Unexpected dimerization of 1,3‐dimethyl‐5‐methylenebarbituric acid revealed by a combined experimental and computational study

A comparison of experimental and calculated ¹³C‐nuclear magnetic resonance chemical shifts reveals the molecular structure of a dimer that was obtained by an unexpected dimerization of 1,3‐dimethyl‐5‐methylenebarbituric acid. Furthermore, the puckering angle of the cyclobutane unit linking the six‐membered rings is discussed in detail. The influence of substituents on 1,3‐position of the cyclobutane ring on the puckering angle is demonstrated based on 1,1,3,3‐tetramethylcyclobutane. Copyright © 2015 John Wiley & Sons, Ltd.     

A theoretical study of the mechanisms for 1,3‐dipolar cycloadditions of diphenyldiazomethane to C60 and C70

The 1,3‐dipolar cycloaddition (1,3‐DPCA) reaction plays a crucial role during the functionalization of fullerenes, which have broad applications in the materials and pharmaceutical fields. In concert with previous experiments, we theoretically investigated the mechanisms of 1,3‐DPCA of diphenyldiazomethane (DDMf) to two fullerenes (C₆₀ and C₇₀) using the M06‐2X density functional method under vacuum and in solvents. To understand the influence of the dipolarophile on these reactions, the 1,3‐DPCA of DDMf to three common acceptors, specifically tetracyanoethylene (TCNE), 2,3‐dichloro‐5,6‐dicyano‐1,4‐benzoquinone (DDQ), and chloranil (CA), was also studied at the same computational level. The substituent effects on the five reactions were investigated by modeling 1,3‐DPCA reactions with 12 different substituted DDMf (DDMs) with five dipolarophiles, totaling 60 reactions. Including the five unsubstituted DDMf reactions, 65 1,3‐DPCA reactions were studied. The stereoselectivity, relative reactivity, solvent effects, and distortion/interaction energy model were carefully considered and analyzed based on their corresponding electronic structures, electrostatic potential surfaces, interaction models, solvent models, and thermodynamic data. An intermediate was identified for each of the 65 reactions. A possible biradical pathway for the reactions between DDMf and the two fullerenes was also investigated. The calculated results corroborate and enrich the experimental observations. The conclusion and detailed discussion are generally important for understanding the 1,3‐DPCA reactions to fullerenes. Copyright © 2014 John Wiley & Sons, Ltd.     

Spectroscopic investigations and computational study of 2‐[acetyl(4‐bromophenyl)carbamoyl]‐4‐chlorophenyl acetate

The Fourier transform Raman (FT‐Raman) and Fourier transform infrared (FT‐IR) spectra of 2‐[acetyl(4‐bromophenyl)carbamoyl]‐4‐chlorophenyl acetate were studied. The vibrational wavenumbers were examined theoretically using the Gaussian03 set of quantum chemistry codes, and the normal modes were assigned by potential energy distribution (PED) calculations. The simultaneous Raman and infrared (IR) activations of the CO stretching mode in the carbamoyl moiety show a charge transfer interaction through a π‐conjugated path. From the optimized structure, it is clear that the hydrogen bonding decreases the double bond character of the CO bond and increases the double bond character of the C N bonds. The first hyperpolarizability and predicted IR intensities are reported. The calculated first hyperpolarizability is comparable with the reported values of similar structures, which makes this compound an attractive object for future studies of nonlinear optics. Optimized geometrical parameters of the compound are in agreement with similar reported structures. Copyright © 2009 John Wiley & Sons, Ltd.     

Thermal reaction of electron deficient 4‐oxo‐4H‐pyrazole 1,2‐dioxide with cycloheptatriene: the first examples of the formation of an endo‐[4π + 6π]‐cycloadduct and an intramolecular 1,3‐dipolar reaction leading to a heterocage

The reaction of 3,5‐bis(methoxycarbonyl)‐4‐oxo‐4H‐pyrazole 1,2‐dioxide (1a) with 1,3,5‐cycloheptatriene (2b) gave a mixture of the novel endo‐[4 + 6]‐cycloadduct (4ab), anti‐exo‐[4 + 2]‐cycloadduct (5ab), and the heterocage (6ab) derived from the intramolecular 1,3‐dipolar cycloaddition reaction of the syn‐endo‐[4 + 2]‐cycloadduct. Analogous endo‐[4 + 6] selectivity in 1,3‐dipolar cycloadditions has not been reported previously. The X‐ray analysis indicates that 6ab has a very long N_sp3–N_sp3 bond distance of 1.617(4) Å. The cycloaddition behaviour is discussed on the basis of transition‐state structures optimized at the B3LYP/6‐31G(d) level of theory, from which predictions of the peri‐, regio‐, and stereoselectivities agreed well with the experimental results. Copyright © 2012 John Wiley & Sons, Ltd.     

A combined experimental and theoretical study of the alkylation of 3,5‐dithioxo‐[1,2,4]triazepines

The chemo‐ and regioselective alkylation reactions of 3,5‐dithioxo[1,2,4]triazepine 1 in a basic medium with α,ω‐dibromoalkanes 2a – c , Br(CH₂)_nBr (n = 1–3), are studied experimentally and theoretically. These alkylations, which occur at the thioxo sulfur atom in position 5, afford mainly 5‐bromomethylthio‐2,7‐dimethyl‐ 2,3‐dihydro‐ 4H[1,2,4]triazepin‐3‐one 3 for n = 1, 6,8‐dimethyl‐5‐thioxo‐2,3,4,5‐tetrahydro‐6H[1,3]thiazolo[4,5‐d][1,2,4]triazepine 4 for n = 2 and 7,9‐dimethyl‐6‐thioxo‐2,3,4,5,6,7‐hexahydro[1,3]thiazino [4,5‐d][1,2,4]triazepine 5 for n = 3. Theoretical calculations have been carried out at the B3LYP/6‐31G* and B3LYP(benzene)/6‐311+G*//B3LYP/6‐31G* levels, in order to rationalize the experimental observations. Both chemo‐ and regio‐selectivities of the alkylation reactions are analyzed. Copyright © 2008 John Wiley & Sons, Ltd.     

Mechanism of 4‐methyl‐1,2,4‐triazol‐3‐thiole reaction with formaldehyde. A DFT study

Contrary to the typical nucleophilic substitution, occurring on the sulfur atom of 4‐methyl‐1,2,4‐ triazol‐3‐thiole, the reaction with formaldehyde leads to the formation of the N? C bond rather than the S? C bond. The mechanism of this reaction has been characterized theoretically. Calculations indicate that the reaction proceeds via a cyclic transition state involving one solvent molecule with the Gibbs free activation energy of only 2 kcal/mol. The alternative pathway that leads to the S? C bond formation is about 5 kcal/mol more energetically demanding. Copyright © 2007 John Wiley & Sons, Ltd.     

Synthesis,properties, and solvatochromism of 1,3‐dimethyl‐5‐{(thien‐2‐yl)‐[4‐(1‐piperidyl) phenyl]methylidene}‐(1H,3H)‐pyrimidine‐2,4,6‐trione

A new merocyanine dye, 1,3‐Dimethyl‐5‐{(thien‐2‐yl)‐[4‐(1‐piperidyl)phenyl]methylidene}‐ (1H, 3H)‐pyrimidine‐2,4,6‐trione 3 , has been synthesized by condensation of 2‐[4‐(piperidyl)benzoyl]thiophene 1 with N,N′‐dimethyl barbituric acid 2 . The solvatochromic response of 3 dissolved in 26 solvents of different polarity has been measured. The solvent‐dependent long‐wavelength UV/Vis spectroscopic absorption maxima, v_max, are analyzed using the empirical Kamlet–Taft solvent parameters π* (dipolarity/polarizability), α (hydrogen‐bond donating capacity), and β (hydrogen‐bond accepting ability) in terms of the well‐established linear solvation energy relationship (LSER): (1) The solvent independent coefficients s , a , and b and (v_max)₀ have been determined. The McRae equation and the empirical solvent polarity index, E_T(30) have been also used to study the solvatochromism of 3 . Copyright © 2007 John Wiley & Sons, Ltd.     

Self‐association in {2‐[3,4‐alkylenedioxy‐5‐(3‐pyridyl)]‐thienyl}alkanols: an NMR,IR, and single‐crystal X‐ray study

syn‐2,2,4,4‐Tetramethyl‐3‐{2‐[3,4‐alkylenedioxy‐5‐(3‐pyridyl)]thienyl}pentan‐3‐ols self‐associate both in the solid state and in solution. Single‐crystal X‐ray diffraction study of the 3,4‐ethylenedioxythiophene (EDOT) derivative shows that it exists as a centrosymmetric head‐to‐tail, syn dimer in the solid state. The IR spectra of the solids display only a broad OH absorption around 3300 cm^?1, corresponding to a hydrogen‐bonded species. ¹H Nuclear Overhauser Effect Spectroscopy (NOESY) NMR experiments in benzene reveal interactions between the tert‐butyl groups and the H2 and H6 protons of the pyridyl group. Two approaches have been used to determine association constants of the EDOT derivative by NMR titration, based on the concentration dependence of (i) the syn/anti ratio and (ii) the OH proton shift of the syn rotamer. Reasonably concordant results are obtained from 298 to 323 K (3.6 and 3.9 M^?1, respectively, at 298 K). Similar values are obtained from the syn OH proton shift variation for the 3,4‐methylenedioxythiophene (MDOT) derivative. Concentration‐dependent variation of the anti OH proton shift in the latter suggests that the anti isomer associates in the form of an open, singly hydrogen‐bonded dimer, with a much smaller association constant than the syn rotamer. Self‐association constants for 3‐pyridyl‐EDOT‐alkanols with smaller substituents vary by a factor of 4 from (i‐Pr)₂ up to (CD₃)₂, while the hetero‐association constants for the same compounds with pyridine vary slightly less. Copyright © 2007 John Wiley & Sons, Ltd.     

A DFT study on Diels–Alder cycloadditions of trans‐1,3‐butadiene to C60 and C70

Investigation of the relative reactivity of bonds in fullerenes will provide fundamental theory for the design of fullerene‐based materials. We have theoretically investigated the reactivity of the Diels–Alder (DA) cycloaddition of cis‐1,3‐butadiene to all types of bonds in C₆₀ and C₇₀ using the M06‐2X hybrid density functional theory (DFT) calculations (J. Phys. Org. Chem. 2012, 25 850–855) and have pointed out that the DA cycloadditions of cis and trans forms of 1,3‐butadiene to ethylene have a specially intimate relationship (J. Phys. Org. Chem. 2014, 27 652–660). For the aim of telling a whole story of the DA cycloaddition concerning C₆₀ and C₇₀, the DA cycloadditions of trans‐1,3‐butadiene to all types of bonds in C₆₀ and C₇₀ were explored at the same theoretical level as those of the cis‐1,3‐butadiene. The calculated results related with the trans‐ and cis‐1,3‐butadienes were compared. The potential energy curves of DA cycloadditions of trans‐ and cis‐1,3‐butadiene to C₆₀ and C₇₀ were discussed. The distortion–interaction energy model was employed to elucidate the origin of different reactivity of all kinds of C?C bonds. The solvent effects were examined using the continuum solvent model. These current results, along with our previous research, will help to obtain an overall view of the DA cycloadditions of 1,3‐butadiene to C₆₀ and C₇₀. Copyright © 2014 John Wiley & Sons, Ltd.     

Understanding the kinetic solvent effects on the 1,3‐dipolar cycloaddition of benzonitrile N‐oxide: a DFT study

The kinetic solvent effects on the 1,3‐dipolar cycloaddition (13DC) of benzonitrile N‐oxide with cyclopentene [T. Rispens and J. B. F. N. Engberts, J. Phys. Org. Chem. 2005; 18 , 908–917] have been studied using density functional theory (DFT) at the B3LYP/6‐31G(d) level. Solvent effects were analyzed by means of the polarizable continuum model (PCM). The analysis of the potential energy surface shows that this reaction follows an asynchronous concerted mechanism. The topological analysis of the electron localization function (ELF) of the turning points along the reaction pathway explains the diradical nature of mechanism of this reaction. Inclusion of solvent effects does not substantially modify this behavior. The present study points out that, contrary to Diels–Alder reactions, the increase in the solvent polarity leads to a slow inhibition of the 13DC reaction, because of the low polarity of the transition state. Explicit solvation involving the coordination of one water molecule to the dipole puts in evidence the importance of hydrogen bonding in the modest acceleration of this 13DC reaction. These results are in good agreement with experimental outcomes. Copyright © 2011 John Wiley & Sons, Ltd.     

Mechanism and regioselectivity of the 1,3‐dipolar cycloaddition of thiocarbonyl S‐imide with cyclopent‐3‐ene‐1,2‐dione and methoxyethene: a density functional theory approach

A theoretical study on the regioselectivity of 1,3‐dipolar cycloaddition reaction between an uncommon dipole (thiocarbonyl S‐imide) with cyclopent‐3‐ene‐1,2‐dione (DPh1) and methoxyethene (DPh2) has been carried out by means of several theoretical approaches, namely, activation energy, Houk's rule based on the frontier molecular orbital theory and density functional theory (DFT) reactivity indices. The calculations were performed at the DFT‐B3LYP/6‐31G(d) level of theory using GAUSSIAN 09. The present analysis shows that the 1,3‐dipolar cycloaddition of thiocarbonyl S‐imide with DPh1 and DPh2 has normal‐electron demand and inverse‐electron demand character, respectively. Moreover, the results obtained from energetic point view are in agreement with electronic approaches, and the Houk's rule is capable to predict true regioselectivity. Copyright © 2012 John Wiley & Sons, Ltd.     

Experimental and theoretical push‐pull Chemo‐ and regioselectivity in 1,3‐Dipolar cycloaddition reactions: the case of benzotriazepin‐5‐one with mesitylnitrile oxide

A novel heterocyclic compound 3‐mesityl‐5‐methyl‐4,5,11,11a‐tetrahydro‐6H‐[1,2,4]oxadiazolo [5,4‐b][1,3,4]benzotriazépin‐6‐one 4 has been synthesised by a 1,3 dipolar cycloaddition (13DC) reaction of 1,3,4‐benzotriazepin‐5‐one 1 with mesitylnitrile oxide 3 . The reaction, beside its synthetic interest, has shown to be completely chemo‐ and regioselective. The structure of the compound was determined by X‐ray crystallography and analysed by spectral methods (NMR and mass spectrometry). The molecular mechanism for the reaction has been studied using quantum mechanical calculations at the B3LYP/6‐31G* theory level. Two mechanisms are possible for the formation of the cycloadduct 4 . The first one involves a 13DC reaction between 1 , as dipolarophile and 3 , as dipole. Analysis of the results indicates that it takes place along asynchronous concerted bond‐formation process with a very low polar character. The regioselectivity obtained from the calculations are in complete agreement with the unique formation of the cycloadduct 4 . The second mechanism is initiated by the nucleophilic attack of the N3 nitrogen of the tautomer form of 2 , to the C5 carbon of the nitrile oxide 3 to yield an amidoxime. However, the large energy involved in this addition prevents this mechanism. The large energy difference between the tautomers 1 and 2 , makes that only the C?N site of benzotriazepin‐5‐one 1 could act as a dipolarophile site. This fact makes the 13DC reaction to be chemoselective. The analysis of global electrophilicity of the reagents allows explaining the low polar character of these 13DC reactions. Copyright © 2007 John Wiley & Sons, Ltd.     

Effect of irradiation on ethyl 2‐amino‐4,5,6,7‐tetrahydrobenzo[b]thiophene‐3‐carboxylate: an ESR study

Ethyl 2‐amino‐4,5,6,7‐tetrahydrobenzo[b]thiophene‐3‐carboxylate [C₁₁H₁₅NO₂S] was synthesized by the Gewald method. Its single crystals were grown from an alcohol/ethyl acetate solution at 15 °C and characterized using IR and ¹H‐NMR. These single crystals were irradiated for 72 h at 298 K by a ⁶⁰Co gamma source with a dose speed of 0.864 kGy/h. After irradiation, electron spin resonance (ESR) measurements were carried out to study radiation‐induced radicals in the temperature range from 120 to 450 K. Additionally, for the single crystal, ESR angular dependencies were measured in the xy, xz and yz planes of the substance. This irradiated single crystal was analyzed based on the ESR spectra. Analysis of the spectra revealed that the radical was formed by a C–H bond fission at the carbon end of the substance. It was also observed that the color of the sample changed after irradiation. The hyperfine and g parameters were determined from the experimental spectra. It was inferred from these results that the hyperfine parameters and g value exhibited anisotropic behavior. The average values of these parameters were calculated as follows: g = 2.0088, A_H1=H2 = 20.70 G, A_H3=H4 = 10.80 G, A_Ha = 4.59 G, A_Hb = 3.24 G and, A_N = 6.10 G. Copyright © 2011 John Wiley & Sons, Ltd.     

The Raman spectrum of the γ′‐V2O5 polymorph: a combined experimental and DFT study

Structure and vibrational dynamics of γ′‐V₂O₅ synthesized from a pristine γ‐LiV₂O₅ sample via a chemical oxidation route was studied by means of Raman spectroscopy and quantum‐chemical calculations. The calculations based on density functional theory reliably reproduce the experimental structure of the γ′‐V₂O₅ lattice. The calculated Raman spectrum agrees remarkably well with the experimental one. Making use of the agreement, a complete assignment of Raman bands to vibrations of particular structural units is proposed. The comparison of Raman spectra and structural features of α‐V₂O₅ and γ′‐V₂O₅ polymorphs allowed establishing reliable ‘structure–spectrum’ correlations and identifying Raman peaks characteristic for different structural units. Copyright © 2015 John Wiley & Sons, Ltd.     

FT‐IR,FT‐Raman and DFT calculations of 3‐{[(4‐fluorophenyl)methylene]amino}‐2‐phenylquinazolin‐4(3H)‐one

Fourier transform (FT)‐Raman and Fourier transform infrared (FT‐IR) spectra of 3‐{[(4‐fluorophenyl)methylene]amino}‐2‐phenylquinazolin‐4(3H)‐one were recorded and analyzed. The vibrational wavenumbers of the title compound were computed using the B3LYP/6‐31G* basis and compared with the experimental data. The prepared compound was identified by NMR and mass spectra. The simultaneous IR and Raman activation of the CO stretching mode shows a charge transfer interaction through a π‐conjugated path. The first hyperpolarizability and infrared intensities are reported. The assignments of the normal modes are done by potential energy distribution (PED) calculations. Copyright © 2008 John Wiley & Sons, Ltd.     

NMR and DFT calculation study on structures of 2‐[2‐nitro‐4‐(trifluoromethyl)benzoyl]cyclohexane‐1,3‐dione (NTBC) and its two metabolites isolated from urine of patients suffering from tyrosinemia type I

2‐[2‐Nitro‐4‐(trifluoromethyl)benzoyl]cyclohexane‐1,3‐dione (NTBC) is an active component of nitisinone, a medicine against tyrosinemia type I. Using ¹H, ¹³C and ¹⁹F NMR spectroscopy it has been found that in the urine of patients treated with nitisinone two compounds possessing CF₃ group are always present. They have been isolated by using TLC technique and identified as 4‐hydroxy‐2‐[2‐nitro‐4‐(trifluoromethyl)benzoyl]cyclohexane‐1,3‐dione and 5‐hydroxy‐2‐[2‐nitro‐4‐(trifluoromethyl)benzoyl]cyclohexane‐1,3‐dione, the latter being previously unknown. The constitution, tautomerism and stereochemistry of these compounds have been thoroughly investigated using ¹H and ¹³C NMR spectroscopy supported by theoretical calculations. Molecular structures have been optimized using density functional theory (DFT) with PBE1PBE functional and 6‐31G* basis set. In NMR parameter calculations, the larger 6‐311++G(2d,p) basis set has been used. At both calculation stages, the polarizable continuum model of the solvent has been employed. Copyright © 2010 John Wiley & Sons, Ltd.     

Isosteres of peptides: boron analogs as dipolar forms of α‐amino acids – a theoretical study

Modification of peptides to produce peptidomimetics is of great interest, with the aim of designing potent, selective, and metabolically stable analogs having certain conformational properties. Organoboranes have been reported in the literature with a wide range of therapeutic applications. One of the therapeutically important class of molecules is amine‐carboxyboranes derived from amino acids by replacement of the Cα atom of an amino acid/peptide by boron. The conformational preferences of these peptides, with respect to backbone ω, ?, and ψ torsion angles, have been investigated by theoretical calculations. The amide bond in these molecules has the same geometry in the ground and transition states as the natural peptides. However, the boron isosteres of glycine and alanine peptides are less structured than their natural derivatives, but are distinguished by structures with a positive value for the ? angle, which is normally disfavored for natural peptides. This property could be used to build peptides with a geometry not usually seen in natural peptides. Copyright © 2007 John Wiley & Sons, Ltd.     

DFT study of the 1,3‐dipolar cycloaddition of azomethine ylides with maleimide,maleic anhydride,methylacrylate and some simple substituted alkenes

DFT calculations involving the B3LYP functional and 6‐31G(d) basis set have been performed to rationalize the reactivity, regioselectivity, enantioselectivity and diasteriofacial selectivity in the context of 1,3‐dipolar cycloaddition (13DC) reactions of a few acyclic and two cyclic azomethine ylides (AY) leading to enantiomeric/ diasteriomeric excess of the products. In particular, N‐substituted and C‐substituted AYs have been considered for reactions with the substituted ethylenes, maleimide, maleic anhydride and methyl acrylate. From an analysis of the results of calculation for the selected reactions, the regio‐ and exo/endo‐stereoselectivity have been explained. Reactions were followed through transition state (TS) structure optimization, calculation of IRC and activation energies. A rationalization of the trends in regioselectivity and enantioselectivity was attempted with the help of HOMO–LUMO energies, electrophilicity differences (Δω) and an analysis of Pauling's bond order (PBO) in the TS. Copyright © 2009 John Wiley & Sons, Ltd.     

Energetic and structural characterization of 2‐R‐3‐methylquinoxaline‐1,4‐dioxides (R = benzoyl or tert‐butoxycarbonyl): experimental and computational studies

The gaseous standard molar enthalpies of formation of two 2‐R‐3‐methylquinoxaline‐1,4‐dioxides (R = benzoyl or tert‐butoxycarbonyl), at T = 298.15 K, were derived using the values for the enthalpies of formation of the compounds in the condensed phase, measured by static bomb combustion calorimetry, and for the enthalpies of sublimation, measured by Knudsen effusion, using a quartz crystal oscillator. The three dimensional structure of 2‐tert‐butoxycarbonyl‐3‐methylquinoxaline‐1,4‐dioxide has been obtained by X‐ray crystallography showing that the two N? O bond lengths in this compound are identical. The experimentally determined geometry in the crystal is similar to that obtained in the gas‐phase after computations performed at the B3LYP/6‐311 + G(2d,2p) level of theory. The experimental and computational results reported allow to extend the discussion about the influence of the molecular structure on the dissociation enthalpy of the N? O bonds for quinoxaline 1,4‐dioxide derivatives. As found previously, similar N? O bond lengths in quinoxaline‐1,4‐dioxide compounds are not linked with N? O bonds having the same strength. Copyright © 2007 John Wiley & Sons, Ltd.     

FT‐IR and FT‐Raman spectra and ab initio calculations of 3‐{[(2‐hydroxyphenyl) methylene]amino}‐2‐phenylquinazolin‐4(3H)‐one

Fourier transform infrared (FT‐IR) and Fourier transform (FT) Raman spectra of 3‐{[(2‐hydroxyphenyl)methylene]amino}‐2‐phenylquinazolin‐4(3H)‐one were recorded and analyzed. The vibrational wavenumbers of the title compound were computed using HF/6‐31G* and 6‐311G* basis sets and compared with experimental data. The assignments of the normal modes are done by potential energy distribution (PED)calculations. The prepared compound was identified by nuclear magnetic resonance (NMR) and mass spectra. Optimized geometrical parameters of the title compound are in agreement with reported structures. Shortening of CN bond lengths reveal the effect of resonance. The simultaneous IR and Raman activations of the CO stretching mode shows a charge transfer interaction through a π‐conjugated path. The first hyperpolarizability, infrared intensities and Raman activities are reported. The phenyl C C stretching modes are equally active as strong bands in both IR and Raman spectra, which are responsible for hyperpolarizability enhancement leading to nonlinear optical activity. Copyright © 2009 John Wiley & Sons, Ltd.