6-Nitro-[1,10]phenanthroline-1-ium nitrate: crystal structure, ab initio calculations and protonation character

The title compound, 6-nitro-[1,10]phenanthroline-1-ium nitrate, has been synthesized and characterized by elemental analysis, electron absorption spectroscopy, IR, ¹H and ¹³C NMR spectroscopy. The X-ray crystal structure study showed that the compound crystallizes in the monoclinic system, space group Cc, with M_r=288.22 (C₁₂H₈N₄O₅), a=13.861(3), b=10.142(2), c=8.7320(17) Å, β=103.70(3)°, V=1192.6(4) Å³, Z=4, D_c=1.605 g/cm³, F(000)=592, μ(Mo Kα)=0.129 mm⁻¹, R=0.0439, wR=0.1125, GOF=1.110. In the crystal lattice, the molecules create a network structure through hydrogen bonds. Ab initio calculations of the structures, charges distribution, natural bond orbitals, topological analysis and thermodynamic functions of 5-nitro-[1,10]phenanthroline and its protonated cation were performed at HF/6-311G** and B3LYP/6-311G** levels of theory. The calculation results are in a good agreement with the X-ray data and show that the protonated structure is stable. The calculation of second order optical nonlinearity was carried out and a higher molecular hyperpolarizability of 24.66×10⁻³⁰ esu was predicted.     

HNNH3, a new possible isomer of N2H4: An ab initio study

Ab initio studies applying the 3-21G, 6-31G, and 6-31G** basis sets and also including the MP2 correction were carried out on H₂NNH₂, HNNH₃, and the transition state of the reaction H₂NNH₂(DOUBLE BOND)HNNH₃. First, the geometries of molecules were optimized using the theoretical methods mentioned in the restricted Hartree–Fock (RHF) scheme. The energies of the molecules corresponding to RHF/6-31G** geometries were subsequently calculated including electron-correlation effects at the level of the second-order Møller–Plesset (MP2) perturbation theory. The vibrational frequencies, net charges, and dipole moments were obtained from the theoretical calculations. The results of our calculations indicate unambiguously that H₂NNH₂ is thermodynamically more stable than is HNNH₃. On the other hand, an isolated HNNH₃ molecule once created would be stable since barriers for its unimolecular isomerization and decomposition are relatively high. But HNNH₃ is unlikely to be isolated in measurable amounts because of bimolecular tautomerization. Nevertheless, HNNH₃ can be considered as an intermediate in chemical processes involving N₂H₄. © 1997 John Wiley & Sons, Inc. Int J Quant Chem 64 : 447–452, 1997     

从头计算方法比较TiSi_2的C54相和C49相

采用平面波超软赝势描述多电子体系,利用密度泛函理论和广义梯度近似,计算出C54相和C49相TiSi2的晶格常数、体弹性模量、形成能、电子态密度(DOS)和Mulliken电荷布居等性质.通过比较这两种物质的性质,发现尽管两者形成能很相近,但C49相结构对称性差、体弹性模量小、熔点低,Ti原子d轨道的反键强、离子性弱.这些性质上的差异和C49相TiSi2在固相反应中优先形成有关.     

从头计算方法比较TiSi2的C54相和C49相

采用平面波超软赝势描述多电子体系,利用密度泛函理论和广义梯度近似,计算出C54相和C49相TiSi2的晶格常数、体弹性模量、形成能、电子态密度(DOS)和Mulliken电荷布居等性质.通过比较这两种物质的性质,发现尽管两者形成能很相近,但C49相结构对称性差、体弹性模量小、熔点低, Ti原子d轨道的反键强、离子性弱.这些性质上的差异和C49相TiSi2在固相反应中优先形成有关.     

Microwave spectroscopic and ab initio studies of pyrolysis products of 2-nitrosopropene (syn form) and its pyrolysis mechanism

The pyrolysis products of CH₂=C(CH₃)---NO (syn form) have been determined by microwave spectroscopy. The pyrolysis products of CH₂=C(CH₃)---NO (syn form) and its ¹⁵N isotopic species were found to be CH₂=O, CH₃CN, and CH₃C¹⁵N. The produce of formaldehyde and methyl cyanide suggests that the C=C and N=O double bonds of CH₂=C(CH₃)---N=O (syn form) were broken. To explain the generation of the two molecules, a four-membered ring molecule (9) as an intermediate, is proposed. The four-membered ring molecule as an intermediate is also supported by ab initio MO calculation. Applying the pyrolysis mechanism obtained for 2-nitrosopropene (syn form) to that of 1,1,2-trichloronitrosoethane, one of its complicated pyrolysis mechanisms was explained. The rotational constants and geometrical parameters of two intermediates, 9 and CH₂=CCl---NO (13), were obtained by ab initio MO calculation (MP2/6-31G**) to predict their microwave spectra.     

Tautomeric and conformational equilibrium of 2-nitrosophenol and 9,10-phenanthrenequinonemonooxime: ab initio and NMR study

The tautomeric and conformational equilibrium of 2-nitrosophenol and 9,10-phenanthrenequinonemonooxime was studied by ab initio methods. The geometry optimizations of the structures investigated were done without any geometrical restrictions at HF/6-31G** and MP2/6-31G** levels of theory. The transition structures for tautomeric and rotameric conversions were located. To correct for electron correlation, single-point calculations were carried out up to MP4/6-311G*//MP2/6-31G* level of theory.

Ab initio calculations for 2-nitrosophenol in agreement with the available experimental data define the nitroso form as more stable. It was found that the influence of the correlation energy on the relative stabilities is smaller for the rotamers of the nitroso tautomer but substantially (4–6 kcal/mol) for the oxime forms. It was found that the barrier height of tautomerization reaction is 10.24 kcal/mol.

The structure of the 9,10-phenanthrenequinonemonooxime was studied by solid and liquid state NMR spectroscopy. Ab initio calculations in agreement with our experimental data predict that the compound exists as oxime tautomer and the syn-oxime is most stable. It was found that the solvent influence on the relative stabilities of both isomers: syn- and anti-oxime. While in chloroform solution the syn-oxime is preferred but in DMSO anti-oxime is more stable in energy.

At the MP4/6-311G*//MP2/6-31G**+ZPE level of theory the barrier of tautomerization was predicted to be 10.96 kcal/mol and the rotational barrier around the single C–O bond in the syn-oxime was found to be 7.57 kcal/mol. The rotation is facile and this explains the absence of nitroso tautomers in solution.     

B2F2分子异构体结构的量子化学计算研究

采用abinitio方法对B₂F₂分子异构体的结构进行了计算研究,并与Al₂F₂分子进行了比较.结果表明,B₂F₂具有D_∞h对称性,³Σ_g电子态的直线型结构FBBF是B₂F₂分子的最稳定异构体,对文献的结果进行了修正.在UCCSD(T,full)/6－311+G(2df)水平下,F-B和B-B键长分别为0.12942和0.14820nm,振动频率出现在1860.00和1320.62cm^-1处.在UQCISD(T,full)/6－311+G(2df)//UMP2(full)/6－311+G(d)+ZPVE水平下,³Σ_g态的线性FBBF分子的垂直电离势为848.58kJ/mol,而由³Σ_g电子态的BF二聚为³Σ_g态的线性FBBF分子的焓变为59.86kJ/mol,此二聚化反应是放热反应,说明二聚化过程在能量上是有利的.     

Gas phase and water solution conformational analysis of the herbicide diuron (DCMU): an ab initio study

In the present work, the conformational equilibrium for the herbicide diuron (DCMU) has been investigated using high level ab initio calculations. The solvent effect was included through two different continuum models: (1) the real cavity IPCM method and (2) the standard dipole Onsager model SCRF. The effect due to solute-solvent hydrogen-bond interactions was analyzed considering a hybrid discreet-continuum model. At the Hartree-Fock level, the gas phase results showed that only the trans forms (A and B) are present in the equilibrium mixture, with the relative concentrations found to be 33% (A) and 67% (B) (HF/6-311+G**//6-31G**). When the electronic correlation effect is included (MP2/6-31G*//HF/6-31G*), a relative stabilization of the cis forms was observed, with the conformational distribution calculated as 38% (A), 50% (B), 6% (C) and 6% (D). The trans conformations were found to be completely planar, which has been considered to be a prerequisite for the herbicide binding. In water solution, the trans conformation A should be the most abundant conformer, the IPCM and SCRF values being ca. 100% and ca. 85% respectively. The IPCM calculations with the isodensity level set to 0.0005 present a conformational distribution close to that obtained from the hybrid model [92% (A) and 8% (B)], which has been considered our best solvent approach. Regarding the biological action of urea-type herbicides, the results presented here are important, because some QSAR studies have suggested that the partition coefficient is related to the herbicide activity, so the conformational equilibrium may play a role in the biological action. Received: 23 February 1998 / Accepted: 28 May 1998 / Published online: 19 August 1998     

Hydrogen‐bonding Structures and Energetics of Acrylamide Isomers,Tautomers, and Dimers: An ab initio Study and Spectral Analysis

Hydrogen‐bonding patterns and energetic profiles of acrylamide isomers (syn‐ and skew‐), tautomers (amide and imidic acid forms) and 13 stable dimers have been studied using the second‐order Møller–Plesset perturbation theory with basis sets up to aug‐cc‐pVTZ. Syn‐acrylamide is the most stable monomer with a reaction barrier of 4.15 kcal/mol for the syn–skew isomerization reaction. The direct amide–imidic acid tautomerization reaction is separated by too high a barrier to surpass. The most stable dimer corresponds to the planar double‐hydrogen‐bonded configuration, indicating its crucial role in determining the stability of the formed complex. Moreover, hydrogen bonds have significant effects on the infrared spectral features, which can be consistently explained solely based on the acrylamide dimeric structures and energetics without monomeric and dimeric tautomer forms. The results are useful for studying the stability of the acrylamide clusters in condensed‐phase samples such as those in food chemistry studies.     

Infrared and Raman spectra, conformational stability, ab initio calculations of structure, and vibrational assignment of 2-hexyne

The infrared spectra (3500–50 cm⁻¹) of the gas and solid and the Raman spectra (3500–50 cm⁻¹) of the liquid and solid have been recorded for 2-hexyne, CH₃–CC–CH₂CH₂CH₃. Variable temperature studies of the infrared spectrum (3500–400 cm⁻¹) of 2-hexyne dissolved in liquid krypton have also been recorded. Utilizing four anti/gauche conformer pairs, the anti(trans) conformer is found to be the lower energy form with an enthalpy difference of 74±8 cm⁻¹ (0.88±0.10 kJ/mol) determined from krypton solutions over the temperature range −105 to −150 °C. At room temperature it is estimated that there is 42% of the anti conformer present. Equilibrium geometries and energies of the two conformers have been determined by ab initio (HF and MP2) and hybrid DFT (B3LYP) methods using a number of basis sets. Only the HF and DFT methods predict the anti conformer as the more stable form as found experimentally. A vibrational assignment is proposed based on the force constants, relative intensities, depolarization ratios from the ab initio and DFT calculations and on rotational band contours obtained using the calculated equilibrium geometries. From calculated energies it is shown that the CH₃ group exhibits almost completely free rotation which is in agreement with the observation of sub-band structure for the degenerate methyl vibrations from which values of the Coriolis coupling constants, ζ, have been determined. The results are compared to similar properties of some corresponding molecules.     

Vibrational spectra, conformations, ab initio calculations and vibrational assignments of 3-pentyn-2-ol

The infrared spectra of 3-pentyn-2-ol, CH₃CCCH(OH)CH₃, have been recorded as a vapour and liquid at ambient temperature, as a solid at 78 K in the 4000–50 cm⁻¹ range and isolated in an argon matrix at ca. 5 K. Infrared spectra of the solid phase at 78 K were obtained before and after annealing to temperatures of 120 and 130 K. The IR spectra of the solid were quite similar to that of the liquid.

Raman spectra of the liquid were recorded at room temperature and at various temperatures between 295 and 153 K. Spectra of an amorphous and annealed solid were recorded at 78 K. In the variable temperature Raman spectra, some bands changed in relative intensity and were interpreted in terms of conformational equilibria between the three possible conformers. Complete assignments were made for all the bands of the most stable conformer in which OH is oriented anti to C₁(a_Me). From various bands assigned to a second conformer in which OH is oriented anti to H_gem(a_H), the conformational enthalpy differences was found to be between 0.4 and 0.8 kJ mol⁻¹. The highest energy conformer with OH anti to C₃(a_C) was not detected.

Quantum-chemical calculations have been carried out at the MP2 and B3LYP levels with a variety of basis sets. Except for small basis set calculations for which the a_H conformer had slightly lower energy, all the calculations revealed that a_Me was the low energy conformer. The B3LYP/cc-pVTZ calculations suggested the a_Me conformer as more stable by 0.8 and 8.3 kJ mol⁻¹ relative to a_H an a_C, respectively. Vibrational wavenumbers and infrared and Raman band intensities for two of the three conformers are reported from B3LYP/cc-pVTZ calculations.     

An ab initio SCF study on the tautomerisation of the 8-oxo-guanine and xanthine

All possible H₉-tautomers of 8-oxo-guanine and xanthine were studied by means of PM3 semiempirical and DFT (density functional theory) quantum chemistry methods. Additionally, the five most stable tautomers of both guanine derivatives were estimated on 3-21G, 6-31G, 6-31G^** and MP2 (6-31G^**) ab initio levels. The impact of the environment polarity on the tautomeric equilibrium was also taken into account. Among the variety of tautomeric isomers most probable are diketo forms of both studied derivatives in non-polar and polar surroundings.

The tautomeric equilibrium was unchanged after connection of the sugar backbone. The most preferred diketo forms of 8-oxo-guanosine and xanthidine are in syn conformations both in polar and non-polar environments. The increase of the syn conformations over anti ones may have the source in the formation of the internal hydrogen bonds between H′5 and N₃ atoms. The calculated values of the pseudorotation phase angle were between 144 and 180° in all cases. This corresponds to C′2-endo conformations of all optimised structures.

The N-glycosidic bond stability of most stable tautomers was compared to standard guanosine. Most tautomers of 8-oxo-guanosine and xanthidine are characterised by more stable C₁′-N₉ bond. This indicates that both these derivatives are hardly susceptible to spontaneous depurination and its removal from the DNA will depend mostly on the activity of DNA repair enzymes.     

Synthesis, structural characterization and ab initio calculation of dipyridyltetraazathiapentalene: a highly conjugative polycyclic molecule with hypervalent N–S–N bond

A highly conjugative polyheterocyclic compound, tetraazathiapentalene fused with pyridine rings, was synthesized by reacting 2-aminopyridine with carbon disulfide. The single crystal X-ray determination reveals that the molecule crystallizes in monoclinic space group C2/c, with the following unit cell dimensions: a=11.062(2), b=9.030(1), c=20.898(5) Å, β=102.98(1)°, V=2034.00(3) Å³, Z=8, and that a hypervalent N–S–N bond exists in the molecule. Ab initio calculations predict its IR and ¹H NMR spectra that are coincident with the experimental ones and reveal the bonding nature of the hypervalent N–S–N bond and the electronic structure of the molecule.     

An ab initio potential energy surface and spectroscopic constants for the XΣg state of NO2

A three-dimensional potential energy function has been calculated for the X¹Σ⁺_g state of NO⁺₂ from ab initio MRD-CI data. With this PE function, converged vibrational calculations have also been performed for ten vibrational states, with the aid of a computer program developed in the present work for this purpose. The calculated harmonic frequencies, vibrational term values and rotational constants are in good agreement with experimental data.     

Ab initio and density functional theory studies of the gas-phase hydrogen fluoride addition to ethylene. An example of catalytic effect from a second molecule of the reagent

The accuracy of three popular DFr methods (hybrid, gradient-corrected, and local) has been evaluated on the HF-assisted addition of HF to ethylene. The possibility of forming trimolecular (two HF and one ethylene) and dimolecular (one HF and one ethylene) complexes and transition state structures during the transformation of HF and ethylene in fluoroethane is discussed. An energetically favorable pathway was selected on the basis of the computed potential energy surface for these two reactions.     

O2+O2 electron transfer reactivity in the quartet state from ab initio calculation including electron correlation

The structures and properties of the O₂+O₂⁻ electron transfer system in the quartet state, both in the gaseous phase and in solution, were studied at the UMP2(full)/6-311+G* basis set level for the five selected coupling structures: two T-type, collinear, parallel, and crossing. The stabilities of these encounter complexes were compared. The activation barriers, coupling matrix elements, and the electron transfer rate at two theoretical levels (semiclassical and quantum mechanical) were also calculated for the quartet state, and the effect of the solvent medium evaluated at the self-consistent reaction field level. Results indicate that the structures and properties of the encounter complexes directly affect the mechanism and rate of the electron transfer reaction, the contact distances for this O₂…O₂⁻ were generally large (3 Å), the interaction between the donor and the acceptor was weak, and the structures are floppy. The electronic transmission factor for the reacting system, O₂+O₂⁻, was less than unity (ca. 001–0.6), thus the electron transfer reaction was non-adiabatic in nature. Analysis of the dependence of relevant kinetic parameters on various influencing factors showed that the effect of the solvent medium on the coupling matrix element was small, but that on the electron transfer rate was very large, and the gaseous phase results for the molecular geometrical parameters and their contributions can directly transfer to solution. Among the five selected transition state structures, the electron transfer was more likely to take place via the T-type and the P-type structures, the rate values from two theoretical levels were in good agreement with each other and were also very close to the experimental findings. If the various anharmonic vibrational contributions, the effect of the solvent molecular electronic structures and the interaction between the reacting species and the solvent medium are taken into account, the results can be improved.     

Molecular structure of the azidoalane [Me2N(CH2)3]AltBu(N3). X-ray structural determination and ab initio calculations

A single crystal of the azidoalane [Me₂N(CH₂)₃]AltBu(N₃) (1a), grown in a capillary using a miniature zone melting procedure, was investigated by X-ray analysis. Compound 1a (C₉H₂₁AlN₄) is a monomeric species in the solid state, which crystallizes in the monoclinic space group P2₁ with a=6.8560(14) Å, b=12.251(3) Å, c=7.786(2) Å, β=108.51(3)° and Z=2. The results of the X-ray structural determination are compared with the calculated structure of 1a (HF/6-31G(d) and B3LYP/6-31G(d) level of theory). Whereas the overall agreement between the measured and calculated structure is good, the Al–N donor-bond length differs by 11 and 12 pm at the HF and B3LYP level, respectively. To evaluate the effects of a polar environment on the molecular structure of 1a self-consistent reaction field (SCRF) calculations at the HF and B3LYP level with the 6-31G(d) basis set were performed.     

Exchange and insertion reactions involving borane adducts of phosphirane and phosphirene: a G2(MP2) ab initio investigation

Ab initio molecular orbital calculations at the G2(MP2) level have been employed to investigate the insertion and exchange reactions between unsaturated hydrocarbons and borane adducts of three-membered phosphorus heterocycles. Exchange is predicted to be energetically highly preferred over insertion, despite a large thermodynamic driving force for the latter. However, the present results suggest that the barriers for exchange are too high for the reaction to be observed experimentally. The barriers for exchange and insertion are considerably greater than those for the corresponding reactions of the related phosphiranium and phosphirenium ions. The higher barriers for exchange in the borane adducts can be rationalized in terms of the characteristic principal electronic interaction of exchange transition structures.     

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.     

NH_(2-3)~(0-1 )离解能等的高级ab initio计算与评价

FeiQi等人[1]最近对H2N－H、H2N －H的离解能以及NH3、NH2的电离能，用真空紫外光电离实验进行了重新测定，并同时得到了H2N－H 的离解能．他们还在QCISD（T）／6－311＋G（3df，ZP）／／MPZ（full）／6刁IG（d）水平（GZ理论的参考水平）上对这些数据及其它相关分子的某些性质