IR, Raman and SERS studies of methyl salicylate

The IR and Raman spectra of methyl salicylate (MS) were recorded and analysed. Surface enhanced Raman scattering (SERS) spectrum was recorded in silver colloid. The vibrational wave numbers of the compound have been computed using the Hartree-Fock/6-31G* basis and compared with the experimental values. SERS studies suggest a flat orientation of the molecule at the metal surface.     

Geometry prediction of bridged zirconocene dichlorides by quantum chemical methods

The ab initio Hartree–Fock theory has been demonstrated to give accurate geometry predictions for bridged zirconocene dichlorides. Equilibrium geometries of crystallographically characterized bridged zirconocene dichlorides were optimized by Hartree–Fock, MP2, BLYP, and B3LYP methods, with basis sets ranging from 3‐21G* to 6‐311G**. Selected geometrical parameters were compared with experimental crystal structures. The least expensive HF/3‐21G* method proved to be notably accurate. The accuracy of HF/3‐21G* was verified by a comprehensive data set of 62 bridged zirconocene dichlorides. Furthermore, experimental corrections were applied to the optimized geometry parameters to eliminate systematic deviations. Corrections resulted in considerably improved accuracy for systematically overestimated metal–ligand distances, with maximum deviation falling from 0.081 to 0.039 Å, and absolute average deviations from 0.048 to 0.012 Å. Ligand–metal–ligand angles were predicted accurately with absolute average deviations of 0.7–1.3°. Zirconium–chlorine distances and chlorine–zirconium–chlorine angles are relatively constant in the studied molecules. Zirconium–cyclopentadienyl distances can be influenced mainly by modifying the ligand structure, whereas cyclopentadienyl–zirconium– cyclopentadienyl angles and cyclopentadienyl–cyclopentadienyl plane angles can be controlled by bridge modifications. The HF/3‐21G* method can be applied for the estimation of steric effects in zirconocene catalyzed polymerization reactions, therefore being suitable for the construction of structure–polymerization property correlations. © 2000 John Wiley & Sons, Inc. J Comput Chem 22: 51–64, 2001     

Raman, IR and SERS spectra of methyl(2-methyl-4,6-dinitrophenylsulfanyl)ethanoate

Methyl(2-methyl-4,6-dinitrophenylsulfanyl)ethanoate was prepared by nucleophilic substitution. FT-IR and FT-Raman spectra of methyl(2-methyl-4,6-dinitrophenylsulfanyl)ethanoate were recorded and analyzed. Surface-enhanced Raman scattering (SERS) spectrum was recorded on a silver colloid. The vibrationl wavenumbers were computed by density functional theoretical (DFT) computations at the B3LYP/6-31G* level and they were found to be in good agreement with the experimental values. The molecule is adsorbed on the silver surface with the benzene ring in a 'tilted orientation'.     

Theoretical studies of force fields and IR spectra of isocytosine

The optimized geometries, complete harmonic force fields, and infrared intensities of isocytosine tautomers, amino‐hydroxy and amino‐oxoN(1)H, were calculated at the ab initio Hartree–Fock level using the 6‐31G* basis set. The theoretical force fields were scaled by empirical scale factors, which were determined by fitting to the IR spectrum of the amino‐oxo form and were then transferred to the amino‐hydroxy form. The average deviations between experimental and computed frequencies are 7.6 cm⁻¹ for amino‐oxo and 9.5 cm⁻¹ for amino‐hydroxy, respectively. The assignments of the fundamental frequencies and the transferability of the force constant scale factors are also presented. ©1999 John Wiley & Sons, Inc. Int J Quant Chem 72: 53–60, 1999     

IR, Raman and theoretical ab initio RHF study of aminoglutethimide — an anticancer drug

A comparative analysis of the IR and Raman spectra of aminoglutethimide (AG) dissolved in CCl₄, CHCl₃ and CH₃CN was performed. Most of the absorption bands were assigned to characteristic group vibrations with the use of the IR and Raman spectra of deuterated AG, glutethimide, N-methyl glutethimide and glutarimide. The AG samples very weakly interacting with the environment were studied with the use of the Ar matrix isolation IR spectra. For comparison, the IR and Raman spectra of the crystalline samples formed by hydrogen-bonded AG molecules were recorded. The spectra were analyzed also in terms of normal modes and the harmonic approximation with the use of the ab initio restricted Hartree-Fock theory. It was found that increasing the solute concentration in CCl₄ and CHCl₃ leads to formation of the autoassociates. In CH₃CN the solute–solvent AG–CH₃CN dimers occur. Possible structures of the associates were theoretically studied on the model systems: the centrosymmetric glutarimide dimer and the linear AG–CH₃CN dimer. By a comparison of the theoretical and experimental spectra we were able to identify several peaks originating from the solute–solvent interactions.     

6‐31G* basis set for third‐row atoms

Medium basis sets based upon contractions of Gaussian primitives are developed for the third‐row elements Ga through Kr. The basis functions generalize the 6‐31G and 6‐31G* sets commonly used for atoms up to Ar. A reexamination of the 6‐31G* basis set for K and Ca developed earlier leads to the inclusion of 3d orbitals into the valence space for these atoms. Now the 6‐31G basis for the whole third‐row K through Kr has six primitive Gaussians for 1s, 2s, 2p, 3s, and 3p orbitals, and a split‐valence pair of three and one primitives for valence orbitals, which are 4s, 4p, and 3d. The nature of the polarization functions for third‐row atoms is reexamined as well. The polarization functions for K, Ca, and Ga through Kr are single set of Cartesian d‐type primitives. The polarization functions for transition metals are defined to be a single 7f set of uncontracted primitives. Comparison with experimental data shows good agreement with bond lengths and angles for representative vapor‐phase metal complexes. © 2001 John Wiley & Sons, Inc. J Comput Chem 22: 976–984, 2001     

Accurate atomic Gaussian basis functions for second-row atoms: Small split-valence 3-21SP and 4-22SP basis sets

Small split-valence Gaussian 3-21SP and 4-22SP basis sets, previously reported for the first-row atoms [Chem. Phys. Lett., 229 , 151 (1996)], have been extended for the second-row elements of the Periodic Table. The total energies of the ground states of the second-row atoms calculated with the new basis sets are significantly lower than those obtained with the well-known 3-21G (J. Am. Chem. Soc., 104 , 2797 (1982)] and 4-31G [J. Chem. Phys., 56 , 5255 (1972)] basis sets. This is because, as first noted in our previous work for first-row atoms, that the 3-21G and 4-31G basis sets only correspond to a local minimum of the Hartree–Fock energy functional, which is relatively far from its global minimum. The proposed basis sets have been tested by performing geometry optimizations and calculations of normal frequencies in the harmonic approximation of some diatomic and polyatomic molecules at the Hartree–Fock level. © 1997 John Wiley & Sons, Inc. J Comput Chem 18: 1200–1210     

Substitutional carbon defects in silicon: A quantum mechanical characterization through the infrared and Raman spectra

The infrared (IR) and Raman spectra of eight substitutional carbon defects in silicon are computed at the quantum mechanical level by using a periodic supercell approach based on hybrid functionals, an all electron Gaussian type basis set and the CRYSTAL code. The single substitutional C _s case and its combination with a vacancy (C _sV and C _sSiV) are considered first. The progressive saturation of the four bonds of a Si atom with C is then examined. The last set of defects consists of a chain of adjacent carbon atoms C, with i = 1–3. The simple substitutional case, C _s, is the common first member of the three sets. All these defects show important, very characteristic features in their IR spectrum. One or two C related peaks dominate the spectra: at 596 cm⁻¹ for C _s (and C _sSiV, the second neighbor vacancy is not shifting the C _s peak), at 705 and 716 cm⁻¹ for C _sV, at 537 cm⁻¹ for C and C (with additional peaks at 522, 655 and 689 for the latter only), at 607 and 624 cm⁻¹, 601 and 643 cm⁻¹, and 629 cm⁻¹ for SiC, SiC, and SiC, respectively. Comparison with experiment allows to attribute many observed peaks to one of the C substitutional defects. Observed peaks above 720 cm⁻¹ must be attributed to interstitial C or more complicated defects.     

Raman and Infrared Spectra, Ab Initio Calculations, Normal Coordinate Analysis, and Conformational Stability of 2-Methoxypropene

The Raman (3500–40 cm^–1) and infrared (3500–70 cm^–1) spectra of gaseous and solid 2-methoxypropene, CH₃O(CH₃)C=CH₂, and the isotopomers, CD₃O(CH₃)C=CH₂ and CH₃O(CD₃)C=CD₂ have been recorded. In addition, the Raman spectra of the liquids have been recorded with qualitative depolarization measurements. All of these data indicate that only one conformer is present in the fluid phases at ambient temperature and this form is the cis conformer, which remains in the solid. Assignments are provided for the fundamentals of all three isotopomers for the cis conformer with C_s symmetry. The far-infrared spectra of all three isotopic species have been recorded at a resolution of 0.1 cm^–1 in the gas and 1.0 cm^–1 in the solid. The parameters of the potential function governing the asymmetric torsion are determined to be V₃ = 1485 ± 9 cm^–1 and V₆ = –55 ± 4 cm^–1 for the d₀ compound, where only two terms were determined, since a second conformer was not evident. The barrier to internal rotation for the methyl group attached to the oxygen atom is 1370 ± 8 cm^–1 and the C—CH₃ barrier is 772 ± 5 cm^–1. Ab initio calculations with full electron correlation have been carried out by the perturbation method to second order to obtain the equilibrium structural parameters, harmonic force constants, fundamental frequencies, infrared intensities, Raman activities, depolarization values, and conformational stability. The predicted values have been compared to the experimental values where appropriate.     

Computationally-assisted approach to the vibrational spectra of molecular crystals: study of hydrogen-bonding and pseudo-polymorphism.

A new computationally-assisted methodology (PiMM), which accounts for the effects of intermolecular interactions in the crystal, is applied to the complete assignment of the Raman and infrared vibrational spectra of room temperature forms of crystalline caffeine, theobromine, and theophylline. The vibrational shifts due to crystal packing interactions are evaluated from ab initio calculations for a set of suitable molecular pairs, using the B3LYP/6-31G* approach.The proposed methodology provides an answer to the current demand for a reliable assignment of the vibrational spectra of these methyl-xanthines, and clarifies several misleading assignments. The most relevant intermolecular interactions in each system and their effect on the vibrational spectra are considered and discussed. Based on these results, significant insights are obtained for the structure of caffeine in the anhydrous form (stable at room temperature), for which no X-ray structure has been reported. A possible structure based on C((8))--H...N((9)) and C((1,3))--H...O intermolecular interactions is suggested.     

Chair, boat and twist conformation of dodecamethylcyclohexasilane and undecamethylcyclohexasilane: a combined DFT and Raman spectroscopic study.

The conformations of dodecamethylcyclohexasilane Si6Me12 and undecamethylcyclohexasilane Si6Me11H have been investigated by ab initio calculations employing the B3LYP density functional with a 6-31+G(d) basis set. Local minima as well as transition structures were calculated with imposed symmetry constraints. For Si6Me12, three unique minima, which correspond to the chair, twist and boat conformations were located with relative zero-point-vibration-corrected energies of 0.0, 7.8 and 11.4 kJ mol(-1). A half-chair conformation with four coplanar silicon atoms connects the chair and twisted minima via an energy barrier of 16.0 and 8.2 kJ mol(-1), respectively. A second transition structure with a barrier of 3.9/0.3 kJ mol(-1) connects the twist with the boat structure. Solution Raman spectra of Si6(CH3)12 and Si6(CD3)12 fully corroborate these results. Below -40 degrees C, the symmetric SiSi ring breathing vibration is a single line, which develops a shoulder (originating from the twist conformer) at longer wavelengths whose intensity increases with increasing temperature. From a Van't Hoff plot, the chair/twist enthalpy difference is 6.6+/-1.5 kJ mol(-1) for Si6(CH3)12 and 6.0+/-1.5 kJ mol(-1) for Si6(CD3)12, which is in reasonable agreement with the ab initio results. Due to the low barrier, the boat conformation cannot be observed, because either the lowest torsional vibration level lies above it or a rapid interconversion between the twist and boat conformations occurs, resulting in averaged Raman spectra. For Si6Me11H, six local minima were located. The chair with the hydrogen atom in the axial position (axial chair) is the global minimum, followed by the equatorial chair (+1.9 kJ mol(-1)) and the three twist conformers (+5.3, +8.0 and +8.1 kJ mol(-1)). The highest local minimum (+11.9 kJ mol(-1)) is a C(s) symmetric boat with the hydrogen atom in the equatorial position. Two possible pathways for the chair-to-chair interconversion with barriers of 13.9 and 14.5 kJ mol(-1) have been investigated. The solution Raman spectra in the SiSi ring breathing region clearly show that below -50 degrees C only the axial and equatorial chairs are present, with an experimental deltaH-value of 0.46 kJ mol(-1). With increasing temperature a shoulder develops which is attributed to the combined twist conformers. The experimental deltaH-value is 6.9 kJ mol(-1), in good agreement with the ab initio results. Due to the low interconversion barriers, the various twist conformers cannot be detected separately.     

Experimental and Theoretical Investigation of Vibrational Spectra of Coordination Polymers Based on TCE‐TTF

The room‐temperature infrared and Raman spectra of a series of four isostructural polymeric salts of 2,3,6,7‐tetrakis(2‐cyanoethylthio)‐tetrathiafulvalene (TCE‐TTF) with paramagnetic (Co^II, Mn^II) and diamagnetic (Zn^II, Cd^II) ions, together with BF₄^? or ClO₄^? anions are reported. Infrared and Raman‐active modes are identified and assigned based on theoretical calculations for neutral and ionized TCE‐TTF using density functional theory (DFT) methods. It is confirmed that the TCE‐TTF molecules in all the materials investigated are fully ionized and interact in the crystal structure through cyanoethylthio groups. The vibrational modes related to the C?C stretching vibrations of TCE‐TTF are analyzed assuming the occurrence of electron–molecular vibration coupling (EMV). The presence of the antisymmetric C?C dimeric mode provides evidence that charge transfer takes place between TCE‐TTF molecules belonging to neighboring polymeric networks.     

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.     

Infrared and Raman spectra, conformational stability, ab initio calculations, and vibrational assignments for methylaminothiophosphoryl difluoride

Infrared spectra (4000–50 cm⁻¹) of the vapor, amorphous and crystalline solids and Raman spectra (3600–10 cm⁻¹) of the liquid with qualitative depolarization data as well as the amorphous and crystalline solids of methylaminothiophosphoryl difluoride, CH₃N(H)P(=S)F₂, and three deuterated species, CD₃N(H)P(=S)F₂, CH₃N(D)P(=S)F₂, and CD₃N(D)P(=S)F₂, have been recorded. The spectra indicate that in the vapor, liquid and amorphous solid a small amount of a second conformer is present, whereas only one conformer remains in the low temperature crystalline phase. The near-infrared spectra of the vapor confirms the existence of two conformers in the gas phase. Asymmetric top contour simulation of the vapor shows that the trans conformer is the predominant vapor phase conformer. From a temperature study of the Raman spectrum of the liquid the enthalpy difference between the trans and near-cis conformers was determined to be 368±15 cm⁻¹ (4.41±0.2 kJ/mol), with the trans conformer being thermodynamically preferred. Ab Initio calculations with structure optimization using the 6-31G(d) and 6-311+G(d,p) basis sets at the restricted Hartree–Fock (RHF) and/or with full electron correlation by the perturbation method to second order (MP2) support the occurrence of near-trans (5° from trans) and near-cis (20° from cis) conformers. From the RHF/6-31G(d) calculation the near-trans conformer is predicted to be the more stable form by 451 cm⁻¹ (5.35 kJ/mol) and from the MP2/6-311+G(d,p) calculation by 387 cm⁻¹ (4.63 kJ/mol). All of the normal modes of the near-trans rotamer have been assigned based on infrared band contours, depolarization values and group frequencies and the assignment is supported by the normal coordinate calculation utilizing harmonic force constants from the MP2/6-31G(d) ab initio calculations.     

First investigation of non-classical dihydrogen bonding between an early transition-metal hydride and alcohols: IR, NMR, and DFT approach

The interaction of [NbCp(2)H(3)] with fluorinated alcohols to give dihydrogen-bonded complexes was studied by a combination of IR, NMR and DFT methods. IR spectra were examined in the range from 200-295 K, affording a clear picture of dihydrogen-bond formation when [NbCp(2)H(3)]/HOR(f) mixtures (HOR(f) = hexafluoroisopropanol (HFIP) or perfluoro-tert-butanol (PFTB)) were quickly cooled to 200 K. Through examination of the OH region, the dihydrogen-bond energetics were determined to be 4.5+/-0.3 kcal mol(-1) for TFE (TFE = trifluoroethanol) and 5.7+/-0.3 kcal mol(-1) for HFIP. (1)H NMR studies of solutions of [NbCp(2)H(2)(B)H(A)] and HFIP in [D(8)]toluene revealed high-field shifts of the hydrides H(A) and H(B), characteristic of dihydrogen-bond formation, upon addition of alcohol. The magnitude of signal shifts and T(1) relaxation time measurements show preferential coordination of the alcohol to the central hydride H(A), but are also consistent with a bifurcated character of the dihydrogen bonding. Estimations of hydride-proton distances based on T(1) data are in good accord with the results of DFT calculations. DFT calculations for the interaction of [NbCp(2)H(3)] with a series of non-fluorinated (MeOH, CH(3)COOH) and fluorinated (CF(3)OH, TFE, HFIP, PFTB and CF(3)COOH) proton donors of different strengths showed dihydrogen-bond formation, with binding energies ranging from -5.7 to -12.3 kcal mol(-1), depending on the proton donor strength. Coordination of proton donors occurs both to the central and to the lateral hydrides of [NbCp(2)H(3)], the former interaction being of bifurcated type and energetically slightly more favourable. In the case of the strong acid H(3)O(+), the proton transfer occurs without any barrier, and no dihydrogen-bonded intermediates are found. Proton transfer to [NbCp(2)H(3)] gives bis(dihydrogen) [NbCp(2)(eta(2)-H(2))(2)](+) and dihydride(dihydrogen) complexes [NbCp(2)(H)(2)(eta(2)-H(2))](+) (with lateral hydrides and central dihydrogen), the former product being slightly more stable. When two molecules of TFA were included in the calculations, in addition to the dihydrogen-bonded adduct, an ionic pair formed by the cationic bis(dihydrogen) complex [NbCp(2)(eta(2)-H(2))(2)](+) and the homoconjugated anion pair (CF(3)COO...H...OOCCF(3))(-) was found as a minimum. It is very likely that these ionic pairs may be intermediates in the H/D exchange between the hydride ligands and the OD group observed with the more acidic alcohols in the NMR studies.