Interpretation of the IR and Raman spectra of morin by density functional theory and comparative analysis

Density functional theory calculations, with M05-2X functional and 6-311++G(d,p) basis set implemented in the Gaussian 09 package, are performed with the aim to support molecular structure and spectroscopic characteristics of morin, a bioflavonoid molecule known for its antiproliferative, antitumor, and anti-inflammatory effects. Detailed vibrational spectral analysis and the assignments of the bands, done on the best-fit basis comparison of the experimentally obtained and theoretically calculated IR and Raman spectra, match quite well indicating DFT calculations as very accurate source of normal mode assignments. The assignment of the most prominent normal modes of morin is qualitatively verified through comparative spectral analysis with quercetin, a structurally isomeric molecule of morin which differs only by the substitution pattern of the B ring. Performed comparative analysis reflects quite accurately all the structural differences between the investigated molecules additionally proving the applied theoretical method.     

Ab initio and DFT studies of the molecular structures and vibrational spectra of succinonitrile

The Molecular structure, conformational stability and vibrational frequencies of succinonitrile NCCH2CH2CN have been investigated with ab initio and density functional theory (DFT) methods implementing the standard 6-311++G* basis set. The potential energy surfaces (PES) have been explored at DFT-B3LYP, HF and MP2 levels of theory. In agreements with previous experimental results, the molecule was predicted to exist in equilibrium mixture of trans and gauche conforms with the trans form being slightly lower in energy. The vibrational frequencies and the corresponding vibrational assignments of succinonitrile in both C2h and C2 symmetry were examined theoretically and the calculated Infrared and Raman spectra of the molecule were plotted. Observed frequencies for normal modes were compared with those calculated from normal mode coordinate analysis carried out on the basis of ab initio and DFT force fields using the standard 6-311++G* basis set of the theoretical optimized geometry. Theoretical IR intensities and Raman activities are reported.     

X-ray,vibrational spectra and density functional studies on cynacure

The solid-state X-ray diffraction, FT-IR and FT-Raman measurements of cynacure have been performed. Optimized molecular structures and normal vibrations of cynacure and 2-(methylthio)aniline have been calculated in the gas phase at the B3LYP/6-311++G** level. Scaling factors that bring computational gas-phase frequencies in closer agreement with the solid-state experimental data have been calculated for each vibration type. The observed IR and Raman bands of cynacure and 2-(methylthio)aniline have been assigned in the frameworks of the calculated mode frequencies as well as the calculated IR and Raman intensities. The assignments of the normal modes of cynacure have been compared with those of the benzene and 2-(methylthio)aniline modes. The effects of the substitution on the benzene vibrational frequencies have been investigated. 2-(Methylthio)aniline and cynacure both have four stable conformers. The calculated ground-state energetics and vibrational spectra of 2-(methylthio)aniline and cynacure suggest the coexistence of their stable conformers at the room temperature.     

Vibrational spectra and natural bond orbital analysis of the herbicidal molecule 2(4-chlorophenoxy)-2-methyl propionic acid

The herbicide 2(4-chlorophenoxy)-2-methyl propionic acid (MCPP) has been subjected to NIR FT-Raman and infrared spectral studies. The optimized molecular structure, vibrational wavenumbers, IR intensities and Raman activities have been calculated by using density functional method (B3LYP) with the standard 6-31G(d) basis set. The calculated molecular geometry has been compared with the XRD data. The detailed assignments of the normal modes have been performed based on the potential energy distribution (PED) following the scaled quantum mechanical force field (SQMFF) methodology. The IR and Raman spectra have been plotted for the calculated wavenumbers. The simulated spectra satisfactorily coincide with the experimental spectra. The strong hyperconjugative interaction and charge delocalization that leads to the stability of the molecule have been investigated with the aid of natural bond orbital (NBO) analysis.     

Normal coordinate and infrared band intensities of trichloronitromethane and trichloroacetate ions

Laser Raman and IR spectra in the region 50–3000 cm⁻¹ for trichloronitromethane and trichloroacetate ions were recorded. All observed vibrational bands have been assigned to normal modes. Normal coordinate analyses of these molecules have been carried out in the valence force-field approximation. A set of force constants was obtained leading to good agreement between observed and calculated frequencies. The relative displacements of the atoms resulting from normal coordinate calculations were used to compute the IR band intensity of each mode by the CNDO/2-MO procedure. The intensity calculations confirmed the assignments and supported the calculated force constants.     

Synthesis, FTIR, FT-Raman, UV-visible, ab initio and DFT studies on benzohydrazide

A systematic vibrational spectroscopic assignment and analysis of benzohydrazide (BH) has been carried out by using FTIR and FT-Raman spectral data. The vibrational analysis were aided by electronic structure calculations--ab initio (RHF) and hybrid density functional methods (B3LYP and B3PW91) performed with 6-31G(d,p) and 6-311++G(d,p) basis sets. Molecular equilibrium geometries, electronic energies, IR intensities, harmonic vibrational frequencies, depolarization ratios and Raman activities have been computed. Potential energy distribution (PED) and normal mode analysis have also been performed. The assignments proposed based on the experimental IR and Raman spectra have been reviewed and complete assignment of the observed spectra have been proposed. UV-visible spectrum of the compound was also recorded and the electronic properties, such as HOMO and LUMO energies and λ(max) were determined by time-dependent DFT (TD-DFT) method. The geometrical, thermodynamical parameters and absorption wavelengths were compared with the experimental data. The interactions of carbonyl and hydrazide groups on the benzene ring skeletal modes were investigated.     

Photoacoustic spectra and modes of vibration of TNT and RDX at CO2 laser wavelengths

IR spectra in the 'Finger Print' spectral range has great importance in qualitative and quantitative analysis of explosives like trinitrotoluene (TNT) and cyclotrimethyltrinitramine (RDX). Highly resolved IR bands of these compounds have been recorded in the 9.6 and 10.6 microm regions of CO2 laser. TNT and RDX are large molecules each having 21 atoms and it is very difficult to assign the modes of vibrations by comparison with those in other molecules making the vibrational assignments of observed bands a difficult task. The ab initio quantum chemical calculation is used for determining the molecular geometries and modes of vibration of these molecules with a view to assign their normal modes in the high resolution vibrational photoacoustic spectra. These assignments are very reliable in view of the good agreement between the observed and calculated frequencies of deuterated TNT.     

Vibrational assignments of 2-iodopyridine

A review of the vibrational assignments for 2-iodopyridine has been proposed based on the FT-Raman (3500-50cm(-1)) and IR (4000-400cm(-1)) spectral measurements. Equilibrium geometries and vibrational frequencies have been computed from a variety of electronic structure methods: the ab initio (RHF), six DFT (BLYP, BP86, B3LYP, B3P86, B3PW91 and SVWN) and MP2 methods using 3-21G*, LANL2DZ and DGDZVP basis sets. A normal coordinate analysis has been carried out: the normal modes and their couplings are characterized in terms of potential energy distributions (PEDs). The comparison of assignments for pyridine and halopyridines shows that several of the normal modes arise from coupled vibrations in 2-iodopyridine. The BP86 and B3LYP methods with LANL2DZ basis set have performed reasonably well in reproducing the observed spectra, demonstrating that the LANL2DZ basis set (with effective core potential representations of electrons near the nuclei for post-third row atoms) is suitable for 2-iodopyridine.     

Vibrational frequencies and structural determination of adamantane

The normal mode frequencies and corresponding vibrational assignments of adamantane in Td symmetry are examined theoretically using the Gaussian 98 set of quantum chemistry codes. All normal modes were successfully assigned to one of eight types of motion predicted by a group theoretical analysis. The vibrational modes of the deuterated form of adamantane were also calculated and compared against experimental data.     

Theoretical investigation of the structure and vibrational spectra of carbamoyl azide

Molecular structure and vibrational frequencies of carbamoyl azide NH2CO-NNN have been investigated with ab initio and density functional theory (DFT) methods. The molecular geometries for all the possible conformers of the molecule were optimized using DFT-B3LYP, DFT-BLYP and MP2 applying the standard 6-311++G** basis set. From the calculations, the molecule was predicted to exist predominantly in cis conformation with the cis-trans rotational barrier of about 7.91-9.10 kcal/mol depending on the level of theory applied. The vibrational frequencies and the corresponding vibrational assignments of carbamoyl azide in Cs symmetry were examined theoretically and the calculated Infrared and Raman spectra of the molecule in the cis conformation were plotted. Observed frequencies for normal modes were compare with those calculated from normal mode coordinate analysis carried out on the basis of ab initio and DFT force fields using the standard 6-311++G** basis set of the theoretical optimized geometry. Theoretical IR intensities and Raman activities are reported.     

Vibrational frequencies and structural determination of hafnium tetrahydroborate

The normal mode frequencies and corresponding vibrational assignments of of hafnium tetrahydroborate in T symmetry are examined theoretically using the Gaussian 98 set of quantum chemistry codes. All normal modes were successfully assigned to one of to one of six types of motion (B-H stretch, Hf-B stretch, B-Hf-B bend, H-B-H bend, BH4 wag, and BH4 twist) predicted by a group theoretical analysis. By comparing the vibrational frequencies with IR and Raman spectra available in the literature, a set of scaling factors is derived. Theoretical IR and Raman intensities are reported. Quantum chemical calculations predict that the molecule does not possess strict Td symmetry. The Td structure possesses one negative eigenvalue. The minimum energy structure possesses T symmetry.     

Vibrational frequencies and structural determinations of hexamethylenetetraamine

The normal mode frequencies and corresponding vibrational assignments of hexamethylenetetraamine (HMTA) in Td symmetry are examined theoretically using the Gaussian 98 set of quantum chemistry codes. All normal modes were successfully assigned to one of eight types of motion predicted by a group theoretical analysis. The vibrational modes of the deuterated form of HMTA (HMTA d-12) were also calculated and compared against experimental data. The normal mode vibrational frequencies were shifted to lower frequencies as on deuteration as expected. However, in some cases the dominant motion type changed on deuteration leading to an apparent 'blue shift' of some of the N-C stretching modes. It is possible that the observed frequency shifts are the result of a Fermi resonance condition.     

Revised vibrational band assignments for the experimental IR and Raman spectra of 2,3,4-trifluorobenzonitrile based on ab initio, DFT and normal coordinate calculations

In the present study, a systematic vibrational spectroscopic investigation for the experimental IR and Raman spectra of 2,3,4-trifluorobenzonitrile (TFB), aided by electronic structure calculations has been carried out. The electronic structure calculations – ab initio (RHF) and hybrid density functional methods (B3LYP) – have been performed with 6-31G* basis set. Molecular equilibrium geometries, electronic energies, IR intensities, harmonic vibrational frequencies, depolarization ratios and Raman activities have been computed. The results of the calculations have been used to simulate IR and Raman spectra for TFB that showed excellent agreement with the observed spectra. Potential energy distribution (PED) and normal mode analysis have also been performed. The assignments proposed based on the experimental IR and Raman spectra have been reviewed. A complete assignment of the observed spectra has been proposed.     

Experimental and theoretical studies on vibrational spectra of 4-(2-furanylmethyleneamino)antipyrine, 4-benzylideneaminoantipyrine and 4-cinnamilideneaminoantipyrine

This work deals with the IR and Raman spectroscopy of 4-(2-furanylmethyleneamino) antipyrine (FAP), 4-benzylideneaminoantipyrine (BAP) and 4-cinnamilideneaminoantipyrine (CAP) by means of experimental and quantum chemical calculations. The equilibrium geometries, harmonic frequencies, infrared intensities and Raman scattering activities were calculated by density functional B3LYP method with the 6-31G(d) basis set. The comparisons between the calculated and experimental results covering molecular structures, assignments of fundamental vibrational modes and thermodynamic properties were investigated. The optimized molecular geometries have been compared with the experimental data obtained from XRD data, which indicates that the theoretical results agree well with the corresponding experimental values. For the three compounds, comparisons and assignments of the vibrational frequencies indicate that the calculated frequencies are close to the experimental data, and the IR spectra are comparable with some slight differences, whereas the Raman spectra are different clearly and the strongest Raman scattering actives are relative tightly to the molecular conjugative moieties linked through their Schiff base imines. The thermodynamic properties (heat capacities, entropies and enthalpy changes) and their correlations with temperatures were also obtained from the harmonic frequencies of the optimized strucutres.     

Molecular structure and vibrational assignment of 2-,4-,6-methylquinoline by density functional theory (DFT) and ab initio Hartree-Fock (HF) calculations

The molecular geometry, the normal mode frequencies and corresponding vibrational assignments of 2-,4-,6-methylquinoline (2-,4-,6-mq) in the ground state were performed by HF and DFT/B3LYP levels of theory using the 6-31++G(d,p) basis set. Harmonic and anharmonic vibrational frequencies were calculated. The complete assignments were performed on the basis of the total energy distribution (TED) of the vibrational modes, calculated with scaled quantum mechanics (SQM) method by using parallel quantum mechanic solutions program. The general agreements between the observed and calculated frequencies are shown.     

Inelastic neutron scattering spectrum of Cs2[B12H12]: reproduction of its solid-state vibrational spectrum by periodic DFT

The inelastic neutron scattering (INS) spectrum of polycrystalline Cs2[B12H12] is assigned through 1200 cm(-1) on the basis of aqueous and solid-state Raman/IR measurements and normal mode analyses from solid-state density functional theory. The Cs+ cations are responsible for frequency shifts of the internal cage vibrational modes and I(h) cage mode splittings due to the crystal T(h) site symmetry. These changes to the [B12H12]2- molecular modes make isolated-molecule calculations inadequate for use in complete assignments. Solid-state calculations reveal that 30/40 cm(-1) shifts of Tg/Hg molecular modes are responsible for structure in the INS spectrum unobserved by optical methods or in aqueous solutions.     

Vibrational frequencies and structural determination of tetraiododiphosphine

The normal mode frequencies and corresponding vibrational assignments of of tetraiododiphosphine in C2h symmetry are examined theoretically using the Gaussian 98 set of quantum chemistry codes. All normal modes were successfully assigned to one of six types of motion (P-I stretch, P-P stretch, PI2 scissors, PI2 twist, PI2 wag, and PI2 rock) predicted by a group theoretical analysis. Computed vibrational frequencies are with IR and Raman spectra available in the literature, and uniform scaling factors are derived. Theoretical IR and Raman intensities are reported.     

Molecular structure and vibrational spectra of 4-, 5-, 6-chloroindole

The molecular geometry, IR intensities, harmonic and anharmonic vibrational frequencies of 4-, 5-, 6-chloroindole in the ground state were calculated by DFT/B3LYP level of theory using the 6-31G (d, p) basis set. To give complete and reasonable vibrational assignments, the normal coordinate analysis has been performed for 4-chloroindole, 5-chloroindole and 6-chloroindole. The effect of position of chloro atom on the molecular properties (electron density, dipole moments and energies) of the indole aromatic system is examined on the basis of calculation data for 4-, 5- and 6-chloroindoles.     

Potential energy distribution study of infrared frequencies of methylamine and methylphosphine

Normal mode assignments of the IR frequencies of methylamine and methylphosphine and their deuterated isotopomers are determined based on calculated potential energy distributions. The PED for each frequency is found using Kim’s Correspondence Rules of unified group theory and the program MOLVIB. The predominant motion of each PED is used to name the corresponding vibrational frequency. We compare our results with literature values. Our IR frequency assignments show generally good agreement with experiment and other calculations although there are some differences. We observe no differences in the principal component of normal mode PEDs across different levels of theory with the same basis set. We observe a few differences at the same level of theory with different basis sets.