Synthesis and Density Functional Theory(DFT) Calculation of Haptens for PAHs

Five PAHs haptens 3 a～3 e were synthesized from naphthalene, anthracene, chrysene, pyrene and acenaphthene via two steps including Friedel-Crafts acylation and WolffKishner-Huang reduction. The sixth hapten 4-(acenaphthylen-3-yl)butanoic acid(3 f) was prepared from hapten 3 e via three steps including esterification, bromination and elimination. Their structures were confirmed by melting point, ~1H NMR and ~(13)C NMR. Their optical properties and crystal structures were also investigated. The results of density functional theory(DFT) calculation provided the supports that the size, shape(geometry) and electronic properties at the corresponding parts of 3 a～3 f did not change significantly, compared to those of PAHs. The haptens 3 a～3 f were coupled with bovine serum albumin(BSA) to make antigens. The coupling ratios were 1:20～1:38. These results show that the haptens could be used to induce specific antibodies for PAHs.     

A Density Functional Theory (DFT) Quantum‐Chemical Approach to the Real Structure of Poly(methylaluminoxane)

DFT quantum chemical calculations have been performed in order to optimize the geometric and electronic cage structure of poly(methylaluminoxane) (MAO) with oligomerization degree n = 9–15, and to find such structures that fit most closely the existing experimental data on the MAO composition and structure. The following peculiarities of the MAO structure were found: i) In “classic” MAO (n = 9, 12, 15; Al : CH₃ : O = 1 : 1 : 1), which has a triple‐layer cage structure, the inner layer contains highly reactive Al‐O bonds. ii) The reaction between “classic MAO” and trimethylaluminium (TMA) proceeds by the concerted mechanism, with the insertion of Al‐CH₃ groups into these Al‐O bonds producing “true” MAO (Al : CH₃ : O = 1 : 1.5 : 0.75). The calculated geometric and electronic structures of “true” MAO with n = 6, 9, 12 are presented. iii) “True” MAO and “classic” MAO exist in equilibrium. The driving force for the formation of “true” MAO is the decrease in enthalpy, and of “classic” MAO the increase in entropy, in the equilibrium reaction between “classic” MAO and TMA.     

Theoretical Study of Copper Acetonitrile Effects on Parr Functions Indices and Regioselectivity Using Density Functional Theory (DFT)

Russian Journal of Physical Chemistry A - Copper-catalyzed azide–alkyne cycloaddition (CuAAC) is a straightforward way for making covalent connections between building blocks containing...     

Trans or (Unusual) Cis Geometry in d(2) Octahedral Dioxo Complexes. A DFT Study

Geometry optimization of the cis and the trans isomers of several octahedral dioxo complexes of d(2) electronic configuration are performed using the gradient-corrected density functional theory (B3LYP and, for some key structures, BP86). With only monodentate sigma donor ligands (ReO(2)(NH(3))(4)(+), 7), the usual energy order is found (i.e., the trans isomer is the most stable). Complexes with a chelating bidentate ligand, OsO(2)(OCH(2)CH(2)O)(NH(3))(2) (10) and ReO(2)(HN=CHCH=NH)(NH(3))(2)(+) (11), are used as models for the experimental complexes 5 and 2 in which the arrangement of the O=M=O unit is trans and cis, respectively. Our calculations actually show an inversion of the relative energy of the two isomers in going from 10 to 11: while the trans isomer is found to be the most stable in 10, the unusual cis diamagnetic isomer is favored by about 29 kcal mol(-)(1) in 11. This result is traced to the geometric and electronic properties of the bidentate ligand, in particular an acute bite angle and good pi acceptor character. In complex 14 with a bipyridine chelating ligand (weaker pi acceptor than diaza-1,4-butadiene in 11), this energy difference is, however, reduced to 7.5 kcal mol(-)(1) (partial geometry optimization).     

The Surface Chemistry of Water on Fe(100): A Density Functional Theory Study

The formation of water by hydrogenation of atomic oxygen is studied using density functional theory. Atomic oxygen preferentially adsorbs at the four‐fold hollow site, the hydroxyl group prefers the bridge site in a tilted configuration, and water is most stable when adsorbed at the top site with the two O? H bonds parallel to the Fe surface. Water formation by the hydrogenation of oxygen is a highly activated process on the Fe(100) surface, with similar activation energies, in the order of 1.1 eV, for the first and second hydrogen additions. A more favourable route for the addition of the second hydrogen atom involves the disproportionation of hydroxyl groups to form water and adsorbed oxygen. Dissociation of the OH is also likely since the activation energy is similar to that for disproportionation of 0.65 eV. Furthermore, the results show that the dissociation of water on Fe(100) is a non‐activated process: 0.16 eV for the zero‐coverage limit and 0.03 eV when surface oxygen is present. Herein, adsorption energies, structures and vibrational frequencies are presented for several adsorption states at 0.25 ML coverage, as well as the potential energy surface for water formation on Fe(100).     

Initial Subsurface Incorporation of Oxygen into Ru(0001): A Density Functional Theory Study

The adsorption and diffusion of oxygen on Ru(0001) surfaces as a function of coverage are systematically investigated by using density functional theory. A high incorporation barrier of low‐coverage adsorbed oxygen into the subsurface is discovered. Calculations show that the adsorption of additional on‐surface oxygen can lower the penetration barrier dramatically. The minimum penetration barrier obtained is 1.81 eV for a path starting with oxygen in mixed on‐surface hcp and fcc sites at an oxygen coverage of 0.75 ML, which should be regarded as close to 1 ML. Energy diagrams show that oxygen‐diffusion barriers on the surface and in the subsurface are much lower than the penetration barrier. Oxygen diffusion on the surface is an indispensable step for its initial incorporation into the subsurface.     

Research on the chelation between quercetin and Cr(III) ion by Density Functional Theory (DFT) method

In order to locate the exact chelation site, the chelation between quercetin and Cr(III) ion is studied using the theoretical methods. Many different potential complexes, formed with natural and deprotonated quercetin chelating bare and hydrated Cr(III) ion, respectively, are studied by using Density Functional Theory method. Both total and binding energies are calculated. The results from the studies indicate that Cr(III) ion is affine in forming a complex with quercetin at the 5-hydroxy-4-keto site and that deprotonated quercetin has stronger chelating power than natural quercetin. Apart from the theoretical studies, the experiments are performed to modify the theoretical conclusions. Meanwhile, quercetin–Cr(III) complex has been synthesized, and the chelation site is analyzed using IR spectroscopy and UV/vis spectrum. The experimental results are found to have the same conclusions as those by theoretical studies.     

苯在CuCl（111）表面吸附的密度泛函理论研究

采用量子化学的密度泛函理论方法,探讨了苯分子在CuCl(111)表面上不同覆盖度下不同吸附位上的平行吸附行为. 计算结果表明,随覆盖度的减小,吸附作用增强, Cl位上的吸附是稳定的吸附模式,在低覆盖度下吸附能约为74 kJ/mol, 在顶位和穴位上的吸附属于较弱的物理吸附. 同时对吸附前后的电子布居和态密度进行了分析. 吸附过程中,苯分子的π电子向底物转移,同时Cu的 3d轨道的电子反馈给苯的反键π轨道.     

A Density Functional Theory Study on the Adsorption of CN on Ni(111) Surface

1 INTRODUCTION Cyanide, CN, is an important free-radical mole-cule of one carbon chemistry, organic chemistry, free-radical chemistry and cosmochemistry. And the im-portant industrial processes, such as the Andrussovreaction, depend on the reactivity of CN bond[1]. Thechemistry of cyanide is also important in the surfacechemistry of a number of C- and N-containing sys-tems[1, . During the past decade, the adsorption of 2]CN and CN-containing molecules on transition metalsurfa…     

Ni(100)表面吸附SO2的密度泛函研究

以原子簇Ni14为模拟表面,采用DFT/B3LYP方法研究了二氧化硫(SO2)分子在Ni(100)表面的吸附构型、能量、电荷及态密度。结果表明,SO2分子通过S原子平铺吸附在Ni(100)的桥位最有利,计算结果与实验相符。电荷密度及态密度分析表明,Ni原子的d轨道与SO2分子的空p轨道之间存在明显的s-p作用和电荷转移,这一作用可能导致SO2分子发生解离。     

Adsorption of NO on the M/c-ZrO2(110) (M = Ru,Rh) Surface: A Density Functional Theory Study

<正>The adsorption of NO on the M/c-ZrO_2(110)(M=Ru,Rh)surface has been studied with periodic slab model by PW91 approach of GGA within the framework of density functional theory.The results of geometry optimization indicated that the hollow site is energetically stable for Ru and Rh atoms' adsorption on the c-ZrO_2(110)surface with adsorption energies of 207.4 and 106.3 kJ/mol,respectively.When NO is adsorbed on the M/ZrO_2(110)surface,the N-down adsorption is the most stable.We also studied the adsorption of double NO on the M/c-ZrO_2(110)surface.Complete linear synchronous transit and quadratic synchronous transit approaches were used to search the transition state for dissociation reaction.NO has two possible dissociation passways:(1)2NO→N_2(g)+20(ads),(2)2NO→N_2O(g)+O(ads),and the former is easier than the latter based on the calculation results.     

Assignment of the First Photoelectron Band of CH3CHBr(X2A) Using Ab-initio and Density Functional Theory (DFT) Computational Calculations

HeI photoelectron spectra have been recorded for the reaction of atomic fluorine with ethyl bromide at different reaction times. A structured band associated with a short-lived primary reaction product has been recorded at a mixing distance of 12 mm above the photon beam. The adiabatic and vertical ionization energies of this band was measured as 7.78 ± 0.01 and 8.05 ± 0.01 eV, respectively . The average vibrational separation of 700 ± 30 cm⁻¹ was observed in this band. Vertical ionization energies were computed in this work for CH₃CHBr(X²A) and CH₂CH₂Br(X²A) via ΔSCF, ΔMP2 (full) and Δ(B3LYP) levels of theory using different basis sets. Mulliken population analysis and force constant calculations have also been carried out for CH₃CHBr(X²A) and CH₂CH₂Br(X²A) and their singlet cationic states. Comparison between the experimental vertical ionization energies and the corresponding values computed for CH₃CHBr (X²A) and CH₂CH₂Br(X²A) at different levels of theory led to the assignment of the observed first photoelectron band to the ionization of CH₃CHBr(X²A). The observed vibrational structure was assigned to the excitation of C–Br stretching mode in CH₃CHBr⁺ (X¹A).     

Magneto-Structural Correlations in Trinuclear Cu(II) Complexes: A Density Functional Study

Summary.  Density functional theoretical methods have been used to study magneto-structural correlations for linear trinuclear hydroxo-bridged copper(II) complexes. The nearest-neighbor exchange coupling constant shows very similar trends to those found earlier for dinuclear compounds for which the Cu–O–Cu angle and the out of plane displacement of the hydrogen atoms at the bridge are the two key structural factors that determine the nature of their magnetic behavior. Changes in these two parameters can induce variations of over 1000 cm⁻¹ in the value of the nearest-neighbor coupling constant. On the contrary, coupling between next-nearest neighbors is found to be practically independent of structural changes with a value for the coupling constant of about −60 cm⁻¹. The magnitude calculated for this coupling constant indicates that considering its value to be negligible, as usually done in experimental studies, can lead to considerable errors, especially for compounds in which the nearest-neighbor coupling constant is of the same order of magnitude. Corresponding author. E-mail: eliseo.ruiz@qi.ub.es Received June 28, 2002; accepted July 22, 2002     

A Comparative Study of Hydrogen Bonding Using Density Functional Theory

The hydrogen‐bond energies of water dimer and water‐formaldehyde complexes have been studied using density functional theory (DFT). Basis sets up to aug‐cc‐pVXZ (X=D, T, Q) were used. It was found that counterpoise corrected binding energies using the aug‐cc‐pVDZ basis set are very close to those predicted with the aug‐cc‐pVQZ set. Comparative studies using various DFT functionals on these two systems show that results from B3LYP, mPW1PW91 and PW91PW91 functionals are in better agreements with those predicted using high‐level ab initio methods. These functionals were applied to the study of hydrogen bonding between guanine (G) and cytosine (C), and between adenine (A) and thy mine (T) base pairs. With the aug‐cc‐pVDZ basis set, the predicted binding energies of base pairs are in good agreement with the most elaborate ab initio results.     

靛蓝及其取代物的密度泛函理论研究

运用量子化学中密度泛函理论(DFT)方法,在B3LYP／6-31G^ 水平上对靛蓝及其芳环4,4′-,5,5′-,6,6′-,7,7′-取代衍生物进行理论计算．探讨了F,Cl,Br,NO2,CH3O,CH3在不同位置的取代对分子的几何构型、电子结构和电子光谱的影响,获得与实验结果相一致的结论．还用含时密度泛函理论(TD-DFT)方法在相同水平计算其电子光谱．结果表明靛蓝及其芳环取代衍生物的最低激发单重态(S1)均源自HOMO-LUMO(π-π^*)跃迁．     

Adsorption of Proline and Glycine on the TiO2(110) Surface: A Density Functional Theory Study

The optimal adsorption modes for the amino acids glycine and proline on the ideal TiO₂(110) surface are investigated by using density functional theory (PBE) applying periodic boundary conditions. Binding modes with anionic acid moieties bridging two titanium atoms after transferring a proton to the surface are the most stable configurations for both molecules investigated—similar to previous results for carboxylic acids. In contrast to the latter compounds, amino acids can form hydrogen bonds via the amino group towards the surface‐bound proton; this provides an additional stabilisation of 15–20 kJ mol^?1. Zwitterionic binding modes are less stable (by 10–20 kJ mol^?1) and are less important for proline. Neutral modes are energetically even less favourable. Calculations of vibrational frequencies and core‐level shifts complement the adsorption study and provide guidance for future experimental investigations. Control of the computational parameters is crucial for the derivation of accurate results. The layout and thickness of the slab model used are also shown to be decisive factors. Calculations with a different GGA‐functional (PW91) provide very similar relative energies, although the absolute energies change by about 20 kJ mol^?1. Results derived with the hybrid functional PBE0 show an even greater stabilisation of the anionic binding modes with respect to the zwitterionic modes. A previously observed discrepancy between experimental and theoretical results for glycine could be solved, although the experimentally proposed free rotation of the C? C bond could not be reproduced.     

Conformational equilibrium study of calix[4]tetrolarenes using Density Functional Theory (DFT) and Molecular Dynamics simulations

The present work deals with the theoretical study of conformational equilibrium of calix[4]tetrolarenes (1,2,3 trimethoxy substituted calix[4]arene) in gaseous and solvation phases. A total of 64 calculations (four conformations at eight level of theories) were performed using Density Functional Theory (DFT) functionals viz. wB97XD, B97D, B3LYP, CAM-B3LYP with diffused (6–31 + G(d)) and non-diffused basis sets (6-31G(d)). It has been found that the conformational profile of calix[4]tetrolarene changes from cone to 1,3-Alternate upon incorporating – OMe group. The B97D and wB97XD functionals gave the most accurate result having rmsd value ~0.73Å followed by B3LYP and CAM-B3LYP > 0.78Å. Furthermore, NBO calculations demonstrated that reduction in charges at lower rim oxygens reduces the chances of hydrogen bonding. Moreover, global reactivity parameters and molecular dynamics also complement the observed trend. Owing to the methoxy substitutions, anion binding study of these new molecules indicates towards the promising capability to bind Cl^? and F^? ions.     

Rh(111)表面上CO和O共吸附的密度泛函理论计算研究

采用密度泛函理论对Rh(111)表面上CO和O的吸附和共吸附进行了系统的研究,计算了三类不同的共吸附结构.从吸附能和化学位移的角度,通过与已有实验结果对比,推断出可能存在的吸附构型.CO和O之间存在较大的排斥作用,在表面上竞争吸附.电子结构分析发现,这种排斥作用来源于CO和O之间与Rh的d轨道成键的竞争.用密度泛函理论计算的化学位移与实验测量结果一致,说明化学位移的理论计算能辅助对表面结构的预测.