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.     

Hydrogen bonding in 2-hydroxybenzoic, 2-hydroxythiobenzoic,and 2-hydroxydithiobenzoic acid. A structural and spectroscopic study

Summary X-ray structural data are reported for 2-hydroxythiobenzoic acid (T=200 K;P2₁/a;a=14.903(5) Å,b=5.203(3) Å,c=9.114(6) Å, =92.40(4)°;Z=4;R=0.049) and 2-hydroxydithiobenzoic acid (T=297 K;P2₁/a;a=14.416(3) Å,b=13.447(3) Å,c=3.947(1) Å, =90.96(2)°;Z=4;R=0.047). In 2-hydroxythiobenzoic acid, each two molecules form cyclic dimersvia S-H...O=C hydrogen bonds, analogous to the association pattern of 2-hydroxybenzoic acid. In 2-hydroxydithiobenzoic acid, the molecules are linked to chains by S-H...O(H)-C hydrogen bonds. Solid state IR, and solution IR and NMR spectroscopic data of 2-hydroxybenzoic acid, 2-hydroxythiobenzoic acid, and 2-hydroxydithiobenzoic acid are summarized. The main characteristics of the intramolecularly associated phenolic O-H groups of the three title compounds are for the solids, for solutions (CCl₄), and _OH=10.21, 10.53, 12.20 ppm for solutions (CCl₄:CDCl₃=5:1).Dedicated to Prof.O. Olaj on the occasion of his 60^th birthday     

The effects of conformation and intermolecular hydrogen bonding on the structural and vibrational spectral data of naproxen molecule

The structural and vibrational properties of naproxen, an inhibitor of cyclooxygenase (COX) enzyme, were investigated by molecular modeling and experimental IR and Raman spectroscopic techniques. Possible conformers of the molecule were searched via a molecular dynamics simulation carried out with MM2 force field. The total energies, equilibrium geometries, force fields, IR and Raman spectral data of the found stable conformers were determined by means of geometry optimization and harmonic frequency calculations carried out using the B3LYP method and Pople-style basis sets of different size. The stability order obtained for the lowest-energy conformers was confirmed by high-accuracy thermochemistry calculations performed with G3MP2B3 composite method. Some electronic structure parameters of naproxen and the anharmonicity characters of its vibrational modes were determined by means of natural population analysis (NPA) and anharmonic frequency calculations at B3LYP/6-31++G(d,p) and B3LYP/6-311++G(d,p) levels of theory. A part of these calculations carried out for free naproxen molecule were repeated also for its energetically most favored dimer forms. Two different scaling procedures ((1) “SQM-FF methodology” and (2) “Dual scale factors”) were independently applied to the obtained harmonic vibrational spectral data to fit them to the corresponding experimental data. In the light of the obtained calculation results, which confirm the remarkable effects of conformation and intermolecular hydrogen bonding on the structural and vibrational spectral data, in particular, on those associated with the functional groups in the propanoic acid chain, a reliable assignment of the fundamental bands observed in the experimental IR and Raman spectra of the molecule was achieved.     

Spectroscopic study of hydrogen exchange processes and structure of intermediate complexes with intermolecular hydrogen bonds

The kinetics of hydrogen exchange in molecular systems with H-bonds has been studied by means of kinetic IR spectroscopy and low-temperature NMR spectroscopy. The experimental values of the rate constants and activation energies for molecules capable of forming H-bonds as both proton donors and proton acceptor are collected and analyzed from the point of view of the influence of H-bond formation ability of the molecules-partners. The evidence available testifies to a molecular mechanism of the H-exchange reactions in inert solvents and in the gas phase via the formation of cyclic bimolecular intermediates. The different mechanisms and the structure of intermediate complex of molecular H-exchange process in inert media are discussed and the possible paths of experimental elucidation of reaction mechanism are offered.     

FT-IR and FT-Raman study of hydrogen bonding in p-alkylcalix[8]arenes

The FTIR and FT Raman spectra of p-alkylcalix[8]arenes (alkyl = tert-butyl, isononyl) were recorded. Analysis of IR spectra showed that the cyclic cooperative intramolecular hydrogen bond is realized in calix[8]arene. It was found that the strength of the cyclic cooperative intramolecular hydrogen bond in the series of alkyl derivatives of calix[8]arenes depends very little on the replacement of the p-tert-butyl groups by the more bulky isononyl group. From our data follows that the orientation of aromatic fragments in calixarene molecules depends on the type of alkyl substituent.An analysis of the changes in the IR spectra with heating and dissolution shows that the conformation of the “pleated-loop” is retained in p-tert-butylcalix[8]arene. It turned out that the intramolecular hydrogen bond is a “probe” of the conformation of calixarene molecules and IR spectroscopy is a unique method that allows one to follow the slightest nuances of changes in the H-bound system of these supermolecules.     

Synthesis and scintillating efficiencies of 2,5-diarylthiazoles with intramolecular hydrogen bond

A series of 2,5-diarylthiazole derivatives exhibiting an intramolecular hydrogen bond has been synthesized. The scintillation efficiency of each member of the series has been determined relative to 2,5-diphenyloxazole. Introduction of an OH group in ortho positions of 2,5-diphenyloxazole and 2,5-diphenylthiazole has led to a red shift of the fluorescence spectra due to intramolecular hydrogen bond, as supported by quantum chemical calculations.     

Synthesis of dinitrosyl iron complexes (DNICs) with intramolecular hydrogen bonding

HSCH₂CONHCH₃ and HSCH₂CON(CH₃)₂ containing a peptide bond are prepared for the synthesis of DNICs with/without intra-molecular hydrogen bonding, respectively. The IR ν(NO) bands of [(NO)₂Fe(SCH₂CONHCH₃)₂]⁻ (2) appears at 1751, 1700 cm⁻¹. In complex 2, the presence of intramolecular [NH?S] hydrogen bonding was verified by the observation of IR spectroscopy with N−H stretching frequency 3334 cm⁻¹ (CDCl₃) and subsequently confirmed by single-crystal X-ray diffraction showing N−S distance of 2.94 Å. Complex 2 displays the rhombic EPR spectrum with g₁ = 2.039, g₂ = 2.031 and g₃ = 2.013 at in frozen H₂O. Complexes 2 and 3 rapidly release NO when exposed to light. The time needed for photolysis reactions of 2 is two times faster than that of 3 in less polar solvent. Representative time courses for the photolability of 2 and 3 in THF display the NO-off ability: 2 > 3.     

Intermolecular-medium and intramolecular-weak hydrogen bonding chains in the crystals of chiral trifluoromethylated amino alcohols

A structural feature of hydrogen bonding chains found in the crystals of trifluoromethylated amino alcohols is reported. Hydrogen bondings of 3-(N,N-dialkylamino)-1,1,1-trifluoro-2-propanols construct chiral spiral hydrogen bonding chains. Lone pairs on the nitrogen atoms of the amino alcohols participate in two hydrogen bondings. Detailed structural analysis of the hydrogen bonds of the 3-(N,N-dimethylamino)-1,1,1-trifluoro-2-propanol suggested that the chain built up with alternating intermolecular-medium and intramolecular-weak hydrogen bonds. The medium intermolecular hydrogen bond, which transfers a proton from the hydroxy group to the amino nitrogen, would make a tentative zwitterionic form of the molecule. Then, electrostatic attraction between the charges in the zwitterion centers induced a weak intramolecular hydrogen bond.     

Hydrogen bonding in 2-hydroxybenzoyl and 2-hydroxythiobenzoyl compounds: Spectroscopic characterization and spectroscopic bond strength sequences

Summary A survey of IR and NMR spectroscopic data is given for 30 2-hydroxybenzoyl and 2-hydroxy-thiobenzoyl compounds, which are representative for various kinds of (thio)carbonyl groups. The data shall provide a basis for a comparison between corresponding intramolecular O-H··O and O-H··S hydrogen bonds and for the evaluation of systematic dependencies. Correlations between v_OH frequencies, which are considered as the main characteristic of hydrogen bond strengths, and several other spectroscopic quantities are shown. For O-H··O type associations the bond strength sequence is acid chloridesOH-Frequenzen, die als wesentliches Kriterium zur Charakterisierung der Bindungsstärken herangezogen werden, und verschiedenen anderen spektroskopischen Daten werden gezeigt. Bei den Wasserstoffbrückenbindungen des Typs O-H··O nehmen die Bindungsstärken in der Reihenfolge SäurechlorideCO-Frequenzen. Die auffällige Sonderstellung der tertiären Amide ist auf sterische Effekte zurückzuführen. Die v_OH-Frequenzen der O-H··S Wasserstoffbrückenbindungen sind denen der entsprechenden O-H··O Bindungen sehr ähnlich, ausgenommen Thiosäuren und Thioester, für die wesentlich niedrigere Frequenzen gefunden wurden.     

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⁺.     

Matrix IR studies on hydrogen-bonded complexes of hydrogen chloride and hydrogen bromide with ketene

Infrared spectra of matrices codeposited Ar/HX (X=Cl, Br) with Ar/H₂CCO mixtures have been examined. Isotopic substitutions (HX, DX, H₂CCO, D₂CCO) showed that ketene formed the 1:1 hydrogen-bonded complex with HX. The HX stretching modes were observed at 2684 cm⁻¹ in the H₂CCO–HCl complex and at 2384 cm⁻¹ in the H₂CCO–HBr complex. The ν₁ modes of the ketene submolecules were shifted to low frequency and the ν₉ modes to high frequency. It was proposed for the structure of the complex that the acid proton is bonded to the C=C pi electron system.     

Competition between non-classical and classical hydrogen bonded sites in [BH3CN]: Spectral, energetic, structural and electronic features

Interaction of the salt (Ph₃PNPPh₃)BH₃CN with the various OH and NH proton donors in low polar media was studied by variable temperature (200–290 K) IR spectroscopy and theoretically by DFT calculations. The formation of two types of complexes containing non-classical dihydrogen bond to the hydride hydrogen (DHB) and classical hydrogen bond (HB) to nitrogen lone pair was shown in solution. The 1:1 complexes of both types (XHH and XHN) coexist in the presence of equimolar amount of proton donor. The addition of excess XH-acid leads to the increase of the classical HB content and appearance of the 1:2 complexes, where two basic sites work simultaneously. The structure, spectral characteristics, energy and electron redistribution were studied by DFT (B3LYP) method. The comparison DHB parameters of [BH₃CN]⁻ with those of the unsubstituted analogue [BH₄]⁻ allowed analyzing the electronic effects of the CN group on the basic properties of boron hydride moiety. The electronic influence of the BH₃ group on CN⁻HX hydrogen bond was also established by comparison with the corresponding classical HB to the CN⁻ anion.     

Synthesis, crystal structure, hydrogen bonding and spectroscopy of transition-metal complexes with the ligand (N,N′-bis(2-pyridylmethyl)-1,3-propanediamine)

Six mononuclear complexes are reported with the tetradentate ligand N,N′-bis(2-pyridylmethyl)-1,3-propanediamine, (abbreviated as pypn) i.e. [Cu(pypn)(ClO₄)₂](H₂O)_1/2 (1), [Fe(pypn)Cl₂](NO₃) (2), [Zn(pypn)Cl](ClO₄) (3), [Co(pypn)(NCS)₂](ClO₄) (4), [Co(pypn)(N₃)₂](ClO₄) (5), [Zn(pypn)(NCS)₂] (6). The synthesis and X-ray crystal structures of all six compounds and their spectroscopic properties are presented.The geometry of the Cu²⁺, Co³⁺, Zn²⁺, Fe³⁺ ions is essentially octahedrally based, with the mm conformation (for Cu) and m_sf conformations for the other 3 metal ions; in compound 3 the geometry around the Zn²⁺ is distorted trigonal bipyramidal. The stabilisation of the crystal lattices is maintained by interesting, relative strong hydrogen bonds.     

Dynamics and mechanism of structural diffusion in linear hydrogen bond

Dynamics and mechanism of proton transfer in a protonated hydrogen bond (H-bond) chain were studied, using the CH(3)OH(2)(+)(CH(3)OH)(n) complexes, n = 1-4, as model systems. The present investigations used B3LYP/TZVP calculations and Born-Oppenheimer MD (BOMD) simulations at 350 K to obtain characteristic H-bond structures, energetic and IR spectra of the transferring protons in the gas phase and continuum liquid. The static and dynamic results were compared with the H(3)O(+)(H(2)O)(n) and CH(3)OH(2)(+)(H(2)O)(n) complexes, n = 1-4. It was found that the H-bond chains with n = 1 and 3 represent the most active intermediate states and the CH(3)OH(2)(+)(CH(3)OH)(n) complexes possess the lowest threshold frequency of proton transfer. The IR spectra obtained from BOMD simulations revealed that the thermal energy fluctuation and dynamics help promote proton transfer in the shared-proton structure with n = 3 by lowering the vibrational energy for the interconversion between the oscillatory shuttling and structural diffusion motions, leading to a higher population of the structural diffusion motion than in the shared-proton structure with n = 1. Additional explanation on the previously proposed mechanisms was introduced, with the emphases on the energetic of the transferring proton, the fluctuation of the number of the CH(3)OH molecules in the H-bond chain, and the quasi-dynamic equilibriums between the shared-proton structure (n = 3) and the close-contact structures (n ≥ 4). The latter prohibits proton transfer reaction in the H-bond chain from being concerted, since the rate of the structural diffusion depends upon the lifetime of the shared-proton intermediate state.     

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.     

Synthesis and spectroscopic, diffractometric, and magnetic analysis of lanthanide compounds with thiocyanate and hexamethylenetetramine

Summary New complex salts of lanthanide thiocyanates with hexamethylenetetramine of the general formulaLn(NCS)₃·2[N₄(CH₂)₆·nH₂O, whereLn=La,Pr,Nd,Sm,Gd,Dy,Er andn=0–10, have been analyzed. IR spectra have been obtained in the range of 200–4000 cm^–1, frequencies of vibrations of low and high hydration state compounds have been analyzed, and differences between the structures of the coordination speheres of these salts are demonstrated. Diffractometric examinations and measurements of the magnetic susceptibility of several salts have been performed.

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Synthese und spektroskopische, diffraktometrische und magnetische Untersuchungen von Verbindungen der Lanthaniden mit Rhodanid und Hexamethylentetramin

Zusammenfassung Neue Komplexsalze der Lanthaniden mit Rhodanid und Hexamethylentetramin mit der allgemeinen FormelLn(NCS)₃·2[N₄(CH₂)₆]·nH₂O (Ln=La,Pr,Nd,Sm,Gd,Dy,Er;n=0–10) wurden untersucht. Die IR-Spektren der Verbindungen im Bereich von 200–4000 cm^–1 wurden aufgenommen. Die Schwingungsfrequenzen hoch- und niederhydrierter Verbindungen wurden analysiert und die Unterschiede in der Struktur der Koordinationssphäre bestimmt. An einigen Komplexen wurden diffraktometrische Untersuchungen und Messungen der magnetischen Suzaptibilität durchgeführt.

     

A nitrogen-15 NMR study of hydrogen bonding in 1-alkyl-4-imino-1,4-dihydro-3-quinolinecarboxylic acids and related compounds

The title compounds contain groups (amine, amide, imine, carboxylic acid) that are capable of forming intramolecular hydrogen bonds involving a six-membered ring. In compounds where the two interacting functional groups are imine and carboxylic acid, the imine is protonated to give a zwitterion; where the two groups are imine and amide, the amide remains intact and forms a hydrogen bond to the imine nitrogen. The former is confirmed by the iminium 15N signal, which shows the coupling of 1J(15N,1H) -85 to -86.8 Hz and 3J(1H,1H) 3.7-4.2 Hz between the iminium proton and the methine proton of a cyclopropyl substituent on the iminium nitrogen. Hydrogen bonding of the amide is confirmed by its high 1H chemical shift and by coupling of the amide hydrogen to (amide) nitrogen [(1J(15N,1H) -84.7 to -90.7 Hz)] and to ortho carbons of a phenyl substituent. Data obtained from N,N-dimethylanthranilic acid show 15N-1H coupling of (-)8.2 Hz at 223 K (increasing to (-)5.3 Hz at 243 K) consistent with the presence of a N... H-O hydrogen bond.     

Effects of strong inter-hydrogen bond dynamical couplings in the polarized IR spectra of adipic acid crystals

This paper presents the results of the re-investigation of polarized IR spectra of adipic acid and of its d₂, d₈ and d₁₀ deuterium derivative crystals. The spectra were measured at 77 K by a transmission method using polarized light for two different crystalline faces. Theoretical analysis concerned linear dichroic effects and H/D isotopic effects observed in the spectra of the hydrogen and deuterium bonds in adipic acid crystals at the frequency ranges of the ν_O–H and the ν_O–D bands. The two-branch fine structure pattern of the ν_O–H and ν_O–D bands and the basic linear dichroic effects characterizing them were ascribed to the vibronic mechanism of vibrational dipole selection rule breaking for IR transitions in centrosymmetric hydrogen bond dimers. It was proved that for isotopically diluted crystalline samples of adipic acid, a non-random distribution of protons and deuterons occurs in the dimers (H/D isotopic “self-organization” effect). This effect results from the dynamical co-operative interactions involving the dimeric hydrogen bonds.