Experimental and quantum-chemical study of the mechanism of oxidation of 5-hydroxy-6-methyl-uracil by molecular oxygen in the presence of copper(II) ions

It has been discovered experimentally that 5,5,6-trihydroxy-6-methylpyrimidine-2,4-dione is formed on oxidizing 5-hydroxy-6-methyluracil with molecular oxygen in aqueous medium in the presence of copper(II) chloride. Ab initio and DFT calculations on the 6-31G* basis, both in the gas phase and allowing for solvent, showed that the process proceeds with the direct participation of an activated oxygen molecule on the complex CuCl₂·(5-hydroxy-6-methyluracil)2. Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 4, pp. 586-593, April, 2009.     

Proton-donor properties of HCCl3, HSiCl3, and HGeCl3 molecules: a quantum-chemical study

Proton-donor properties of HCCl₃, HSiCl₃, and HGeCl₃ molecules were studied by quantum-chemical methods. According to calculations, the Mulliken charge of H is positive in trichloromethane and negative in the other two molecules. Trichlorogermane readily interacts with bases (B) to give the contact ion pairs HB⁺·GeCl₃ ^–. Reactions of trichlorosilane with strong bases also can lead to its reorganization and the formation of contact ion pairs. In all the ion pairs, the anions are oriented to the HB⁺ cations by the negatively charged Cl atoms. Owing to possible transfer of Cl^– to HB⁺, this type of ion pairs can be a source of dichlorogermylene GeCl₂ and, probably, dichlorosilylene SiCl₂.     

Conformational features of Cl3P=NC(CF3)3 and Cl3P=NCCl(CCl3)2 molecules according to results of non-empirical calculations

Non-empirical RHF/6-31G* and MP2/6-31G* quantum chemical methods are used to calculate the molecular structure of trichlorophosphazene compounds: Cl₃P=NC(CF₃)₃ (I) and Cl₃P=NCCl(CCl₃)₂ (II). The corresponding geometric parameters obtained from the calculations are compared with X-ray diffraction analysis data reported in the literature. Conformational differences between the molecules of I and II, previously found by X-ray diffraction in the crystals of these compounds, are confirmed by non-empirical calculations of the molecules in the free state. The features of their geometry caused by intramolecular interactions are discussed.     

X-ray diffraction and quantum-chemical study of 3-(1,3-dioxolan-2-yl)-4,6-dinitrobenzo[d]isoxazole

X-ray diffraction study of the molecular structure of 3-(1,3-dioxolan-2-yl)-4,6-dinitrobenzo[d]isoxazole in the crystal, and quantum-chemical calculations of the isolated molecule demonstrated that the differences in the reactivity of the nitro groups at positions 4 and 6 are not associated with the electronic structure of the molecule but are, apparently, attributed to the properties of the corresponding ipso- complexes.     

Synthesis,acid-base and spectral properties of 3-(benzoimidazol-2-yl)-2-phenylimino-2H-chromenes

3-(Benzoimidazol-2-yl)-2-phenylimino-2H-chromenes were synthesized. The protolytic equilibrium constants in 50% ethanol were determined. The correlations of the pK _a values for the compounds in the ground and excited states and the PM3-calculated heats of formation with the ⁺ constants of substituents were established. The nitrogen atom of the benzoimidazole fragment is the center of protonation in the studied compounds.     

Quantum chemical investigation of linear hydrogen bonding in ONCCN···HX (X = F,Cl, Br) dimers

Linear hydrogen bonding formed between the nitrogen end of cyanogen‐N‐oxide (ONCCN) and hydrogen halides HX (X = F, Cl, Br) has been observed in their ground Σ states. The order of agreement of energetic stabilities between the correlated functionals used in this calculation is: B3LYP < PBE0 < PBE < PW91 in conjunction with the 6–311++G(3df,3pd) basis set. Analysis of various parameters describing the existence of H‐bonds in these dimers follows the conventional trend: ONCCN···HF > ONCCN···HCl > ONCCN···HBr in the series, except H‐bond lengths and static dipole polarizabilities which are in reverse order. The atomic charges obtained from the Mulliken and natural population analysis is used to assess the charge transfer effects that accompany the dimer formation. It is found from the investigation that the dimers having highest binding energy are accompanied by the highest transfer of charge. The ¹⁴N nuclear quadrupole coupling constants of the monomer ON¹CCN² are found to be decreased upon complection and in the series it increases from F through Br. We observed enhancements in the values of the dimer dipole moment and intrinsic dipole polarizabilities compared with the sum of the monomer values by intermolecular electrical interaction. Investigation reveals vibrational spectral shifts of HX and CN stretching modes similar to the conventional red‐shifted H‐bonded dimers; for the former case, the infrared band intensity increases significantly. Finally, the new vibrational modes originated from the intermolecular interaction are outlined. © 2006 Wiley Periodicals, Inc. Int J Quantum Chem, 2007     

Experimental and quantum-chemical study of the interaction of cyclohexanediones and their monoethylene ketals with hydrogen peroxide

The reactivity of cyclohexanediones and their monoethylene ketals with hydrogen peroxide was studied. It was established that 1,2- and 1,3-cyclohexanediones virtually do not react with H₂O₂, whereas 1,4-cyclohexanedione forms 1,4-dihydroxy-1,4-dihydroperoxycyclohexane. Monoethylene ketals of cyclohexanediones react with hydrogen peroxide to form the corresponding -hydroxy--hydroperoxides. The stereoelectronic factors determining the difference in reactivity of the carbonyl fragment in cyclohexanone, 1,2-cyclohexanedione, and its monoethylene ketal were analyzed within the framework of the semiempirical quantum chemical method MNDO.N. D. Zelinskii Institute of Organic Chemistry, Russian Academy of Sciences, 117913 Moscow. Translated from Izvestiya Akademii Nauk, Seriya Khimicheskaya, No. 1, pp. 142–147, January, 1992.     

Molecular structure of 6-(N,N-dimethylamino)fulvene from a joint gas-phase electron diffraction and quantum-chemical study

The molecular structure of 6-(N,N-dimethylamino)fulvene was studied by gas-phase electron diffraction and quantum-chemical methods (HF/6-31G(d), MP2/3Z, MP2/4Z, density functional theory with the B3LYP/6-31G(d) and PBE/3Z functionals). Pronounced flattening of the nitrogen atom and equalization of the intracyclic C—C bonds were found to be a consequence of the electron delocalization in the molecule.     

Experimental and theoretical investigation of the electronic absorption spectra of 2-H(methyl, methylthio, phenyl)-3,4-dihydro-4-quinazolinylidenecyanoacetic ester

The effect of substituents (Me, SMe, Ph) in position 2 has been studied on the nature of the absorption bands of 2-H-3,4-dihydro-4-quinazolinylidenecyanoacetic esters and a very high sensitivity on the substituent has been detected for the short wave maxima. On the basis of data calculated by the ZINDO/S method the featureless long-wave absorption band was assigned to an electronic transition from HOMO to LUMO caused by charge transfer from fragments of the benzene ring and the N=C—N bond to the >C=C—C=O fragment. Dedicated to Professor L. I. Belen’kii on his 75th birthday. __________ Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 2, pp. 227–232, February, 2006.     

Anab initio quantum-chemical study of proton addition to F-, Ch3-, and CF3-substituted ethylene derivatives

Protonated forms of the molecules of ethylene derivatives with the general formula C₂X₂Y₂ (X=Y=H) (1), F (2), CH₃ (3) CH₃ (4); X=F, Y=H:cis-(5)trans- (6)) were calculated by theab initio MP2/6-31 G^* method with full geometry optimization. The minima and saddle points located on the potential energy surface (PES) of the protonated ethylene molecule correspond to the stationary states and transition states of proton migration, respectively. The stationary states are characterized by a nonclassical geometry of carbocations similar to that of π-complexes, whereas the transition states have a classical structure. Unlike1, the carbocations of molecules2–6 have the classical structure. The saddle points on the PES of the ethylene derivatives correspond to the structures of the π-complex type, which are the transition states of proton migration between the C atoms of the ethylene bond. The barrier to rotation about, the C−C bond depends essentially on the substituent nature. Published inIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 8, pp. 1333–1337, August, 2000.     

The structure of CX2YNO (X, Y=F, Cl) molecules in the ground and lowest excited singlet electronic states

Ab initio quantum-chemical calculations of equilibrium geometric parameters, vibrational frequencies, and potentials of internal rotation for CCIF₂NO and CCl₂FNO molecules in the ground (S₀) and lowest excited singlet (S₁) electronic states were performed. The results of calculations were compared with experimental data. A new interpretation of experimental spectra of the CCIF₂NO molecule was suggested. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 8, pp. 1453–1458, August, 1999.     

Lithium 5-(2-diphenylphosphinoethyl)-1,2,3,4-tetramethylcyclopentadienide: Regioselectivity of alkylation of the tetramethylcyclopentadienide anion

Treatment of a mixture of isomeric (2-chloroethyl)-1,2,3,4-tetramethylcyclopentadienes with lithium diphenylphosphide leads to novel 4,5,6,7-tetramethylspiro[2,4]hepta-4,6-diene among the reaction products. The reaction of spiroheptadiene obtained with excess LiPPh₂ at elevated temperature affords lithium 5-(2-diphenylphosphinoethyl)-1,2,3,4-tetramethylcyclopentadienide in almost quantitative yield. the regioselectivity of alkylation of the tetramethylcyclopentadienide anion is estimated from quantum-chemical calculations performedab initio for C₅Mc₄H⁻. The full charges on the ring carbon atoms are determined within the framework of Bader's theory of atomic fragments in molecules. Translated fromIzvestiya Akademii Nauk. Seriya, Khimicheskaya, No. 5, pp. 986–989, may, 1998.     

Synthesis and properties of 2-(2-furyl)benzothiazole

The electrophilic reactions (nitration, bromination, hydroxymethylation, formylation, acylation) and radical substitution reactions (nitration, arylation) of 2-(2-furyl)benzothiazole have been studied. It was found that all of the reactions occur at position 5 of the furan ring. Only nitration in PPA gave the 5',6-dinitro derivative. Quantum-chemical calculation data for the electron density distribution in the neutral and protonated 2-(2-furyl)benzothiazole molecules are given. Dedicated to Boris Aleksandrovich Trofimov on his 70^th jubilee. Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 9, pp. 1331–1338, September, 2008.     

Xenon Trioxide Adducts of O-Donor Ligands; [(CH3)2CO]3XeO3, [(CH3)2SO]3(XeO3)2, (C5H5NO)3(XeO3)2, and [(C6H5)3PO]2XeO3

Xenon trioxide (XeO₃) forms adducts with triphenylphosphine oxide, dimethylsulfoxide, pyridine-N-oxide, and acetone by coordination of the ligand oxygen atoms to the Xe^VI atom of XeO₃. The crystalline adducts were characterized by low-temperature, single-crystal X-ray diffraction, and Raman spectroscopy. Unlike solid XeO₃, which detonates when mechanically or thermally shocked, solid (C₅H₅NO)₃(XeO₃)₂, [(C₆H₅)₃PO]₂XeO₃, and [(CH₃)₂SO]₃(XeO₃)₂ are insensitive to mechanical shock. The [(CH₃)₂SO]₃(XeO₃)₂ adduct slowly decomposes over several days to (CH₃)₂SO₂, Xe, and O₂. All three complexes undergo rapid deflagration when ignited by a flame. Both [(C₆H₅)₃PO]₂XeO₃ and (C₅H₅NO)₃(XeO₃)₂ are room-temperature stable and the [(CH₃)₂CO]₃XeO₃ complex dissociates at room temperature to form a stable solution of XeO₃ in acetone. The xenon coordination sphere of [(C₆H₅)₃PO]₂XeO₃, a distorted square-pyramid, provides the first example of a five-coordinate XeO₃ complex with only two Xe- - -O adduct bonds. The xenon coordination spheres of the remaining adducts are distorted octahedra, comprised of three Xe- - -O secondary bonds that are approximately trans to the primary Xe−O bonds of XeO₃. Quantum-chemical calculations were used to assess the nature of the Xe- - -O adduct bonds, which are described as predominantly electrostatic bonds between the nucleophilic oxygen atoms of the bases and the σ-holes of the electrophilic xenon atoms.     

Identity double-proton transfer in (3Z)-3-hydroxy-1,4-di(quinolin-2-yl)but-3-en-2-one

Although there is a very fast (on the NMR timescale) double-proton transfer in (1Z,3Z)-3-hydroxy-4-quinolin-2-yl-1-quinolin-2(1H)-ylidenbut-3-en-2-one (the product of the condensation of ethyl oxalate with 2lithiomethylquinoline), it is the only species present in chloroform solution. Comparison of the product of condensation of ethyl oxalate with 2lithiomethyl derivatives of pyridine (recent studies) and quinoline (present studies) shows that benzoannulation considerably affects the tautomeric equilibrium. The observed changes are not only quantitative but also qualitative. Moreover, contrary to the proton transfer in the pyridine tautomers, this process is fast in the quinoline tautomers. Comparison of the experimental and ab initio/DFT GIAO-calculated (13)C and (15)N chemical shifts for the transition states in the proton-transfer reactions between (1Z,3Z)- 3-hydroxy-4-quinolin-2-yl-1-quinolin-2(1H)-ylidenbut-3-en-2-one and its tautomers support the theory that a concerted identity reaction takes place between the enolimine-enaminone and enaminone-enolimine tautomeric forms. As a consequence, the most stable tautomeric form, (1Z,3Z)-1,4-di(quinolin-2-yl)buta-1,3-diene-2,3-diol, is not present in the tautomeric mixture.     

Experimental and computational studies of [N'-(2-hydroxy-3-methoxybenzylidene)-4-methylbenzenesulfonohydrazide]nickel(II)

Mononuclear Ni(II) complex (C₃₀H₃₀NiN₄O₈S₂) (I) has been obtained with 1: 2 metal/ligand ratio and characterized by single crystal X-ray diffraction (CIF file CCDC no. 1040830), IR, UV-Vis spectroscopic techniques and DFT. X-ray results show that complex I crystallizes in the monoclinic system, space group P2₁/n with four molecules in the unit cell. In structure I, the coordination around Ni atom is distorted square planar. In addition to the crystal structure, the molecular geometry, vibrational frequencies, molecular electrostatic potential, and frontier molecular orbital analysis of compound I in the ground state have been calculated using the B3LYP/6-311G and B3LYP/3-21G methods. The computed vibrational frequencies are used to determine the types of molecular motions associated with each of the observed experimental bands.     

Vibrational spectra of 1,1,3,3-tetramethyl-2-nitroguanidine and their interpretation with the use of scaling of quantum-chemical force field

The IR (4000–50 cm⁻¹) and Raman (3500–170 cm⁻¹) spectra of solid 1,1,3,3-tetramethyl-2-nitroguanidine (TMNG) were obtained. The spectra were interpreted using the scaling of the TMNG quantum-chemical force field in the B3LYP/6-311G(d,p) approximation. Transferable scale factors necessary for the interpretation of spectra of more complex related compounds were determined. The scaled harmonic force field is supposed to be used in the analysis of the available gas-phase electron diffraction data for TMNG. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 495–498, March, 2008.     

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.     

3-Aryl(hetaryl)-3-hydroxy-2-phosphorus-substituted acrylonitriles. Synthesis and experimental and theoretical conformational analysis

Under conditions of the phase transfer catalysis, acylation of (thio)phosphorylacetonitriles by (het)aroyl chlorides affords the Z-enol forms of C-acylation products in high yields. Their configurations were studied by IR spectroscopy, dipole moment measurements, and ab initio quantum-chemical calculations [B3LYP/6-31G(d)]. The C=C double bond and the phosphoryl or thiophosphoryl group have an s-cis arrangement. The possibility of strong intramolecular hydrogen bonding in these conformers is the governing factor responsible for the three-dimensional structures of the compounds under investigation. Derivatives of nicotinic acid existing in the individual form as zwitterions are the only exceptions.