A study of the molecular structure of DL-serine with the method of low-temperature IR spectroscopy

Use of low-temperature IR spectroscopy in studies of compounds with a developed system of hydrogen bonds such as DL-serine revealed a complete set of vibrational frequencies. The region of manifestation of stretching vibrations of OH groups involved in the formation of strong hydrogen bonds was found. It is shown experimentally that in a crystal some of the molecules of SL-serine exist in the nonionized form. On the basis of analysis of experimental data, frequency ranges of stretching deformation and torsional vibrations of NH ₃ ⁺ , COO⁻, and OH groups were determined more accurately. It is found that in the crystals there exist molecules of DL-serine with different spatial orientation of NH ₃ ⁺ COO⁻, and COH groups. It is shown that conformational diversity of molecular structures is also preserved at T=18 K. Translated from Zhurnal Prikladnoi Spektroskopii, Vol. 65, No. 6, pp. 864–868, November–December, 1998.     

Spectroscopic manifestations of the intramolecular hydrogen bond in ordinary and sterically hindered porphyrins

Spectroscopic manifestations of the intramolecular hydrogen bond (IHB) in ordinary and sterically hindered porphyrins were investigated by the methods of IR spectroscopy and molecular modeling. It is shown that the IHB plays a part in the formation of the νNH and γNH vibrations of porphyrins. By changing the type and value of the distortion of the macroring at the expense of steric effects of interaction of volumetric substituents, the parameters and spectroscopic manifestations of the IHB can be varied in a significantly larger range as compared with ordinary tetrapyrroles having nearly quadratic and planar macrorings. Reported at the VIIIth International Conference on Spectroscopy of Porphyrins and Their Analogs, Minsk, September 22–26, 1998. Translated from Zhurnal Prikladnoi Spektroskopii, Vol. 66, No. 4, pp. 522–527, July–August, 1999.     

Infrared spectra and pharmacological activity of hindered phenols

IR Fourier spectra of pharmacologically active sterically hindered phenols in CCl₄ solutions are studied. A relationship between the absorption intensity in the spectral range of the free vibrations of OH-groups and the antimicrobial activity of the phenols is discovered. If the hydroxyl groups are in an ortho-position within a molecule, then intramolecular hydrogen bonds are formed. The hindered phenols with nonassociated hydroxyl groups are the most pharmacologically active.     

The fluctuation hypothesis of hydrogen bonding

To describe the distortion perturbations of the water molecules in solutions the quantum-mechanical method of partial oscillators has been developed. This method allows one to separate in a simple manner two types of influences on vibrations of OH oscillators, viz. the intermolecular perturbations resulting in the different strengths of hydrogen bonds and intramolecular coupling between stretching vibrations. Here the coupling is treated quite strictly, whereas the intermolecular perturbations are introduced phenomenologically. The calculation of the distribution of distortions among molecules in liquid H₂O and D₂O induced by non-equivalency of the two hydrogen bonds of the water molecule has been made on the basis of the method developed, and the parameters of the mean statistical molecule have been found from the experimental spectrum of HOD. The depolarization ratios of vibrations in Raman spectra of the mean statistical molecules H₂O and D₂O have been computed as an illustration of the possibilities of the proposed calculation method. All the estimates show that the stretching oscillators of H₂O and D₂O molecules are significantly coupled in spite of the great distortion of the symmetry of water molecules in the liquid state.     

Pressure effects on inter‐ and intramolecular vibrations in hydrogen‐bonded L‐ascorbic acid crystal

Pressure effects on the Raman spectra due to the inter‐ and intramolecular vibrations of the L ‐ascorbic acid crystal were studied. The intensity of the Raman bands due to the intermolecular vibrations varies in three different ways by application of pressure. The bands of the first group become stronger, those of the second one become weaker and the third group shows no prominent change in their intensity with increasing pressure. The bands due to the intermolecular vibrations show a blue shift, while the bands due to the intramolecular vibrations shift to the blue or red depending on the vibrational modes by application of pressure. The bands assigned to the O H stretching vibrations shift to the red, the bands assigned to the CO and CC stretching vibrations shift a little to the red and the bands assigned to the other vibrations shift to the blue under high pressure. The following conclusions were derived. (1) The hydrogen bonds forming helixes become stronger and the isolated hydrogen bond becomes weaker with increasing pressure. (2) The bands of the first group owing to the intermolecular vibrations are ascribed to the vibrations related to the helix hydrogen bonds and the second group bands to the isolated hydrogen bond. (3) The CO stretching vibration couples with the CC stretching vibration. (4) The phase transitions take place at 1.8 and 4 GPa in the crystal. Copyright © 2007 John Wiley & Sons, Ltd.     

Quantum‐Chemical Investigation of Hydrogen Bonds in Porphin

Using the DFT Becke–Lee–Yang–Parr exchangecorrelation threeparametric functional (B3LYP), we have calculated the geometry, the electron density distribution, and the vibration frequencies for pyrrole, porphin, and their 13 analogs with a regularly varying structure. It is shown that the determining role in the change in the frequencies of stretching and outofplane deformation vibrations of porphin compared to pyrrole is played by intramolecular hydrogen bonds at the porphyrin macroring center. We have separately considered and compared with the data for porphin complexes of pyrrole with different intermolecular hydrogen bonds: with an aromatic ring (NH··· cluster formed by the pyrrole selfaggregation in the liquid state) and an unshared electron pair (NH···OH₂ and NH···NC₄H₄ clusters). The degree of participation of the NH group in the hydrogen bonds increases in the series NH··· cluster, porphin, NH···OH₂ and NH···NC₄H₄ clusters.     

Intramolecular and intermolecular hydrogen bonds in aminophenols

IR-Fourier spectroscopy methods are adopted to study intramolecular and intermolecular hydrogen bonds that form in CCl₄ solutions of aminophenol derivatives and in a solid phase of these compounds pressed in KBr. If a hydroxyl group is present in the molecule in the ortho-position to an amino group, then intramolecular interactions between OH and NH groups will take place in aminophenol solutions. Intramolecular O–H⋅⋅⋅O=S=O and N–H⋅⋅⋅O=S=O hydrogen bonds are found in solutions of compounds containing a sulfonamide fragment. Additional acylation of the amino group causes an intramolecular O–H⋅⋅⋅O=C hydrogen bond to form in solutions. Functional groups OH, NH, SO₂, and C=O interact with one another in various ways in the solid phase to form intermolecular hydrogen bonds in aminophenols.     

Spectroscopic properties of pharmacologically active phenols

The IR Fourier-transform spectra of pharmacologically active phenol molecules in solutions in CCl₄ and in the crystalline state have been studied. Phenol derivatives with different directivities and different levels of pharmacological efficiency have been examined. Based on analysis of the IR spectra of screened phenols, the antimicrobial activity of phenols with free hydroxyl groups has been shown to be highest. The high antimicrobial activity of aminophenols is related to the formation of intramolecular hydrogen bonds. For aminophenols that are active against herpesviruses, O-H...N hydrogen bonds are formed in molecules. The main characteristic of the high antiviral activity against A-type influenza is predominance of intramolecular hydrogen bonds of the O-H...O=C type in molecules. Sulfur-containing aminophenols, which manifest activity against HIV infection, are characterized by the occurrence of hydrogen bonds that involve the participation of the OH, NH, and SO₂ groups.     

Vibrational spectra of crystalline H2SeO3 in the O-H stretching region

IR transmission, near-normal IR reflection and polarized Raman spectra of single crystals of selenious acid (H₂SeO₃) have been obtained at temperatures between 77°K and 335°K. The observed bands in the O-H stretching region have been assigned to two types of O-H….O bonds in the crystal structure. The spectral results appear to rule out correlation field splittings, intramolecular coupling, or Fermi resonance as explanations for the observed splitting. A proposed model based on intermolecular coupling of O-H….O vibrations to explain the splitting of the O-H stretching region is given.     

Theoretical and Experimental Study of the Conformation and Vibrational Frequencies of N‐Acetyl‐L‐alanine and N‐Acetyl‐L‐alaninate

The vibrational frequencies of N‐acetyl‐L‐alanine (NAAL), its potassium salt (NAALK) and its free anionic form (NAAL^?) are calculated using density functional theory (B3LYP) combined with the 6‐311 + + G(d,p) basis set. The experimental Raman spectrum of solid NAALK and the scaling factors for calculated values are discussed as well. The three species are characterized by intramolecular NH…O hydrogen bonds leading to the formation of a five‐membered ring. As indicated by the intramolecular (N)H…O distances and by the ν(NH) frequencies, the strength of the intramolecular hydrogen bond is ordered as follows: NAAL^? < NAALK < NAAL^?. Owing to their difference in the coupling with other vibrational modes, the in‐plane and out‐of‐plane vibrations do not reflect the strength of the hydrogen bond.     

The stretching vibrations of the NH-groups in the infrared spectra of organoboron amines

The infrared spectra of 15 organoboron amines in various solvents have been studied over a wide range of concentrations. The values of the frequencies of the NH stretching vibrations in these spectra have been compared with certain properties of the compounds studied: the tendency to undergo dimerization and the ability to form hydrogen bonds.     

A Raman spectroscopic study of bukovskýite Fe2(AsO4)(SO4)(OH)· 7H2O,a mineral phase with a significant role in arsenic migration

The Raman spectrum of bukovskýite [Fe³⁺₂(OH)(SO₄)(AsO₄)· 7H₂O] has been studied and compared with that of an amorphous gel containing specifically Fe, As and S, which is understood to be an intermediate product in the formation of bukovskýite. The observed bands are assigned to the stretching and bending vibrations of (SO₄)²⁻ and (AsO₄)³⁻ units, stretching and bending vibrations and vibrational modes of hydrogen‐bonded water molecules, stretching and bending vibrations of hydrogen‐bonded (OH)⁻ ions and Fe³⁺ (O,OH) units. The approximate range of O H···O hydrogen bond lengths was inferred from the Raman spectra. Raman spectra of crystalline bukovskýite and of the amorphous gel differ in that the bukovskýite spectrum is more complex, the observed bands are sharp and the degenerate bands of (SO₄)²⁻ and (AsO₄)³⁻ are split and more intense. Lower wavenumbers of δ H₂O bending vibrations in the spectrum of the amorphous gel may indicate the presence of weaker hydrogen bonds compared to those in bukovskýite. Copyright © 2011 John Wiley & Sons, Ltd.     

Manifestation of structure and intermolecular interactions of biologically active brassinosteroids in infrared spectra

We have analyzed the IR spectra obtained for steroidal phytohormones 24-epibrassinolide, 24-epicastasterone, 28-homobrassinolide, and 28-homocastasterone. The characteristic frequencies of the stretching vibrations of the hydrocarbon groups CH₃, CH₂, and CH and also the C=O groups in the spectra of brassinolides are higher than in the spectra of castasterones, which makes it possible to identify them from the IR spectra. Study of the spectra of these brassinosteroids in different media (pressed samples in KBr, films, solutions in CHCl₃ and CDCl₃) allowed us to establish the presence of intermolecular interactions in which C=O and OH groups, OH-OH groups participate, and also the possible formation of intramolecular hydrogen bonds between the OH groups of the molecules. __________ Translated from Zhurnal Prikladnoi Spektroskopii, Vol. 74, No. 5, pp. 610–616, September–October, 2007.     

Vibrational spectroscopy of Cm–H,C β –C β stretching vibrations of Nickel metalloporphyrins: An algebraic approach

An algebraic model of coupled anharmonic oscillators is introduced, capable of describing the stretching vibrations of medium and large polyatomic molecules. This model is applied to the calculation of C_m–H and C _β –C _β vibrational modes of nickel octaethyl porphyrins and nickel porphyrins molecules. The model appears to describe the data accurately.     

Molecular structure of a gold β-octakis(trifluoromethyl)-meso-triarylcorrole: an 85° difference in saddling dihedral relative to copper

Copper corroles exhibit inherent saddling, driven by ligand non-innocence, which may be viewed as a form of multideterminantal character. The saddling is enhanced by sterically hindered peripheral substituents. The sterically hindered complex Cu[(CF₃)₈T(pFP)C] (wherein the ligand is β-octakis(trifluoromethyl)-meso-tris(p-fluorophenyl)corrolato) is thus exceedingly saddled with adjacent pyrrole rings nearly orthogonal to one another. By contrast, Au[(CF₃)₈T(pFP)C] has a nearly planar corrole macrocycle, implying an innocent corrole ligand.     

N－二茂铁酰胺酸的红外光谱研究

研究了七种Ｎ－二茂铁酰胺酸的红外光谱，讨论了分子中氢键对一些主要吸收峰的影响，并对某些构象异构体和互变异构现象用红外光谱作了定性分析和研究。     

Relationship Between NH Stretching Frequencies and N…O Distances of Crystals Containing NH…O Hydrogen Bonds

Abstract

A relation between NH stretching frequencies and N…O distances is given for 42 N-H…O hydrogen bonds. The NH stretching frequencies vary from 3446 cm^?1 to 2290 cm^?1 and the N…O distances from 3.26 to 2.63 Å. Criteria for identifying the NH stretching fundamentals are discussed.     

Differential Raman cross section of dimethyl sulfide

Biogenic sulfur compounds such as dimethyl sulfide (DMS) are important contributors to the global carbon cycle. The differential Raman cross section of DMS relative to the nitrogen fundamental, σ_DMS, has been measured at several excitation wavelengths in order to assess the applicability of Raman spectroscopy for the direct quantitative measurement of this compound. At 488 nm, σ_DMS for the ν₆ carbon–sulfur stretching mode was found to be 4.9 ± 1.6, while for the ν₂ carbon–hydrogen stretching mode it was 2.8 ± 0.9. Using, KrF laser excitation, values for σ_DMS could be measured simultaneously at two excitation wavelengths, 248.32 and 248.69 nm. The average values of σ_DMS for 248‐nm excitation based on measurements at these two excitation wavelengths were 3.5 ± 1.4 for the carbon–sulfur stretching mode and 4.6 ± 0.6 for the carbon–hydrogen stretching mode. The results indicate that no significant resonance enhancement of σ_DMS for either mode occurs, although they show some slight enhancement of the cross section for the ν₂ band (C H stretching mode). It was concluded that the measured values of σ_DMS are high enough to allow the quantitative detection of DMS at the millimolar level. Copyright © 2010 John Wiley & Sons, Ltd.     

The influence of electronic and structural factors on the photoinduced electron transfer in sterically strained <Emphasis Type="Italic">meso</Emphasis>-nitrophenyl-substituted porphyrins

The electronic and structural factors affecting the efficiency of the photoinduced electron transfer in meso-nitrophenyl-substituted octaethylporphyrins are theoretically analyzed by semiempirical methods of quantum chemistry. It is shown that the experimental differences between the rate constants of electron transfer associated with the change in the position of the nitro group in the meso-phenyl ring (ortho, meta, or para positions) are determined by such factors as torsional vibrations of the phenyl ring around the single C₁-C_m bond, electronic properties of the phenyl group, rotations of the nitro group around the single C-N bond, and out-ofplane deformations of the porphyrin macrocycle. It is ascertained that the matrix elements of electronic interactions and the energies of excited charge-transfer states depend substantially both on the position of the nitro group in the meso-phenyl ring and on intramolecular vibrations of the phenyl and the nitro groups. In nonpolar media, the fluorescence quenching in the compounds under study occurs mainly due to the admixture of chargetransfer excitations to the lowest S ₁ state of porphyrin. Upon increasing polarity, the main channel of deactivation of excited singlet states is direct photoinduced electron transfer either through space (the ortho position) or through a bond involving the participation of orbitals of the phenyl spacer (the meta and para positions).     

Raman spectroscopic study of the uranyl carbonate mineral zellerite

Raman and infrared spectra of the uranyl mineral zellerite, Ca[(UO₂)(CO₃)₂(H₂O)₂]·3H₂O, were measured and tentatively interpreted. U O bond in uranyl and O H···O hydrogen bonds were calculated from the vibrational spectra. The presence of structurally nonequivalent water molecules in the crystal structure of zellerite was inferred. A proposed chemical formula of zellerite is supported. Raman bands at 3514, 3375 and 2945 cm⁻¹and broad infrared bands at 3513, 3396 and 3326 cm⁻¹ are related to the ν OH stretching vibrations of hydrogen‐bonded water molecules. Observed wavenumbers of these vibrations prove that in fact hydrogen bonds participate in the crystal structure of zellerite. The presence of two bands at 1618 and 1681 cm⁻¹ proves structurally distinct and nonequivalent water molecules in the crystal structure of zellerite. Copyright © 2008 John Wiley & Sons, Ltd.