d,p) and ECP-HW). When two and three equivalent H bonds are formed from the lone electron pairs of the fluorine atom of the HF molecule, the mutual weakening effect is 17% and 28%, respectively. The coefficients of the mutual effects of hydrogen bonds in HF(HHal)₂ and H₂O(HHal)₂ bridges are close in magnitude.     

Dynamic parameters of the hypervalent O3B...O bond

The results of investigations of the common and distinctive features of various chemical bonds, including intermolecular bonds, were considered. The geometries, atom charges, and force constants of the bonds in a dependent system of coordinates were calculated for five boroxide molecular species using the MINDO/3 method. The correlations found between the force constants and the bond energies in the O₃B...O bridge were compared with the analogous relations for the OH...O bridge. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 12, pp. 2237–2241, December, 1999.     

用核磁共振技术研究氢键的键合方式

为了了解怎样利用核磁共振技术研究氢键的键合方式,本文以联酰胺衍生物为例,分别运用变温核磁共振氢谱和变浓度核磁共振氢谱分析了羰基(CO)与氨基(H—N)之间形成氢键的形式。结果表明,本文举例中联酰胺基团中的CO与H—N以分子间氢键形式存在。     

Reconsideration on hydrogen bond strengthening or cleavage of photoexcited coumarin 102 in aqueous solvent: a DFT/TDDFT study

In this work, the excited-state hydrogen bonding dynamics of photoexcited coumarin 102 in aqueous solvent is reconsidered. The electronically excited states of the hydrogen bonded complexes formed by coumarin 102 (C102) chromophore and the hydrogen donating water solvent have been investigated using the time-dependent density functional theory method. Two intermolecular hydrogen bonds between C102 and water molecules are considered. The previous works (Wells et al., J Phys Chem A 2008, 112, 2511) have proposed that one intermolecular hydrogen bond would be strengthened and the other one would be cleaved upon photoexcitation to the electronically excited states. However, our theoretical calculations have demonstrated that both the two intermolecular hydrogen bonds between C102 solute and H(2)O solvent molecules are significantly strengthened in electronically excited states by comparison with those in ground state. Hence, we have confirmed again that intermolecular hydrogen bonds between C102 chromophore and aqueous solvents are strengthened not cleaved upon electronic excitation, which is in accordance with Zhao's works.