High-pressure Raman studies on aqueous protonated thiazole: presence of charge-enhanced C-H...O hydrogen bonds

Close interactions of the charge-enhanced C-H...O type have been analyzed both experimentally and computationally in the protonated thiazole-water system. The formation of a weak hydrogen bond was directly evidenced by a low-frequency shift of the hydrogen-bonded aromatic C-H stretch in the protonated thiazole moiety. For pure thiazole, the pressure dependence of the C-H bands yielded blue frequency shifts. The peak frequency of the aromatic C-H stretch band of protonated thiazole in a dilute D2O solution possesses an unusual nonmonotonic pressure dependence, which indicates enhanced C-H...O hydrogen-bond formation at high pressure. We performed density functional theory calculations to predict the frequency shift of the C-H stretching vibrations. The reorganization of the hydrogen-bonded network may be one of the factors to induce the blue frequency shift to the red frequency shift.     

Regulating function of methyl group in strength of CH...O hydrogen bond: a high-level ab initio study

An ab initio computational study of the regulating function of the methyl group in the strength of the CH...O hydrogen bond (HB) with XCC-H (X = H, CH3, F) as a HB donor and HOY (Y = H, CH3, Cl) as a HB acceptor has been carried out at the MP2/aug-cc-pVDZ and MP2/aug-cc-pVTZ levels. The bond lengths, interaction energies, and stretching frequencies are compared in the gas phase. The results indicate that the methyl substitution of the proton acceptor strengthens the CH...O HB, whereas that of the proton donor weakens the CH...O HB. NBO analysis demonstrates that the methyl group of the proton acceptor is electron-withdrawing and that of the proton donor is electron-donating in the formation of the CH...O HB. The electron-donation of the methyl group in the proton acceptor plays a positive contribution to the formation of the CH...O HB, whereas the electron-withdrawing action of the methyl group in the proton donor plays a negative contribution to the formation of the CH...O HB. The positive contribution of methyl group in the proton acceptor is larger than the negative contribution of methyl group in the proton donor.     

Phosphine-substrate recognition through the C-H...O hydrogen bond: application to the asymmetric Pauson-Khand reaction

A unique methine moiety attached to three heteroatoms (O, P, S) and contained in the PuPHOS and CamPHOS ligands serves as a strong hydrogen-bond donor. Nonclassical hydrogen bonding of this methine with an amido-carbonyl acceptor provides a completely diastereoselective ligand exchange process between an alkyne dicobalthexacarbonyl complex and a phosphine ligand. This weak contact has been studied by means of X-ray analysis, 1H NMR, and quantum mechanical calculations and revealed that the present interaction falls in the range of strong C-H...O=C bonds. The hydrogen-bond bias obtained in the ligand exchange process has been exploited in the asymmetric intermolecular Pauson-Khand reaction to yield the corresponding cyclization adducts in up to 94% ee.     

The possible covalent nature of N-H...O hydrogen bonds in formamide dimer and related systems: an ab initio study

The N-H...O hydrogen bonds are analyzed for formamide dimer and its simple fluorine derivatives representing a wide spectrum of more or less covalent interactions. The calculations were performed at the MP2/6-311++G(d,p) level of approximation. To explain the nature of such interactions, the Bader theory was also applied, and the characteristics of the bond critical points (BCPs) were analyzed: the electron density at BCP and its Laplacian, the electron energy density at BCP and its components, the potential electron energy density, and the kinetic electron energy density. These parameters are used to justify the statement that some of the interactions analyzed are partly covalent in nature. An analysis of the interaction energy components for the systems considered indicates that the covalent character of the hydrogen bond is manifested by a markedly increased contribution of the delocalization term relative to the electrostatic interaction energy. Moreover, the ratio of stabilizing the delocalization/electrostatic contributions grows linearly with the decreasing lengths of the hydrogen bond.     

HF(H2O)n clusters with an excess electron: ab initio study

The structures of electron-bound and neutral clusters of HF(H2O)n (n=1-3) were optimized at the level of second-order Moller-Plesset perturbation theory (MP2). Then, the energies were studied using the coupled cluster singles, doubles, and perturbative triples correction [CCSD(T)] method. The vertical detachment energies of the electron-bound clusters for n=1-3 are 60, 180, and approximately 300 meV, respectively. In the case of the n=3, two structures are competing energetically. The electron-bound clusters for n=1 and 2 are 1.5 and 1.8 kcal/mol more stable than the neutral, while that for n=3 is 0.6-0.9 kcal/mol less stable. The excess electron is stabilized in the surface-bound state of the dipole oriented structures of the hydrated acid clusters. Vibrational spectra of the electron-bound clusters are discussed.     

Resonance and aromaticity: an ab initio valence bond approach

Resonance energy is one of the criteria to measure aromaticity. The effect of the use of different orbital models is investigated in the calculated resonance energies of cyclic conjugated hydrocarbons within the framework of the ab initio Valence Bond Self-Consistent Field (VBSCF) method. The VB wave function for each system was constructed using a linear combination of the VB structures (spin functions), which closely resemble the Kekulé valence structures, and two types of orbitals, that is, strictly atomic (local) and delocalized atomic (delocal) p-orbitals, were used to describe the π-system. It is found that the Pauling-Wheland's resonance energy with nonorthogonal structures decreases, while the same with orthogonalized structures and the total mean resonance energy (the sum of the weighted off-diagonal contributions in the Hamiltonian matrix of orthogonalized structures) increase when delocal orbitals are used as compared to local p-orbitals. Analysis of the interactions between the different structures of a system shows that the resonance in the 6π electrons conjugated circuits have the largest contributions to the resonance energy. The VBSCF calculations also show that the extra stability of phenanthrene, a kinked benzenoid, as compared to its linear counterpart, anthracene, is a consequence of the resonance in the π-system rather than the H-H interaction in the bay region as suggested previously. Finally, the empirical parameters for the resonance interactions between different 4n+2 or 4n π electrons conjugated circuits, used in Randi?'s conjugated circuits theory or Herdon's semi-emprical VB approach, are quantified. These parameters have to be scaled by the structure coefficients (weights) of the contributing structures.     

Self-assembly of mercaptane-metallacarborane complexes by an unconventional cooperative effect: a C-H...S-H...H-B hydrogen/dihydrogen bond interaction

The existence of a dihydrogen bond (S-H...H-B) and its combination with a C-H...S hydrogen bond in an unusual cooperative effect are demonstrated from a combination of experimental and theoretical methods. This cooperative effect seems to be responsible for self-assembly of mercaptane-metallacarborane complexes such as closo-[3-Ru(eta6-C6H6)-8-HS-1,2-C2B9H10] (1) and closo-[3-Co(eta5-C5H5)-8-HS-1,2-C2B9H10] (3), which present identical supramolecular two-dimensional polymeric networks. The findings, besides documenting structurally the first S-H...(H-B)2 dihydrogen bond and the unconventional cooperative ability of a boron-attached SH group, prove that substituted carboranes have the potential to serve as building blocks for assembling complex structures.     

The C—H⋯O hydrogen bond. An ab initio study of nitrosomethane and its hydrogen bonded dimer

In order to study the short C—H?O contact which has been found in several nitroso compounds, a series of ab initio calculations have been performed on nitrosomethane and it's cyclic “hydrogen bonded” dimer. A potential function for the C—H?O contact has been found and the effect of this contact upon the NO and CN bonds has been studied. The potential is shallow with a minimum of only ?2.65 kcal mol^?1 for each contact and the equilibrium C?O distance is 3.524, A. These results indicate that the C—H?O bond is better described as a van der Waal's type contact than a hydrogen bond. The equilibrium length of the NO bond (R_NO) changes in a regular manner with variations in the C?O (R_HYD) distance, i.e. when R_HYD becomes shorter R_NO becomes longer. However, the variations in the CN bond lengths, which in the nitrosomethane monomer molecule is a long and weak bond, are anomalous.     

Infrared and ab initio studies of hydrogen bonding and proton transfer in the complexes formed by pyrazoles

The results of experimental studies and quantum mechanical calculations of vibrational spectra and structure of hydrogen bonded complexes formed by pyrazole (P) and 3,5-dimethylpyrazole (DMP) are presented. IR spectra of pyrazoles in solutions, gas phase, and solid state have been investigated in wide range of concentrations and temperatures. It has been found that in the gas phase both P and DMP reveal the equilibrium between monomers, dimers, and trimers. In solutions the equilibrium between monomers and trimers dominates, no bands, which can be attributed to dimers were detected. DMP retains the trimer structure in solid state, while in the case of pyrazole P, formation of the crystal provides another type of association. Geometrical and spectral characteristics of dimers and trimers, obtained by ab initio calculations, are presented and compared with experimental data.

IR spectra of solutions containing P and DMP with a number of acids (acetic and trifluoroacetic acids, pentachlorophenol, HBr) have been studied in parallel with ab initio calculations. It has been found that pentachlorophenol forms with pyrazoles complexes with one strong hydrogen bond O–HN, while NH pyrazole group remains unbonded. With carboxylic acids DMP forms 1:1 cyclic complexes with two hydrogen bonds. In the case of acetic acid, the complex in CH₂Cl₂ solution reveals molecular structure with OHN and C=OHN bonds, in accordance with results of the calculations. For trifluoroacetic acid, the calculations predict the molecular structure to be energetically more stable in the case of the isolated binary complex (in gas phase), while the experimental spectrum of CH₂Cl₂ solution gives an evidence of the proton transfer with formation of the cyclic ionic pair with two NH⁺O⁻ bonds. The agreement with experimental results can be improved by taking into account the influence of environment in the framework of Onsager or Tomasi models. The shape of proton potential function of the complexes and medium effect on its parameters, resulted from experimental data and calculations, are discussed. It has been found that the number of potential minima and their relative depth depend strongly on the method of calculations and the basic set. Under excess of trifluoroacetic acid, the formation of 2:1 acid–DMP complex has been detected. Spectral characteristics and results of calculations point to the cyclic structure of this complex, which includes homoconjugated bis-trifluoroacetate anion and DMPH⁺ cation. With HBr both studied pyrazoles were found to form ionic complexes including one or two pyrazole molecules per one acid molecule and correspondingly monocation or homoconjugated cation BHB⁺.     

Solvent effect on the isomeric equilibrium of carbohydrates: the superior ability of 2,2,2-trifluoroethanol for intramolecular hydrogen bond stabilization.

The higher aptitude of 2,2,2-trifluoroethanol for intramolecular hydrogen bond stabilization in carbohydrates is suggested. This belief, arising from the analysis by 1H NMR spectroscopy of the solvent effect of D2O, DMSO-d6, and 2,2,2-trifluoroethanol-d3 on the isomeric equilibrium of caryophyllose, was also confirmed by shifting of the conformational equilibria of beta-ribopyranose and of its methyl glycoside.     

Ab initio studies of hydrogen bond formation in methyl cyanide or methyl isocyanide and methanol systems

CH₃CN ? HOCH₃ and CH₃NC ? HOCH₃ hydrogen-bonded systems have been studied theoretically by ab initio MO methods using a 4–31 G basis set at their equilibrium geometries. The stabilization energies of these hydrogen bonds are 5.4 and 5.9 kcal/mol, respectively. The nature of these hydrogen bonds is discussed in the light of frontier orbital theory and the topological properties of the charge density of the chemical bond.     

The C-H...O and C-H...N intramolecular hydrogen bonds in betainealdehydes of azoles containing the pyridinium cation

The comparison of the values of the chemical shifts of the pyridinium protons in the ylides of -dicarbonyl compounds and in betainealdehydes of thiazole and imidazole established the presence of the intramolecular C-H...O and C-H...N hydrogen bond between the -protons of the pyridinium and the oxygen atoms of the formyl group and the nitrogen of the amide fragment in the anionoid part of the betaine. The conclusion was confirmed by the varying influence of the effects of protonation on the character of the deshielding of the - and -protons.Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 5, pp. 626–628, May, 1989.     

Influence of N-H...O and C-H...O hydrogen bonds on the 17O NMR tensors in crystalline uracil: computational study

We report a computational study for the 17O NMR tensors (electric field gradient and chemical shielding tensors) in crystalline uracil. We found that N-H...O and C-H...O hydrogen bonds around the uracil molecule in the crystal lattice have quite different influences on the 17O NMR tensors for the two C=O groups. The computed 17O NMR tensors on O4, which is involved in two strong N-H...O hydrogen bonds, show remarkable sensitivity toward the choice of cluster model, whereas the 17O NMR tensors on O2, which is involved in two weak C-H...O hydrogen bonds, show much smaller improvement when the cluster model includes the C-H...O hydrogen bonds. Our results demonstrate that it is important to have accurate hydrogen atom positions in the molecular models used for 17O NMR tensor calculations. In the absence of low-temperature neutron diffraction data, an effective way to generate reliable hydrogen atom positions in the molecular cluster model is to employ partial geometry optimization for hydrogen atom positions using a cluster model that includes all neighboring hydrogen-bonded molecules. Using an optimized seven-molecule model (a total of 84 atoms), we were able to reproduce the experimental 17O NMR tensors to a reasonably good degree of accuracy. However, we also found that the accuracy for the calculated 17O NMR tensors at O2 is not as good as that found for the corresponding tensors at O4. In particular, at the B3LYP/6-311++G(d,p) level of theory, the individual 17O chemical shielding tensor components differ by less than 10 and 30 ppm from the experimental values for O4 and O2, respectively. For the 17O quadrupole coupling constant, the calculated values differ by 0.30 and 0.87 MHz from the experimental values for O4 and O2, respectively.     

Hydrogen bond studies : 79. Correlation curves for properties of hydrogen bonded water molecules based on ab initio calculations

Correlation curves have been derived from previous ab initio MO-LCAO-SCF calculations made on water molecules in hydrates. The OH-stretching frequency shifts have been correlated with: (a) ratios of the intensity of v?v_OH for bonded water to that for free water, (b) shifts in the OH-distances and (c) quadrupole coupling constants for deuterium in D₂O. Shifts in quadrupole coupling constants are also correlated with shifts in OH-distances. Comparisons have been made with experimental data and the agreement is found to be satisfactory.     

Valence-bond determination of bond lengths of polycyclic aromatic hydrocarbons: comparisons with recent experimental and ab initio results

Pauling's valence-bond (VB) method for determining bond lengths is compared to ten recent literature experimental and theoretical results and is shown to give comparable results. His method only requires computation of the number of Kekulé (K) and Dewar structures (DS) of conjugated hydrocarbons. Both K and DS are obtained from the last two coefficients of the matching polynomial which is also used to obtain topological resonance energy (TRE). A molecular fragmentation method is given for determining DS of essentially disconnected polycyclic aromatic hydrocarbons (PAHs). Both Kekuléan alternant and nonalternant PAHs, including essentially disconnected and non-Kekuléan systems, have bond lengths that are easily determined by this method.     

Structural and electronic properties of boron-doped lithium clusters: ab initio and DFT studies

The lowest-energy structures and electronic properties of the BLi(n) (n = 1-7) clusters are reported using the B3LYP, MP2, and CCSD(T) methods with the aug-cc-pVDZ basis set. Though the results at the B3LYP level agree well with those at the CCSD(T) level, the MP2 method is rather unsatisfactory. The first three-dimensional ground state in the BLi(n) clusters occurs for BLi(4), and the impurity B atom is seen to be trapped in a Li cage from the BLi(6) cluster onwards. The evolution of the binding energies, vertical ionization potentials, and polarizability with size of cluster shows the BLi(5) cluster to be most stable among the BLi(n) clusters. Besides, the BLi(5) cluster is also found to have the largest reaction enthalpy (49.8 kcal/mol) upon losing a Li atom, which is different from the previous prediction. The unique stability of the 8-valence electron BLi(5) can be understood from the cluster electronic shell model (CSM). However, in contradiction to the prediction of the CSM, the 2s level is filled prior to the 1d level in the BLi(n) clusters.     

Two-way effects between hydrogen bond and intramolecular resonance effect: an ab initio study on complexes of formamide and its derivatives with water

Ab initio calculations up to MP2/aug-cc-pVTZ//MP2/cc-pVTZ level, including natural charge population and natural resonance theory analyses, have been carried out to study the two-way effects between hydrogen bond (H-bond) and the intramolecular resonance effect by using the H-bonded complexes of formamide ( FAO) and its derivatives ( FAXs, X represents the heavy atoms in the substituent groups, CH 2, NH, SiH 2, PH, and S) with water as models. Unlike NH 3 and NH 2CH 3 which prefer being H-bond acceptors ( HA) to form H-bond with water, the amino groups in the six monomers, because of the resonance effect, prefer being H-bond donors ( HD) rather HA. Six monomers can all form HD complexes with water, and only two ( FAC and FASi) with the weakest resonance effect are able to form HA complexes with water. The HD H-bond and resonance effect enhance each other (positive two-way effects) whereas the HA H-bond and resonance effect weaken each other (negative two-way effects). The H-bond energies in the six HD complexes are nearly linearly correlated with the weights of the dipolar resonance in Pauling's model and the N-C bond lengths; the correlation coefficients are 0.91 and 0.93, respectively. The positive two-way effects also happens in FAO-water complex, in which the FAO CO group serves as HA ( HA co ). Interestingly, when the HD and HA co H-bonds are present in FAO H-bond complex simultaneously, the enhancements are much more significant, and the energies of the two types of H-bonds are much larger than those when only one type of H-bond is present, reflecting the cooperative effects. By using the knowledge to the two-way effects, we computationally designed a molecule ( FAO- BH 3 ) to increase H-bond energy. Because of the oxygen lone pair donation to the empty pi orbital of BH 3, FAO- BH 3 has a much stronger resonance effect than FAO. As a result, the H-bond energy (-5.55 kcal/mol) in HD H 2O ... FAO- BH 3 complex is much greater than the -3.30 kcal/mol in the HD H 2O...FAO complex. The two-way effects can be rationalized as follows: the resonance effect leads to intramolecular charge shifts in the monomers which facilitate or prevent the charge donation or acceptation of their H-bond partners. Therefore, the H-bonds are strengthened or weakened. In reverse, the charge donations or acceptations of their H-bond partners facilitate or prevent the intramolecular charge shifts in the monomer moieties, which enhance or weaken the resonance effect. The understanding to the two-way effects may be helpful in drug design and refinement by modulating the H-bond strength and in building empirical H-bond models to study large biological molecules. The study supports Pauling's resonance model.     

Infrared and ab initio studies of conducting molecules: 2,5-diamino-3,6-dichloro-1,4-benzoquinone

2,5-Diamino-3,6-dichloro-1,4-benzoquinone has been synthesized by modifying the procedure reported in literature. Its IR spectrum has been recorded in the solid phase in the range 4000-400cm(-1). Ab initio calculations have been performed using Gaussian '03 program to compute optimized geometry, harmonic vibrational frequencies along with intensities in IR and Raman spectra and atomic charges at RHF/6-31+G*, B3LYP/6-31+G* and B3LYP/6-311++G** levels. To make vibrational analysis Gaussian View software was used. The optimized molecular structure is found to possess C2h point group symmetry. The observed IR frequencies have been assigned to different modes taking C2h molecular symmetry with the help of pictorial view of normal modes. From the magnitude of the observed frequencies corresponding to the NH2 stretching motions an indication of H-bonding is noticed. From geometrical parameters of the molecule it appears that two parallel sets of conjugated strands are formed in this molecule providing a route to conduct charges. The N-H bonds facing towards chlorine atoms are found to be shorter than those facing towards oxygen atoms indicating the presence of H-bonding between hydrogen atom of an NH2 group and carbonyl (quinoid) oxygen atom.     

Reinvestigation of intramolecular hydrogen bond in malonaldehyde derivatives: An ab initio,AIM and NBO study

The RAHB systems in malonaldehyde and its derivatives at MP2/ 6‐311++G(d,p) level of theory were studied and their intramolecular hydrogen bond energies by using the related rotamers method was obtained. The topological properties of electron density distribution in O? H···O intramolecular hydrogen bond have been analyzed in term of quantum theory of atoms in molecules (QTAIM). Correlations between the H‐bond strength and topological parameters are probed. The results of QTAIM clearly showed that the linear correlation between the electron density distribution at HB critical point and RAHB ring critical point with the corresponding hydrogen bond energies was obtained. Moreover, it was found a linear correlation between the electronic potential energy density, V(r_cp), and hydrogen bond energy which can be used as a simple equation for evaluation of HB energy in complex RAHB systems. Finally, the similar linear treatment between the geometrical parameters, such as O···O or O? H distance, and Lp(O)→σ*_OH charge transfer energy with the intramolecular hydrogen bond energy is observed. © 2010 Wiley Periodicals, Inc., Int J Quantum Chem, 2011