Effects of dynamical couplings in hydrogen bond systems in the polarized IR spectra of 3-hydroxybenzaldehyde and 4-hydroxybenzaldehyde crystals

This paper presents the investigation results of the polarized IR spectra of 3-hydroxybenzaldehyde and 4-hydroxybenzaldehyde crystals measured at 293 and 77 K. Analysis of the results concerned the linear dichroic, H/D isotopic and temperature effects observed in the spectra of the hydrogen and deuterium bond at the frequency ranges of the ν_O–H and the ν_O–D bands, respectively. The main spectral properties of the crystals were interpreted in terms of the “strong-coupling” theory on the basis of the hydrogen bond dimer model. The spectra revealed that the strongest vibrational exciton coupling involved the closely-spaced hydrogen bonds, each belonging to a different chain of associated molecules. The reason for two different crystalline systems, are characterized by almost identical ν_O–H and ν_O–D band shapes, is explained. It was proved that a random distribution of the protons and deuterons took place in the lattices of the isotopically diluted crystals.     

Polarized IR spectra of the hydrogen bond in acetic acid crystals

The paper presents the results of our investigations of the polarized IR spectra of the hydrogen bond in crystals of acetic acid, CH₃COOH, as well as in crystals of three deuterium isotopomers of the compound: CH₃COOD, CD₃COOH and CD₃COOD. The spectra were measured at 283 K and at 77 K by a transmission method using polarized light. Theoretical analysis of the results concerned the linear dichroic effects, together with the H/D isotopic and temperature effects observed in the solid-state IR spectra of the hydrogen and of the deuterium bond at the frequency ranges of the ν_O–H and the ν_O–D bands, respectively. Basic spectral properties of the crystals can be interpreted satisfactorily in terms of one of the quantitative theories of the IR spectra of the hydrogen bond, i.e. the “strong-coupling” theory or the “relaxation” theory when a hydrogen bond dimer model is used. From the spectra obtained it resulted that the strongest exciton coupling involved the closely spaced hydrogen bonds, belonging to different chains of associated acetic acid molecules. These results contradict the former explanation of the spectra within a model, which assumed a strong vibrational exciton coupling between four hydrogen bonds in a unit cell. On analyzing the spectra of isotopically diluted crystalline samples of acetic acid it has been proved that a non-random distribution of the protons and deuterons takes place in the hydrogen bond lattices. This non-conventional isotopic effect is a result of dynamical co-operative interactions involving hydrogen bonds in the system. Simultaneously it has been also found that in an individual hydrogen bonded chain in the crystals, distribution of the hydrogen isotope atoms H and D was fully random. The H/D isotopic “self-organization” mechanism most probably involves a pair of hydrogen bonds from each unit cell where each hydrogen bond belongs to a different chain.     

Influence of molecular electronic properties on the IR spectra of dimeric hydrogen bond systems: polarized spectra of 2-hydroxybenzothiazole and 2-mercaptobenzothiazole crystals

We have studied the polarized IR spectra of the hydrogen-bonded molecular crystals of 2-hydroxybenzothiazole (HBT) and 2-mercaptobenzothiazole (MBT). The crystal structure of 2-hydroxybenzothiazole was determined by X-ray diffraction. The polarized spectra of the crystals were measured, in the frequency ranges of the ν_N-H and ν_N-D bands, at room temperature, and at 77 K. In both systems an extremely strong H/D isotopic effect in the spectra was observed, involving reduction of the well-developed ν_N-H band fine structure to a single prominent ν_N-D line only. The two ν_N-H bands were also shown to exhibit almost identical properties, band shapes, temperature and dichroic properties included. The spectra were quantitatively reconstituted, along with the strong isotopic effect, when calculated using the ‘strong-coupling’ theory, assuming the centrosymmetric dimers of HBT or MBT to be the structural units responsible for the crystalline spectral properties. The similarity of the spectra of the two crystalline systems was considered to be a result of longer-distance couplings between the proton vibrations in the dimers, via the aromatic ring electrons. When investigating the ‘residual’ ν_N-H band shapes for crystals isotopically diluted by deuterium, we observed some ‘self-organization’ effects in the spectra, indicating the energetically favored presence of two identical hydrogen isotopes in each hydrogen bond dimer.     

Isotope Effect on Fractional Dilatability of Solute Water as an Indicator of the H-Bonding Ability of an Aprotic Dipolar Solvent

Based on experimental data about the density of very dilute solutions of H₂O and D₂O in 1,4-dioxane, hexamethylphosphotriamide, and acetonitrile at 278.15 K-318.15 K we determined the limiting partial molar volume (error ±0.03 cm³·mol⁻¹) and dilatability of the water component. A correlation equation has been derived which relates the isotope effect (IE) in the limiting excess partial molar dilatability of water to the energy of the H₂O-solvent hydrogen bond. The stated IE may be used as a “structural indicator” for evaluating the ability of an aprotic dipolar solvent to undergo specific interactions through hydrogen bonding.Original Russian Text Copyright © 2004 by E. V. Ivanov, V. K. Abrosimov, and E. Yu. Lebedeva__________Translated from Zhurnal Strukturnoi Khimii, Vol. 45, No. 6, pp. 1020–1026, November–December, 2004.     

Theoretical study of the νO–H IR spectra for the hydrogen bond dimers from the polarized spectra of glutaric and 1-naphthoic acid crystals: Fermi resonances effects

A full quantum theoretical model is proposed to study the ν_O–H experimental IR line shapes of polarized crystalline glutaric and 1-naphthoic acid dimer crystals at room and liquid nitrogen temperatures. This work is an application of a previous model [M. E-A. Benmalti, D. Chamma, P. Blaise, and O. Henri-Rousseau, J. Mol. Struct. 785 (2006) 27–31] by accounting for Fermi resonances. The approach is dealing with the strong anharmonic coupling, Davydov coupling, multiple Fermi resonances between the first harmonics of some bending modes and the first excited state of the symmetric combination of the two ν_O–H modes and the quantum direct and indirect relaxation.Numerical results show that mixing of all these effects allows to reproduce satisfactorily the main features of the experimental IR line shapes of crystalline hydrogenated and deuterated glutaric and 1-naphthoic acid crystals and are expected to provide efficient of Fermi resonances effects.     

An experimental study on the “sequential order” rules in generalized two-dimensional correlation spectroscopy

Following our theoretical analysis on the “sequential order” rules in generalized two-dimensional (2D) correlation spectroscopy (H. Huang, Anal. Chem. 79 (2007) 8281–8292), an experimental study was conducted to test the “sequential order” rules using the FT-NIR data of poly(3-hydroxybutyrate) (PHB)/poly(l-lactic acid) (PLA) blends under uniaxial elongation and parallel polarization. The local sequential order concept proposed for the generalized two-dimensional (2D) correlation spectroscopy is now more clearly stated; “the intensity change at ν1 occurs predominantly before ν2” means that the starting time of the intensity change at ν1 is prior to that at ν2. It is this local sequential order which reflects the real and intuitive sequential order between two events in generalized situations. It has been found that the integrated/overall sequential order results obtained from the 2D correlation analysis may be contradictory to the intuitive local sequential order. In addition, different integrated/overall sequential orders could be obtained by selection of different sampling intervals from a certain set of experimental data, or choosing different number of the contours for the same sampling interval. These new experimental findings are a perfect reinforcement to our previous theoretical study and have further demonstrated the uncertainty of applying the “sequential order” rules in generalized 2D correlation spectroscopy.     

Infrared diode laser spectroscopy of the ν = 2 band of AlF

A vibrational–rotational spectrum of the ν = 2 transitions of a high-temperature molecule AlF was observed between 1490 and 1586 cm⁻¹ with a diode laser spectrometer. Measurements were made on the ν = 3–1, 4–2, 5–3 and 8–6 bands at a temperature of 900 °C. Measured spectral lines were fitted to effective band constants ν₀, B_ν and D_ν for each band. Present measurements were made with only one Pb-salt laser diode. Physical significance of the effective band constants is discussed.     

The O–H···O, O–H···N and C–H···O hydrogen bonds in 1,4-dimethylpiperazine mono-betaine monohydrate

1,4-Dimethylpiperazine mono-betaine (1-carboxymethyl-1,4-dimethylpiperazinium inner salt, MBPZ) crystallizes as monohydrate. The crystals are orthorhombic, space group Pccn. Two MBPZ molecules and two water molecules form a cyclic oligomer, (MBPZ·H₂O)₂. The O–H···O and O–H···N hydrogen bonds are of 2.769(1) and 2.902(1) Å, respectively. The dimers interact with the neighboring molecules through the C–H···O hydrogen bonds of 3.234(1) Å. The piperazine ring assumes a chair conformation with the N(4)–CH₃ and N⁺(1)–CH₂COO⁻ groups in the equatorial position and the N⁺(1)–CH₃ group in the axial one. The FTIR spectrum is compared with that calculated by the B3LYP/6-31G(d,p) level of theory.     

'Self-organization' processes in proton and deuteron mixtures in open-chain hydrogen bond systems: polarization IR spectra of 4-mercaptopyridine crystals.

This paper is devoted to IR spectroscopic studies in polarized light of 4-mercaptopyridine (4-MPD) hydrogen-bonded crystals. These studies were preceded by determination of the 4-mercaptopyridine X-ray structure. Polarization spectra of 4-mercaptopyridine crystals were measured in the frequency ranges of V(N-H) and V(N-D) bands at room temperature, and also at the temperature of liquid nitrogen, for the two different crystalline faces: 'bc' and 'ac'. When investigating 'residual' v(N-H) band shapes for crystals that were diluted by deuterium, strong dichroic effects in the spectra were still observed, providing evidence for the existence in the hydrogen bond chains of domains containing exclusively protons or deuterons. This phenomenon proves the existence of a new kind of H/D isotopic effects in open chain hydrogen bond systems, namely 'self-organization' effects. Such effects, however, were not observed for other open chain hydrogen bond systems, e.g. alcohol crystals. Solid-state spectra of 4-mercaptopyridine were quantitatively interpreted, along with the strong polarization and the isotopic effects, when based on the 'strong-coupling' theory for linearly arranged hydrogen bond dimers.     

Inter-hydrogen bond dynamical coupling effects in polarized IR spectra of N-methylacetamide single crystals

This article presents the investigation results of polarized IR spectra of the hydrogen bond in N-methylacetamide (NMA) crystals measured in the frequency range of the proton and deuteron stretching vibration bands, ν_N–H and ν_N–D. A similar study was also performed for crystals of the deuterium isotopomers of the compound, D₇-NMA (CD₃CONDCD₃) and D₆-NMA (CD₃CONHCD₃). On the basis of the analysis of the linear dichroic and temperature effects, the two-branch structure of the ν_N–H bands in the spectra was ascribed to centrosymmetric hydrogen bond pairs in the lattice. Each hydrogen bond in such a dimeric system belonged to another chain of the associated molecules. The exciton interactions involving the dimer hydrogen bonds were considered to be responsible for the band shape generation. For the deuterium-bonded crystals the exciton interactions were found to be weaker since the ν_N–D bands were less split. Within an individual hydrogen or deuterium bond chain the in-chain exciton couplings involving hydrogen bonds were estimated as considerably weaker than the inter-chain ones. The exciton dilution retains the two-branch fine structure pattern of the “residual” ν_N–H and ν_N–D bands. This means that the inter-chain couplings involving hydrogen bonds do not change, when the in-chain couplings vanish. These results are the evidence of the influence of non-conventional co-operative interactions occurring in the hydrogen bond systems on the spectra. These co-operative interactions are responsible for the non-random distribution of the hydrogen isotope atoms in the hydrogen bridge lattices, namely for the grouping of identical hydrogen isotope atoms in the dimers. The proposed interpretation of the IR spectra of the hydrogen bond in N-methylacetamide (NMA) crystals casts light on the spectra generation mechanisms and gives a new meaning to the traditional nomenclature applied for describing the ν_N–H band structure pattern in IR spectra of amides.     

Hydrogen bonding. Part 77. Molecular orbital study of C–HF hydrogen bonds in tetramethylammonium fluoride; potential effects on solid state structure

The infrared (IR) spectrum of tetramethylammonium fluoride suggests that it contains the strongest C–HF⁻ hydrogen bonds yet observed. Ab initio 3-21G(^*) calculations were used to examine potential solid state arrangements of cation about anion. The favored state is one in which four cations surround each F⁻ in a D_2d arrangement and four F⁻ surround each cation. Each F⁻ acts as acceptor of four hydrogen bonds of −10.8 kcal mol⁻¹, one from each cation. This arrangement, similar to that of tetramethylammon chloride, is consonant with the IR spectrum of the cation in solid tetramethylammonium fluoride. In the preferred form of the monomeric gas phase ion-pair F⁻ lies against one triangular face of the T_d cation with three CHF hydrogen bonds of −11.5 kcal mol⁻¹ each. Constraint of F⁻ in the gas phase ion-pair to interaction with a single cation hydrogen results in a tightly bound molecular complex between HF and trimethylammonium methylide with an interaction energy of −27 kcal mol⁻¹; however, this structure is not seen elsewhere and apparently does not play a role in the solid salt.     

Mechanism of the reduction of molecular nitrogen to hydrazine by niobium (iii) hydroxide

The effect of the concentration of water on the rate of reduction of molecular nitrogen to hydrazine by niobium(iii) hydroxide in alkaline H₂O−MeOH and D₂O−MeOD mixtures was studied. In both cases, the reaction rate is maximum when [H₂O]=4 mol L⁻¹, and the inverse isotopic effect (K ^D/k ^H>1) is observed when [H₂O]<20 mol L⁻¹. Similar regularity was observed for the reaction of hydrogen elimination. It was found that HD is formed in the H₂O−MeOH system in the presence of D₂. The conclusion was made that the ratedetermining stage in hydrazine formation is the transfer of a hydride ion to the dinitrogen molecule coordinated to the binuclear Nb^III center. A kinetic scheme satisfactorily explaining the effect of the concentration of water ([H₂O]=1.5−49.0 mol L⁻¹) on the reaction rate constant was proposed. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 9, pp. 1600–1604, September, 1997.     

Volumetric properties of H2O, D2O, and methanol in acetonitrile at 278.15—318.15 K

The densities of H₂O, D₂O, and MeOH solutions in acetonitrile with the solute concentrations up to 0.07 molar fractions at 278.15, 288.15, 298.15, 308.15, and 318.15 K were measured using vibrating-tube densimetry with an error 8·10^–6 g cm^–3. The limiting partial molar volumes for the H/D isotopomers of water and IaII in acetonitrile (V^– ₂ ) and the isotope effects in V^– ₂ and in excess molar volumes of acetonitrile—water mixtures were calculated. Molecules of H₂O, D₂O, and IaII form associates with acetonitrile molecules via hydrogen bonds. The associates have the packing volumes close to those in the individual solute. The water and methanol molecules were assumed to be incorporated into the acetonitrile structure without substantial changes in the latter. However, this process results in some compression of the system with a simultaneous increase in its expansibility.     

Conformational dependence of the intrinsic acidity of the aspartic acid residue sidechain in N-acetyl- -aspartic acid-N′-methylamide

The sidechain conformational potential energy hypersurfaces (PEHS) for the γ_L, β_L, α_L, and α_D backbone conformations of N-acetyl- -aspartate-N′-methylamide were generated. Of the 81 possible conformers initially expected for the aspartate residue, only seven were found after geometric optimizations at the B3LYP/6-31G(d) level of theory. No stable conformers could be located in the δ_L, _L, γ_D, δ_D, and _D backbone conformations. The ‘adiabatic’ deprotonation energies for the endo and exo forms of N-acetyl- -aspartic acid-N′-methylamide were calculated by comparing their optimized relative energies against those found for the seven stable conformers of N-acetyl- -aspartate-N′-methylamide. Sidechain conformational PEHSs were also generated for the estimation of ‘vertical’ deprotonation energies for both endo and exo forms of N-acetyl- -aspartic acid-N′-methylamide. All backbone–sidechain (N–H⁻O–C) and backbone–backbone (N–HO=C) hydrogen bond interactions were analyzed. A total of two backbone–backbone and four backbone–sidechain interactions were found for N-acetyl- -aspartate-N′-methylamide. The deprotonated sidechain of N-acetyl- -aspartate-N′-methylamide may allow the aspartyl residue to form strong hydrogen bond interactions (since it is negatively charged) which may be significant in such processes as protein–ligand recognition and ligand binding. As a primary example, the molecular geometry of the aspartyl residue may be important in peptide folding, such as that in the RGD tripeptide.     

Synthesis and Crystal Structures of [(Nicotinic Acid)2H]+I-, [(2-Amino-6-methylpyridine)H]+(NO3)-, and the 1:1 Complex Between 1-Isoquinoline Carboxylic Acid (Zwitter Ion) and L-Ascorbic Acid Assembled via Hydrogen Bonds

Summary. Three new complexes, namely [(nicotinic acid)₂H]⁺I^–, [(2-amino-6-methylpyridine)H]⁺ (NO₃)^–, and the 1:1 complex between 1-isoquinoline carboxylic acid (zwitter ion form) and L-ascorbic acid were synthesized. The IR spectra revealed different types of hydrogen bonds in these compounds. The X-ray structure determination has shown the first compound to consist of a packing of [(nicotinic acid)₂H]⁺ cations and I^– anions. In the dimeric cation the two nicotinic acid molecules (zwitter ions) are connected through hydrogen bonds (O–HO). Each dimer is further engaged in other hydrogen bonds with adjacent dimers giving 2D layers. The I^– ion is located at the inversion center. In the second compound the cation and anion are connected via hydrogen bonds formed between oxygen atoms of the NO₃ ^– anion and NH and NH₂ of the cation generating a layer structure. All atoms are coplanar on mirror planes. In the 1:1 complex the two molecules are connected through hydrogen bonds formed between the two oxygen atoms of the carboxylate group of 1-isoquinoline carboxylic acid (zwitter ion) and the oxygen atoms of the two adjacent hydrogen groups of the L-ascorbic acid molecule. These complex molecules are engaged in other hydrogen bonds with each other forming a 2D system normal to the long b-axis of the unit cell.     

NHC‐Stabilized Iridium Nanoparticles as Catalysts in Hydrogen Isotope Exchange Reactions of Anilines

The preparation of N‐heterocyclic carbene‐stabilized iridium nanoparticles and their application in hydrogen isotope exchange reactions is reported. These air‐stable and easy‐to‐handle iridium nanoparticles showed a unique catalytic activity, allowing selective and efficient hydrogen isotope incorporation on anilines using D₂ or T₂ as isotopic source. The usefulness of this transformation has been demonstrated by the deuterium and tritium labeling of diverse complex pharmaceuticals.     

Ab initio and density functional studies on the structure and vibrational spectra of 2-hydroxy-1,4-naphthoquinone-1-oxime derivatives

Structure and vibrational frequencies of lawsoneoxime and its C₃-substituted (R=CH₃, NH₂, Cl, NO₂) derivatives in keto and nitrosophenol forms have been obtained employing the Hartree–Fock and density functional methods. Charge distributions in different conformers have been studied using the molecular electrostatic potential topography as a tool. For all these derivatives except for nitrolawsoneoxime the amphi conformer in the keto form is predicted to be of lowest energy, which can partly be attributed to hydrogen bonding through the oximino nitrogen. In the nitro derivative, however, the preference to form a six membered ring owing to O–H–O hydrogen-bonded interactions makes the anti conformer (keto) the stablest. Further one of the nitrosophenol conformers of nitrolawsoneoxime turns out to be very close in energy (0.21 kJ mol^–1 higher) to this anti conformer. The consequences of hydrogen bonding on charge distribution and vibrational spectra are discussed.     

Crystal and molecular structure, hydrogen bond and electrostatic interactions of bis(1-methylisonicotinate)hydrogen perchlorate studied by X-ray diffraction, DFT calculations, FT-IR, Raman and NMR spectroscopes

The crystal structure of bis(1-methylisonicotinate)hydrogen perchlorate, (MIN)₂H·ClO₄, has been studied by X-ray diffraction, DFT calculations, FT-IR, Raman, ¹H and ¹³C NMR spectra. The crystals are monoclinic, space group P2₁/n, with a pair of MIN molecules bridged by a short asymmetrical O·H·O hydrogen bond of 2.461(5) Å. The COO groups are twisted by 80.55° with respect to the plane of the pyridine ring. The anion interacts electrostatically with the positively charged nitrogen atoms of the neighbouring MIN molecules. The most stable conformer of isolated (MIN)₂H·ClO₄ and two homoconjugated cations, (MIN)₂H, have been analyzed by the B3LYP/6-31G(d,p) calculations in order to determine the influence of the anion on the hydrogen bonds in MIN·H·MIN unit. The FT-IR spectrum of the (MIN)₂H·ClO₄ shows a broad and intense absorption in the 1500–400 cm⁻¹ region, typical of short hydrogen bonds. The isotopic ratio, νOHO/νODO, is close to unity, indicating that the hydrogen bond is acentric (pseudo-type A).