Excited-state N-H···S hydrogen bond between indole and dimethyl sulfide: time-dependent density functional theory study

The intermolecular hydrogen bond N-H···S between indole and dimethyl sulfide is theoretically investigated. The formation of N-H···S hydrogen bonds between indole and dimethyl sulfide in ground and excited states is confirmed by the analysis of geometric structure, Mulliken charge, and infrared spectra. The result shows that the S(1) state of hydrogen bonded indole-Me(2)S is mainly a charger transfer state, while the S(2) state is a local excited state and also the state corresponding to the experiment. More importantly, it is demonstrated that the intermolecular hydrogen bond N-H···S of indole-Me(2)S is strengthened in the S(1) and S(2) states compared to that in ground state. Moreover, the strengthening of intermolecular N-H···S hydrogen bond in excited state induces the fluorescence emission peak of indole shifts to the red. These findings may provide insights for further study of N-H···S hydrogen bonds existing in many biomolecular systems.     

Spectroscopic and theoretical evidence for the cooperativity between red-shift hydrogen bond and blue-shift hydrogen bond in DMSO aqueous solutions

The cooperativity between red-shifted hydrogen bond and blue-shifting hydrogen bond in dimethyl sulfoxide aqueous solutions was studied by methods of quantum chemical calculations and infrared spectroscopy. The water molecule plays a different role in two types of hydrogen bonds: proton-donor in red-shifted hydrogen bond and proton-acceptor in blue-shifting hydrogen bond. The cooperativity is not prominent if the ring structure is formed through the OHcdots, three dots, centeredOS H-bond and CHcdots, three dots, centeredO(w) H-bond. However, if the methyl groups in the above ring structure participate in second CHcdots, three dots, centeredO(w) H-bond, the cooperativity is increased. The second CHcdots, three dots, centeredO(w) H-bond enhances OHcdots, three dots, centeredOS H-bond and weakens the first CHcdots, three dots, centeredO(w) H-bond.     

Temperature dependence of the infrared spectra of the hydrogen bond in the gaseous ClH … O(CH3)2 complex

A quantitative theory of hydrogen bonding has been applied to the temperature dependence of the IR spectra of a simple hydrogen bond in the hydrochloride/dimethyl ether complex. An anharmonic potential for the hydrogen bond vibration is required to simulate the quantitative changes introduced by the temperature variation.     

Synergistic effect between metal coordination and hydrogen bonding in phosphate and halide recognition

The equilibrium constant for binding of dimethyl phosphate to a Co(III) complex in water increases from 6.2 to 210 M-1 upon addition of a single hydrogen bond between the bound phosphate and the metal complex. Crystal structure reveals that the hydrogen bond distance is 1.96 A. The synergistic effect between metal coordination and hydrogen bonding can also be observed for fluoride binding but not for bromide binding.     

Mechanism of the interaction of dimethyl sulfoxide with N-methylmorpholine-N-oxide Monohydrate

The interaction of dimethyl sulfoxide with N-methylmorpholine-N-oxide (NMMO) monohydrate was studied by the NMR relaxation method. The mobility of DMSO molecules in the presence of NMMO monohydrate decreases due to the formation of a hydrogen bond between the water molecule of the monohydrate and a DMSO molecule. At the same time, the mobility of protons in the NMMO monohydrate increases due to a decrease in the strength of the water-NMMO hydrogen bond.     

二甲基亚砜对乙酸气相色谱保留时间的影响及其机理

通过气相色谱、红外光谱分析和量子化学计算,探究溶于二甲基亚砜（DMSO）中乙酸保留时间发生波动的原因。 结果显示,乙酸保留时间变化与DMSO体积等量递增呈线性关系,R²=0.99301;根据红外光谱分析得出,DMSO和乙酸之间生成了氢键,以DMSO-乙酸分子的形式通过色谱柱;根据Gaussian09程序计算结果,DMSO电子密度大的部分给予电子,与乙酸之间形成了氢键,而DMSO电子密度小的部分容易获得电子与具有强偶极矩的色谱柱固定液聚乙二醇产生作用力,吸附在固定液上。因此,在上述一系列复杂的分子间作用力的共同影响下,乙酸保留时间发生了波动,且随着溶剂DMSO体积比增加,乙酸保留时间不断延长。     

C[bond]H- - -O hydrogen bonds in beta-sheetlike networks: combined X-ray crystallography and high-pressure infrared study

Close interactions of the C(alpha)[bond]H- - -O type have been analyzed via X-ray crystallography and high-pressure infrared spectroscopy. The results demonstrate that the C(alpha)[bond]H- - -O interactions can offer an additional stability to the beta-sheet formation. X-ray structural data suggest that while 1-acetamido-3-(2-pyrimidinyl)-imidazolium bromide exhibits a bilayer stacking, the PF(6)(-) salt reveals a beta-sheetlike pattern. The appearance of the free-NH infrared absorption indicates that the conventional N[bond]H- - -O or N[bond]H- - -N hydrogen bonds do not fully dominate the packing for the PF(6)(-) salt. The high-pressure infrared study suggests that the C(alpha)[bond]H- - -O hydrogen bonds are the important determinants for the stability of the PF(6)(-) salt. This study also verifies that the imidazolium C[bond]H stretching frequency shifts to a longer wavelength upon the formation of the C[bond]H- - -O hydrogen bonds.     

FR-IR spectroscopic studies of polyurethanes—Part II. Ab initio quantum chemical studies of the relative strengths of “carbonyl” and “ether” hydrogen-bonds in polyurethanes

Ab initio quantum chemical computations were carried out on (a) dimethyl ether, (b) N-methyl formamide, (c) dimethyl ether-N-methyl formamide complex, and (d) N-methyl formamide dimer to compute the strengths of hydrogen bonds (H-bonds) between the NH groups and CO and ether COC groups. The basis set used was the 3-21G set of the GAUSSIAN 80 program obtained from QCPE, Bloomington, IN. Variations in the strengths of these two H-bonds with the N . . O distance (where O is either carbonyl or ether group oxygen) were studied and found to be similar in behavior. The strength of the “ether” hydrogen bond is computed to be 10.32 kcal mol⁻¹, which is quite significant compared to the value of 10.11 kcal mol⁻¹ for the more accepted “carbonyl” hydrogen bond. The “ether” hydrogen bond is found to be directional, specific and non-negligible. Work with two more basis sets has indicated that the results so obtained are not dependent on their choice. Possible importance of such a hydrogen bond in polyurethanes, inhalation anesthetics, and depsi-peptides is indicated.     

Infrared spectrum of the CH3OCH2 radical in solid argon

The methoxymethyl radical, CH(3)OCH(2), is prepared via hydrogen photodissociation from dimethyl ether during codeposition of CH(3)OCH(3) in excess argon at 4 K with laser-excited metal plume radiation. The spectrum of this radical is characterized by four infrared absorptions at 1468.1, 1253.9, 1226.6, and 944.4 cm(-1), which are assigned by deuterium substitution as well as frequency and intensity calculations using density functional theory. The O-CH(2) bond length is calculated to be 0.07 ? shorter than the CH(3)-O bond due to additional π bonding interactions. In the matrix near-UV irradiation destroys the CH(3)OCH(2) radical with the formation of HCO radical and CH(4), which is different from the decomposition mechanism of CH(3)OCH(2) radical to H(2)CO and CH(3) radical proposed for the gas phase process.     

Hydrogen bonding and the cryoprotective properties of glycerol/water mixtures

Molecular dynamics simulations and infrared spectroscopy were used to determine the hydrogen bond patterns of glycerol and its mixtures with water. The ability of glycerol/water mixtures to inhibit ice crystallization is linked to the concentration of glycerol and the hydrogen bonding patterns formed by these solutions. At low glycerol concentrations, sufficient amounts of bulk-like water exist, and at low temperature, these solutions demonstrate crystallization. As the glycerol concentration is increased, the bulk-like water pool is eventually depleted. Water in the first hydration shell becomes concentrated around the polar groups of glycerol, and the alkyl groups of glycerol self-associate. Glycerol-glycerol hydrogen bonds become the dominant interaction in the first hydration shell, and the percolation nature of the water network is disturbed. At glycerol concentrations beyond this point, glycerol/water mixtures remain glassy at low temperatures and the glycerol-water hydrogen bond favors a more linear arrangement. High glycerol concentration mixtures mimic the strong hydrogen bonding pattern seen in ice, yet crystallization does not occur. Hydrogen bond patterns are discussed in terms of hydrogen bond angle distributions and average hydrogen bond number. Shift in infrared frequency of related stretch and bend modes is also reviewed.     

Combining hydrogen-bonding complexation in solution and hydrogen-bonding-directed layer-by-layer assembly for the controlled loading of a small organic molecule into multilayer films

We have combined hydrogen-bonding complexation in solution and layer-by-layer assembly for the controlled loading of a water-insoluble small organic molecule, bis-triazine (DTA), an azobenzene derivative containing multiple hydrogen bond donors and acceptors, into layer-by-layer multilayer films of poly(acrylic acid) and diazo-resin. UV-visible spectroscopy indicates that DTA has been loaded into multilayer films, with the loading amount increasing linearly with the number of layers. The loading amount can be well tuned either by changing the concentration of DTA or the solvent composition at the complexation step. Fourier transform infrared spectroscopy has revealed that both the complexation and layer-by-layer assembly are driven by hydrogen bonding. After photo-cross-linking and immersion in dimethyl sulfoxide to release DTA, the film can serve as an absorbent for DTA. This study provides a new unconventional layer-by-layer assembly that combines hydrogen-bonding complexation in solution and hydrogen-bond-driven layer-by-layer assembly at the interface. This method provides a new route to load a variety of water-insoluble functional organic molecules into layer-by-layer films.     

Computational evidence for methyl-donated hydrogen bonds and hydrogen-bond networking in 1,2-ethanediol-dimethyl sulfoxide

The 1:1 complex of 1,2-ethanediol with dimethyl sulfoxide was studied using density functional theory. A network of three hydrogen bonds holds the complex together, including two in which each methyl group donates to the same hydroxyl oxygen. Four lines of evidence support the existence of methyl-donated hydrogen bonds. The interaction energy is 36 +/- 5 kJ/mol using Becke's three parameter hybrid theory with the 1991 nonlocal correlation functional of Perdew and Wang, and a moderately large basis set (B3PW91/6-311++G**//B3PW91/6-31+G**). To determine the energy of each hydrogen bond, a relaxed potential energy scan was performed in a smaller basis set to break the weaker hydrogen bonds by forced systematic rotation of the methyl groups. Two cross-checking analyses show cooperative effects that cause individual hydrogen bond energies in the network to be nonadditive. When one methyl hydrogen bond is broken, the remaining interactions stabilize the complex by storing an additional 2-3 kJ/mol. With all hydrogen bonds intact, the O[bond]H...O[bond]S hydrogen bond contributes 26 +/- 2 kJ/mol stability, and each weak methyl bond stores 5 +/- 2 kJ/mol.     

Relative log P and solution structure for small organic solutes in the chloroform/water system using monte carlo methods

Relative log P values of dimethylether to methanol and dimethylamine to methylamine were calculated in the chloroform/water system using Monte Carlo simulations and statistical perturbation theory. Correct ordering of the calculated relative log Ps was obtained for the two pairs although the method leads to an overestimation of these values. In aqueous solution, both dimethyl ether and dimethylamine solutes are proton acceptors forming a single hydrogen bond to water. Dimethylamine forms a stable N? H-Ow hydrogen bond while the water hydrogen is poorly localized in the O? H-Ow bond to the ether. In chloroform, the solvent molecules are less ordered around the solutes than was found around methanol and methylamine.     

Hydrogen-bonded liquid crystals built from hydrogen-bonding donors and acceptors. Infrared study on the stability of the hydrogen bond between carboxylic acid and pyridyl moieties

The stability of a hydrogen-bonded complex built through inter-molecular hydrogen bonding between carboxylic acid and pyridine fragments has been examined using infrared spectroscopy. Infrared spectra as a function of temperature have been recorded for the 1:1 complex of 4-hexyloxybenzoic acid and trans-4-propoxy-4'-stilbazole from the crystalline state to the isotropic state. A dependence of the stability of the hydrogen bond on molecular orientation is observed clearly in the infrared spectra. The spectra also suggest that the hydrogen bond is an unionized type with a double minimum potential energy.     

FTIR analysis of dimethyl ether decomposition products following charge transfer ionization with Ar+ under matrix isolation conditions

Fourier transform infrared spectroscopic analysis has been performed on argon matrices formed following electron bombardment of argon/dimethyl ether mixtures. Products consistent with the ionization and subsequent fragmentation of dimethyl ether cation have been observed. Following ionization of dimethyl ether, fragmentation occurs that is consistent with ionization energy greater than 15 eV due to efficient charge transfer from dimethyl ether to Ar(+) as the major ionization process. Major products observed in the infrared spectra are methane, formaldehyde, HCO(*), CO, and Ar(2)H(+). These products are consistent with the known fragmentation of photoionized dimethyl ether in a 15-16 eV ionization energy range. However, the observation of dehydrogenated products is consistent with additional abstraction of hydrogen from proximally located species isolated within the matrix. Analogous experiments employing CD(3)OCH(3) give similar results, and the observed isotopically substituted products are consistent with the proposed fragmentation pathways.     

FTIR study of hydrogen bonding of stearic acid with ethanol, dimethyl sulfoxide,and acetonitrile in supercritical CO_2

FTIR spectroscopy was used to study the hydrogen bonding of stearic acid with ethanol, dimethyl sulfoxide (DMSO),and acetonitrile in supercritical CO_2 at 318.15 K, and 12.5 and 16.5 MPa. The concentrations of the cosolvents range from 0—0.6 mol·L~(-1). The area percentage of absorption bands for hydrogen-bonded and nonhydrogen-bonded species was obtained from the IR spectra. The acid and the cosolvents can form hydrogen bond even when their concentrations are very low. At fixed solute concentration, the extent of hydrogenbonding increases with cosolvent concentration. At higher ethanol concentrations, it seems that one stearic acid molecule can hydrogen bond with more than one ethanol molecules simultaneously. It is seen that the strength of the hydrogen bond formed by the acid and the cosolvents is in the order: DMSO>ethanol>acetonitrile.     

Hydrogen bonding in selected vanadates: a Raman and infrared spectroscopy study

Water plays an important role in the stability of minerals containing the deca and hexavanadates ions. A selection of minerals including pascoite, huemulite, barnesite, hewettite, metahewettite, hummerite has been analysed. Infrared spectroscopy combined with Raman spectroscopy has enabled the spectra of the water HOH stretching bands to be determined. The use of the Libowitsky type function allows for the estimation of hydrogen bond distances to be determined. The strength of the hydrogen bonds can be assessed by these hydrogen bond distances. An arbitrary value of 2.74A was used to separate the hydrogen bonds into two categories such that bond distances less than this value are considered as strong hydrogen bonds whereas hydrogen bond distances greater than this value are considered relatively weaker. Importantly infrared spectroscopy enables the estimation of hydrogen bond distances using an empirical function.     

Coupling of intramolecular hydrogen bonding to the cis-to-trans isomerization of a proline imide bond of small model peptides

A relationship between intramolecular hydrogen bonding and the cis-trans isomerization of a proline imide bond for proline-containing short peptides were studied by proton NMR and infrared spectroscopy using DMSO-d6/CDCl3 mixed solvents. The percentage of the trans form increases with increasing fraction of CDCl3 in the mixed solvents except for compounds without possibility of intramolecular hydrogen bonding. Chemical shift variations of amide protons with solvent mixing ratios were found to be useful for judging whether the amide protons take part in the intramolecular hydrogen bonding to a considerable degree or not. These results and infrared spectra were used to specify intramolecularly hydrogen bonded structures of the peptides. Formation of the 10-membered or 13-membered hydrogen bonded ring which includes the carbonyl group precedent to the prolyl residue facilitates the cis-to-trans isomerization and these hydrogen bonded rings are strong enough to restrict the proline imide bond to the trans form in CDCl3 solution. On the other hand, a 7-membered hydrogen bonded ring is not so effective in restricting the proline imide bond.     

Reactions of dimethoxycarbene with dimethyl 2,3-dicycanomaleate and fumarate

Dimethoxycarbene, in 2-fold or larger excess, reacts with dimethyl 2,3-dicyanomaleate and fumarate to afford an unstable dihydrofuran 1:1 adduct that was shown to react further with the carbene to afford a 2:1 adduct reported previously. In an astonishing process, the dihydrofuran reacts with water to afford a mixture of (d,l and meso) dimethyl 2,3-dicyanosuccinates in which both hydrogen atoms of water were used to hydrogenate a C=C bond.