利用三中心氢键限制芳酰胺构象的核磁共振氢谱分析

设计并合成了9个可形成三中心氢键和6个可形成二中心氢键的N-芳基芳酰胺模型化合物, 基于它们在氯仿和二甲基亚砜(DMSO)中的一维核磁共振波谱, 系统地分析了羰基对βH和γH的去屏蔽效应. 将Δ(δ_βH)和Δ(δ_γH)的值结合在一起, 分析了三中心氢键对芳酰胺分子的构象限制效果, 发现N-(2-氟苯基)-2-氟苯甲酰胺、 N-(2-甲氧基苯基)-2-氟苯甲酰胺和N-(2-氟苯基)-2-甲氧基苯甲酰胺这3个N-芳基芳酰胺在酰胺基团的左右两侧都能展现出很好的构象控制效果, 因此认为这3种结构单元在构建折叠体方面具有更大的潜力. 此外, 本文还发现, 当NH与第二个氢键受体形成氢键时, 其和第一个氢键受体之间的氢键就被削弱了, 即在芳酰胺形成三中心氢键时, 2个氢键受体争相与NH形成氢键并取得了某种平衡.     

A molecular orbital explanation of bond distance variation caused by hydrogen bond formation

For hydrogen bond systems X–D–HA–Y, a simple molecular orbital model is proposed to understand the mechanism of the bond distance variations caused by the hydrogen bond formation. This model explains the bond distance variations for X–D and A–Y as follows. Electrostatic potential that the electrons in a molecule receive from other molecules causes the changes in atomic orbital energy differences between the bonded atoms. Then, the changes in the orbital energy differences make the bond orders larger or smaller and consequently the bond distances vary. The validity of this model has been confirmed by the effective fragment potential method, using the test systems of (HCOOH)₂, HCONH₂ (formamide) crystal and BF₃·2H₂O crystal.     

Chemical bonding in TiSb(2) and VSb(2): a quantum chemical and experimental study

The chemical bonding in the isostructural intermetallic compounds TiSb2 and VSb2, crystallizing in the CuAl2 type, was investigated by means of quantum chemical calculations, particularly the electron localization function (ELF), as well as by Raman spectroscopy, Hall effect and conductivity measurements on oriented single crystals, and high-pressure X-ray powder diffraction. The homogeneity ranges of the compounds were determined by powder X-ray diffraction, WDXS, and DSC measurements. TiSb2 exhibits no significant homogeneity range, while VSb2 shows a small homogeneity range of approximately 0.3 at. %. According to the ELF calculations, the Sb atoms form dumbbells via a two-center two-electron bond, while the T atoms (T = Ti, V) build up chains along the crystallographic c-axis. Both building units are connected by covalent T-Sb-T three-center bonds, thus forming a three-dimensional network. The strength of the bonds involving Sb was determined by fitting a force constant model to the vibrational mode frequencies observed by polarized Raman measurements on oriented single crystals. The resulting bond order of the Sb2 dumbbells is 1, while the strength of the three-center bonds resembles a bond order of 1.5. The weak pressure dependence of the c/a ratio confirms the slightly different bonding picture in TiSb2 compared to that in CuAl2. Electrical transport measurements show the presence of free charge carriers, as well as a metal-like temperature dependence of the electrical resistivity.     

Geometric and electronic similarities between transition structures for electrocyclizations and sigmatropic hydrogen shifts

This paper reports new theoretical evidence that supports previous proposals concerning the similarity between transition structures for electrocyclizations and sigmatropic hydrogen shifts. This evidence was obtained using two recently proposed methodologies, namely the so-called generalized population analysis and the formalism of molecular quantum similarity indices. Analysis of multicenter bond indices shows that the transition structures for cationic [1,n] hydrogen shifts do indeed have three-center indices that are similar to those of other three-center carbocations. In addition, the close resemblance of the electronic structures of electrocyclic and sigmatropic transition structures that differ by only a proton is supported by the values of their quantum molecular similarity indices.     

Pentacoordinated AB5-Type Main Group Molecules Favorably Adopt sp2 Hybridization in the Central Atom: Bonding without d-Orbital Participation

The pentacoordinated AB₅-type main group molecules have long been thought to have sp³d hybridization of the central atom, accounting for their oxidation state and molecular geometry; however, this does not explain the difference in axial and equatorial bond distances within these molecules. In addition, d-orbital participation in bonding for nonmetals is energetically unfavorable because it requires a np nd excitation energy. In this paper, we have proposed that the sp² hybrid orbitals are formed on the central atom, overlapping with ligand orbitals in the equatorial positions. The longer axial bonds are formed via the overlap of the unhybridized p orbital on the central atom and the two terminal ligand orbitals, resulting in a three-center, four-electron bond. Examining the partial charge on the central atom using relevant electronegativity values supports this model without a d component in bonding. The model explains well the structure and bonding in pentavalent molecules. We believe that the results will be useful in updating chemistry texts.     

Model for a three-center decomposition reaction. I. Perfluorodiazirine

A semiempirical approach has been used to evaluate rate parameters for a three-center decomposition reaction from the point of view of transition state theory, with perfluorodiazirine serving as the prototype molecule. Several activated complex models are considered in which the reaction coordinate is chosen as the ? NCN bending mode. The constraints imposed include the principle of concerted bond-order conservation in passing from the initial to the final state, and use is made of empirical bond order–bond length and bond order–force constant relationships. The geometric configuration of the transition state sought is one which conforms with the lowest energy path and is also consistent with the observed entropy of activation. The potential energy of activation is taken as the optimum difference in binding energies (based on the INDO method) between the transition and initial states, and the critical energy is obtained by applying a correction for the zero-point energy difference, derived from normal coordinate analysis. Satisfactory agreement is found in the case of the activated complex model for which the total bond order is conserved and bonds undergoing rupture are assigned a fractional bond order (FBO) of 2/3, derived from the postulate (FBO) = α/β whe re α(=2) is the number of bonds breaking, and β(=3) is the number of bonds undergoing change in the ring opening.     

Is there any three-center CBC bond in 1, 5-C2B3H5 and 1,5-C2B3H3?

Localized molecular orbitals, two- and three-center bond indices of 1,5-dicarba-closo-pentaborane ( 5 ) and 1,5-dicarba-closo-pentaborane ( 3 ) and their hydrocarbon analogs bicyclo [1,1,1]-pentane and [1,1,1] propellane, respectively, have been calculated using a suitable basis set. No previously reported three-center CBC bond has been found. However, a new three-center BCB bond has been observed in 1,5-dicarba-closo-pentaborane ( 5 ). © 1995 John Wiley & Sons, Inc.     

Computational studies on the thermal decomposition and isomerization of CHBr2O radical

The unimolecular decomposition study of dibromomethoxy radical, CHBr₂O, and its isomeric hydroxy dibromomethyl radical, CBr₂OH, is carried out using ab initio electronic molecular structure methods. Three kinds of reaction pathways are examined, C–H and C–Br bond scissions, intramolecular three-center HBr elimination and isomerization. Based on the ab initio results, energy-specific rate coefficients k(E) and thermal rate constants k(T,P) are evaluated using RRKM theory and master equation numerical analysis. Relevance to existing experimental evidence is discussed.     

Molecular Structure of Complexes with Bifurcated Hydrogen Bond: I. N-(4-Methyl-2-nitrophenyl)acetamide

According to the results of HF/6-31G* and B3LYP/6-31G* nonempirical calculations, N-(4-methyl- 2-nitrophenyl)acetamide in the synperiplanar and antiperiplanar conformations gives stable complexes with protophilic solvents, which are stabilized by bifurcated (three-center) hydrogen bond. The complexes are characterized by (1) opposite variations of the interatomic distances and angles corresponding to intra- and intermolecular components of the bifurcated hydrogen bond, (2) extension of the intramolecular component and a more pronounced shortening of the intermolecular component with increase in the strength of the three-center H-complex, and (3) nonlinear and nonmonotonic relation between the NH stretching vibration frequency and the energy of complex formation.     

Hydrogen bonding. Part 75. Infrared, titrametric and molecular orbital study of the structure, solubility and reaction with fluoride ion of 2,3-dicarboxypyrazine

2,3-Dicarboxypyrazine (2,3-H₂DCPz), unlike 2,3-dicarboxypyridine (2,3-H₂DCPy), does not exist as a zwitterion in the solid state. This is due to the remarkably low base strength of nitrogen in the pyrazine ring relative to that of pyridine. The decrease in the base strength of pyrazine relative to pyridine may result from greater disruption of the aromatic π-system of pyrazine on protonation than is the case with pyridine. We propose that 2,3-H₂DCPz has a structure of C_s symmetry in the solid state in which one carboxyl group forms an internal hydrogen bond to carbonyl of adjacent carboxyl in the same molecule, and the second carboxyl forms an intermolecular hydrogen bond to carbonyl in an adjacent molecule. The monoanion in 2,3-NaHDCPz has a strong O–H–O covalent three-center hydrogen bond between carboxylate groups. When saturated solutions of 2,3-H₂DCPz are treated with F⁻, one additional diacid molecule is taken into solution for each 1.5 F⁻ added. As is the case with 2,3-H₂DCPy, the high solubility and acid strength of 2,3-H₂DCPz (pK_a=2.87) leads to formation of the hydrogen-rich H₂F₃⁻ ion instead of HF₂⁻.     

Theoretical study of the reaction C(P) + N2O(XΣ). II. Dynamical trajectory studies on a three-atom model

A three-atom analytical model for the ground-state potential-energy surface for the reaction C + N₂O is proposed. A classical trajectory study is performed on this reaction. It shows a much higher vibrational excitation with population inversion in the vibrational levels of CN(X²Σ⁺) than expected from experiment and, therefore, suggests a distribution of the energy of the reaction not only into the newly formed CN bond but also into the pre-existing NO bond.     

Distance dependence analysis of the electron transfer reactivity for the metastable FeOH2/FeOH2 system: an ab initio investigation

A novel theoretical scheme and ab initio application in discussing the electron transfer (ET) reactivity are presented in this paper, and are also calibrated in terms of the mono-hydrated iron ion system, Fe²⁺–OH₂/Fe³⁺–OH₂. The detailed geometry optimizations have been made at UMP2(full)/6-311+G^* level, and the activation geometrical configuration and the energy have been obtained at this level of theory using the activation model and the ab initio potential energy surface fitted from MP2(full)/6-311+G^* single point energies. The corresponding energy quantities (such as the activation energy, and dissociation energy) have also been obtained at different levels of theory (HF, MP2, MP3, MP4, QCISD and PUHF, PMP2 and PMP3 with the spin-projection) and a same basis set (6-311+G^*). The electron correlation calculations include the all electron correlation and the valence electron correlation. The electronic transmission coefficient is calculated using the ab initio potential energy surface slopes and the coupling matrix element determined from the two-state model and the Slater-type d-electron wave functions. The pair distribution function is calculated using two different schemes. Taking the pair distribution function and the local ET rate into account, a statistically averaged overall observed ET rate scheme and a spherically averaged local ET rate scheme are proposed. The relevant kinetic parameters are obtained in terms of these new schemes at different ab initio calculational levels. The contact distance dependence of these parameters and the applicability of the presented models and ab initio calculational method are also discussed.     

The formation of three-center bonds in chemisorption

Summary It is proposed that molecular adsorption may be brought about by the formation of three-center bonds. In this two donor-acceptor bonds are formed between the molecule to be adsorbed and an atom in the adsorbent surface. The molecule to be adsorbed, for instance, ethylene, acts as a donor because of its -electron pair and the adsorbent atom because of its p-orbital. At the same time the adsorbent atom is a donor on account of its electron pair in a d_XZ-orbital and the molecule an acceptor on account of its antibonding ¹-²- orbital; by this a dative bond is formed. In the case of a metal without d-electrons (for instance, Al) a dative bond is impossible, but the metal can give an acceptor bond because of its empty p-orbital.Such a three-center chemisorption must proceed with a small activation energy, that is, be reversible, unactivated and rapid. Most often chemisorption at low temperature has these properties. The heat of such a chemisorption may vary between a few times ten or a few kcal.Three-center chemisorption may be of considerable importance in catalytic reactions and also in exchange processes on the surface.Only a considerable activation energy and a very high heat of adsorption is a reliable proof that the adsorbed substance occurs on the surface as atoms or in a state in which one adsorbent atom forms a stable chemical bond with only one adsorbate atom.Translated from Zhurnal Strukturnoi Khimii, Vol. 1. No. 2, pp. 189–199, July–August, 1960     

基于密度泛函理论研究木质素二聚体C_α-OH基团的修饰对其热解均裂历程的影响

采用密度泛函理论方法,对四种β-O-4型二聚体木质素模型化合物2-(2-甲氧基苯氧基)-1-苯基乙烷-1-醇、2-(2-甲氧基苯氧基)-1-苯基乙烷-1-酮、1-甲氧基-2-(2-甲氧基-2-苯基乙氧基)苯、2-(2-甲氧基苯氧基)-1-苯乙基乙酸酯的C_(aromatic)-O、C_(aromatic)-C_α、C_α-C_β、C_β-O键均裂解离能进行了理论计算,并对所述二聚体的热解均裂历程进行了理论计算研究,分析了不同二聚体的热解产物形成途径。结果表明,C_β-O键均裂是二聚体初次热解的主要反应,C_α-C_β键均裂是竞争反应。C_α-OH官能团被氧化、乙酰化修饰后,C_β-O键均裂解离能降低,而C_α-C_β键的键解离能升高,C_β-O键裂解概率增大,C_α-C_β键均裂竞争性降低。基于上述四种模型化合物热解的主要芳香族产物有苯甲醇、甲苯、苯甲醛和愈创木酚等,C_α-OH官能团的选择性修饰可调控热解产物种类,其中,氧化修饰后的二聚体的热解产物种类变少,产物选择性增强;甲基化、乙酰化修饰后的二聚体热解可产生苯乙烷和甲苯。     

High-pressure adsorption capacity and structure of CO2 in carbon slit pores: theory and simulation

We present new simulation results for the packing of single-center and three-center models of carbon dioxide at high pressure in carbon slit pores. The former shows a series of packing transitions that are well described by our density functional theory model developed earlier. In contrast, these transitions are absent for the three-center model. Analysis of the simulation results shows that alternations of flat-lying molecules and rotated molecules can occur as the pore width is increased. The presence or absence of quadrupoles has negligible effect on these high-density structures.     

Valence bond formulation of Hartree-Fock instability conditions for simple and multiple bonds

For model problems like H₂ and C₂, the HF instability conditions are expressed in an orthogonal valence bond (OVB) language, i.e. as functions of the ratio of the neutral/ionic coupling over the energy difference between ionic and neutral OVB determinants. The relationship between the instability conditions and the convergence radius of the perturbative CI expansion is discussed. It is analytically demonstrated and numerically illustrated on the C₂ problem that some symmetry-broken HF solutions (i.e. for which the energy is stationary) are not real minima of the energy at intermediate interatomic distances. For systems with several non-equivalent bonds the successive occurrence of instability in the π bond and in the σ bond and the coupling between them is analytically analysed and numerically illustrated on the ethylene, acetylene and nitrogen molecules.     

Highlevel ab initio and hybrid density functional theory study of the energy profile for the CO+CO reaction

Two complete basis set and three hybrid density functional computational studies were applied in the exploration of the ¹CO+²CO⁺ reaction potential energy surface. One molecular carbon monoxide–carbon monoxide cation molecular associate was elucidated as the structure with the lowest energy on the potential energy surface. Ionization energies, bond dissociation energies, and enthalpies of formation for every di and tri-atomic molecule on the potential energy surface were estimated with the two complete basis sets and the three hybrid density functional theory methods. Six different endothermic channels for the ¹CO+²CO⁺ reaction were evaluated with ab initio and DFT methods. The computed energies and structural parameters are compared with experimental values where available. Some new energies for this reaction system were suggested.     

Structure, ordering, and bonding of half antiperovskites: PbNi3/2S and BiPd3/2S

In a model study the crystal structures of shandite (Pb₂Ni₃S₂), parkerite (Bi₂Ni₃S₂) and their Pd homologues are investigated in terms of ordered half antiperovskites AM_3/2S (A = Pb, Bi; M = Ni, Pd). This addresses fundamental questions on the structural relations, ordering and chemical bonding. From crystal structure investigations a new cubic parkerite variant is presented for Bi₂Pd₃S₂ that fits in an ordering model equivalently to shandite and parkerite. Type–antitype relations to ordered oxygen deficit perovskites are presented. With the relation to the superconductor Ni₃MgC a model is deduced that provides the complete crystal structure and symmetry in terms of the Ni and Pd ordering in antiperovskite superstructures. Therein a systematic ab initio investigation on the relative stability of shandite and parkerite structures is carried out for the first time. From the DFT modelling results the preferences of the ordering variants and the distinct differences in the atomic coordination spheres are discussed. The bonding in the systems is investigated by site projected density of states and covalent bond energy calculations.     

H_2O对SO_2在CaO表面上吸附的影响理论研究

采用密度泛函理论研究了H_2O对SO_2在CaO(001)表面上吸附的影响。结果表明,以四种形式(-H_2O、-H、-OH和-H-OH)存在的H_2O使SO_2在CaO表面上的吸附构型发生改变。SO_2在不同形式H_2O基团邻位吸附时,-H使S原子的p轨道态密度峰明显左移且吸附能比洁净表面大90 kJ/mol,其余基团表面吸附能无明显变化;SO_2吸附于-OH和-H-OH生成HSO_3基团,吸附能相比于洁净表面较小,可能作为暂态结构;SO_2吸附于-H_2O生成SO_3基团,H_2O断键生成的H基团起主要吸附作用,CaO表面上生成类似Ca(OH)_2的局部结构且吸附能比洁净表面大45 kJ/mol。