Calorimetric and computational study of the thermochemistry of phenoxyphenols

Thermodynamic properties of 3- and 4-phenoxyphenol have been determined by using a combination of calorimetric and effusion techniques as well as by high-level ab initio molecular orbital calculations. The standard (p° = 0.1 MPa) molar enthalpies of formation in the condensed and gas states, Δ(f)H(m)°(cr or l) and Δ(f)H(m)°(g), at T = 298.15 K, of 3- and 4-phenoxyphenol were derived from their energies of combustion in oxygen, measured by a static bomb calorimeter, and from the enthalpies of vaporization or sublimation derived respectively by Calvet microcalorimetry for the 3-phenoxyphenol and by Knudsen effusion technique for the 4-phenoxyphenol. The theoretically estimated gas-phase enthalpies of formation were calculated from high-level ab initio molecular orbital calculations at the G3(MP2)//B3LYP level of theory. Furthermore, this composite approach was also used to obtain information about the gas-phase acidities, gas-phase basicities, proton and electron affinities, adiabatic ionization enthalpies, and, finally, O?H bond dissociation enthalpies. The good agreement between the G3MP2B3-derived values and the experimental gas-phase enthalpies of formation for the 3- and 4-phenoxyphenol gives confidence to the estimate concerning the 2-phenoxyphenol isomer, which was not experimentally studied, and to the estimates concerning the radical and the anion. Additionally, the experimental values of gas-phase enthalpies of formation were also compared with estimates based on the empirical scheme developed by Cox.     

Experimental and computational study on the thermochemistry of ethylpiperidines

The standard (p^∘ = 0.1 MPa) massic energies of combustion in oxygen of 1-ethylpiperidine and 2-ethylpiperidine, both in the liquid phase, were measured at T = 298.15 K by static bomb calorimetry. These values were used to derive the standard molar enthalpies of combustion and the standard molar enthalpies of formation, in the condensed phase, for these compounds. Further, the standard molar enthalpies of vaporization, at T = 298.15 K, of these two ethylpiperidine isomers were determined by Calvet microcalorimetry. The combustion calorimetry results together with those from the Calvet microcalorimetry, were used to derive the standard molar enthalpies of formation, at T = 298.15 K, in the gaseous phase.     

3.

The quinones of bicyclo[3.1.0]hexatriene: A computational study of their chemistry and thermochemistry     

《The Journal of chemical thermodynamics》2012

Quinones of bicyclo[3.1.0]hexa-1,3,5-triene were examined computationally. The six compounds considered were the five possible classical and one non-classical quinone: bicyclo[3.1.0]hexa-1(6),4-diene-2,3-dione (and its monocyclic isomer with a long trans-annular bond), bicyclo[3.1.0]hexa-1(5),3-diene-2,6-dione, bicyclo[3.1.0]hexa-1,4-diene-3,6-dione (and its monocyclic isomer with a long trans-annular bond), and bicyclo[3.1.0]hexa-1(5),4-diene-2,4-dione-3,6-diyl, a non-classical (non-Kekulé) zwitterion. The two long trans-annular bond structures are akin to that found for m-benzyne. Geometries were calculated (BLYP/6-31G¹, CASSCF(2,2)/6-31G¹, MP2/6-31G¹) and electronic structural inferences were made from the geometries. Also calculated were relative energies and heats of formation (CBS-QB3), singlet and triplet energies (BLYP/6-31G¹), and ionization energies and electron affinities (HF/6-311+G⁷//BLYP/6-31G¹). The NICS(1) calculations were performed as a probe of the aromaticity of the diverse quinones.     

4.

Combined experimental and computational study of the thermochemistry of methylpiperidines     

Ribeiro da Silva MA  Cabral JI  Gomes P  Gomes JR 《The Journal of organic chemistry》2006,71(10):3677-3685

To understand the influence of the methyl group in the stability and conformational behavior of the piperidine ring, the standard (p0= 0.1 MPa) molar enthalpies of formation of 1-methylpiperidine, 3-methylpiperidine, 4-methylpiperidine, 2,6-dimethylpiperidine, and 3,5-dimethylpiperidine, both in the liquid and in the gaseous states, were determined at the temperature of 298.15 K. The numerical values of the enthalpies of formation in the liquid and in the gaseous state are, respectively, -(95.9 +/- 1.6) and -(59.1 +/- 1.7) kJ.mol(-1) for 1-methylpiperidine; -(123.6 +/- 1.4) and -(79.2 +/- 1.6) kJ.mol(-1) for 3-methylpiperidine; -(123.5 +/- 1.5) and -(82.9 +/- 1.7) kJ.mol(-1) for 4-methylpiperidine; -(153.6 +/- 2.1) and -(111.2 +/- 2.2) kJ.mol(-1) for 2,6-dimethylpiperidine; and -(155.0 +/- 1.7) and -(105.9 +/- 1.8) kJ.mol(-1) for 3,5-dimethylpiperidine. In addition, and to be compared with the experimental results, theoretical calculations were carried out considering different ab initio and density functional theory based methods. The standard molar enthalpies of formation of the four isomers of methylpiperidine and of the 12 isomers of dimethylpiperidine have been computed. The G3MP2B3-derived numbers are in excellent agreement with experimental data, except in the case of 2,6-dimethylpiperidine for which a deviation of 9 kJ.mol(-1) was found. Surprisingly, the DFT methods fail in the prediction of these properties with the exception of the most approximated SVWN functional.     

5.

Experimental and computational study of the thermochemistry of the fluoromethylaniline isomers     

Ribeiro da Silva MA  Ferreira AI  Gomes JR 《The journal of physical chemistry. B》2007,111(23):6444-6451

The standard (po = 0.1 MPa) molar enthalpies of formation in the condensed phase of seven isomers of fluoromethylaniline were derived from the standard molar energies of combustion, in oxygen, to yield CO2(g), N2(g) and HF.10H2O(l), at T = 298.15 K, measured by rotating bomb combustion calorimetry. The standard molar enthalpies of vaporization or sublimation of these compounds, also at T = 298.15 K, were determined using Calvet microcalorimetry, while the enthalpies of fusion of the solid compounds were determined by differential scanning calorimetry. The standard molar enthalpies of formation in the gaseous phase, at T = 298.15 K, were derived from the former two experimental quantities. G3MP2//B3LYP calculations were performed for all possible fluoromethylanilines allowing the estimation of data for the isomers that were not studied experimentally. The Cox scheme was applied with two different approaches for the estimation of the standard molar enthalpies of formation of all the isomers studied, and this led to the conclusion that the literature values for the enthalpies of formation of the meta and para isomers of methylaniline seem to be not reliable. Further G3MP2//B3LYPs calculations on the methylaniline isomers yielded new values for the standard molar enthalpies of formation of the isomers of methylaniline, which have been tested under the Cox scheme, resulting in better estimates.     

6.

Comparative computational and experimental study on the thermochemistry of the chloropyrimidines     

da Silva MA  Amaral LM  Gomes JR 《The journal of physical chemistry. B》2007,111(4):792-799

The standard (p0 = 0.1 MPa) molar enthalpies of formation, Delta fH(0)(M), for liquid 2,4,6-trichloropyrimidine and for crystalline 2-chloropyrimidine, 2,4- and 4,6-dichloropyrimidine, and 2,4,5,6-tetrachloropyrimidine compounds were determined at T = 298.15 K by rotating-bomb combustion calorimetry. The standard molar enthalpies of vaporization or sublimation, Delta (g)(cr,l) H(0)(M), of these compounds at T = 298.15 K were determined by Calvet microcalorimetry. The experimental standard molar enthalpies of formation of those compounds, in the gaseous state, at T = 298.15 K, were thus obtained by combining these two sets of results. The latter values have been employed in the calibration of the computational procedure, which has been used to estimate the gas-phase enthalpies of formation for the other chloropyrimidines that were not possible to obtain in a pure form for the experimental study. It is found that the exchange-correlation functional based on the local spin density approximation (LSDA) seems to be a cheap choice for the estimation of enthalpies of formation for heterocycles containing nitrogen atoms; the well-known B3LYP hybrid method yields larger differences, with respect to the experimental values, for 2,4,6-tri- and 2,4,5,6-tetrachloropyrimidines.     

7.

Stairway to the conical intersection: a computational study of the retinal isomerization     

Send R  Sundholm D 《The journal of physical chemistry. A》2007,111(36):8766-8773

The potential-energy surface of the first excited state of the 11-cis-retinal protonated Schiff base (PSB11) chromophore has been studied at the density functional theory (DFT) level using the time-dependent perturbation theory approach (TDDFT) in combination with Becke's three-parameter hybrid functional (B3LYP). The potential-energy curves for torsion motions around single and double bonds of the first excited state have also been studied at the coupled-cluster approximate singles and doubles (CC2) level. The corresponding potential-energy curves for the ground state have been calculated at the B3LYP DFT and second-order M?ller-Plesset (MP2) levels. The TDDFT study suggests that the electronic excitation initiates a turn of the beta-ionone ring around the C6-C7 bond. The torsion is propagating along the retinyl chain toward the cis to trans isomerization center at the C11=C12 double bond. The torsion twist of the C10-C11 single bond leads to a significant reduction in the deexcitation energy indicating that a conical intersection is being reached by an almost barrierless rotation around the C10-C11 single bond. The energy released when passing the conical intersection can assist the subsequent cis to trans isomerization of the C11=C12 double bond. The CC2 calculations also show that the torsion barrier for the twist of the retinyl C10-C11 single bond adjacent to the isomerization center almost vanishes for the excited state. Because of the reduced torsion barriers of the single bonds, the retinyl chain can easily deform in the excited state. Thus, the CC2 and TDDFT calculations suggest similar reaction pathways on the potential-energy surface of the excited state leading toward the conical intersection and resulting in a cis to trans isomerization of the retinal chromophore. According to the CC2 calculations the cis to trans isomerization mechanism does not involve any significant torsion motion of the beta-ionone ring.     

8.

A computational study of some isomerization equilibria and their possible relation to vinyl chloride carcinogenicity     

Jane S. Murray  Peter Politzer 《International journal of quantum chemistry》1987,31(4):569-579

     

9.

Combined experimental and computational study of the thermochemistry of the fluoroaniline isomers   总被引：1，自引：0，他引：1  

Ribeiro da Silva MA  Ferreira AI  Gomes JR 《The journal of physical chemistry. B》2007,111(8):2052-2061

The standard (p degrees = 0.1 MPa) molar enthalpies of formation in the condensed phase of all the fluoroanilines, with the exception of the 2,3,5-trifluoroaniline compound, were derived from the standard molar energies of combustion in oxygen at T = 298.15 K, measured by rotating bomb combustion calorimetry. Calvet high-temperature vacuum sublimation experiments were performed to measure their enthalpies of vaporization or sublimation. These experiments allowed the determination of the standard molar enthalpies of formation in the gaseous phase and at T = 298.15 K. These values are also compared with estimates based on G3MP2B3 and BP86/6-31+G(d) computations, which have been extended also to the fluoroaniline that was not studied experimentally. The results are in close agreement with a mean deviation of approximately 3 kJ.mol-1. The largest difference between experimental and G3MP2B3 values is found for the pentafluoroaniline (-7.0 kJ.mol-1). For the three monofluoroanilines, the composite approach has been used also to compute gas-phase acidities, electron and proton affinities, ionization enthalpies and N-H bond dissociation enthalpies. The computed values compare well with available experimental results supporting the new computed data.     

10.

Structural versatility of oxalamide-based compounds: a computational study on the isomerization of the oxalamide group and the structural preferences of the polyoxalamides.     

E Armelin  C Alemán  J Puiggalí 《The Journal of organic chemistry》2001,66(24):8076-8085

     

11.

Mechanistic study of the deamination reaction of guanine: a computational study     

Uddin KM  Almatarneh MH  Shaw DM  Poirier RA 《The journal of physical chemistry. A》2011,115(10):2065-2076

The mechanism for the deamination of guanine with H(2)O, OH(-), H(2)O/OH(-) and for GuaH(+) with H(2)O has been investigated using ab initio calculations. Optimized geometries of the reactants, transition states, intermediates, and products were determined at RHF/6-31G(d), MP2/6-31G(d), B3LYP/6-31G(d), and B3LYP/6-31+G(d) levels of theory. Energies were also determined at G3MP2, G3MP2B3, G4MP2, and CBS-QB3 levels of theory. Intrinsic reaction coordinate (IRC) calculations were performed to characterize the transition states on the potential energy surface. Thermodynamic properties (ΔE, ΔH, and ΔG), activation energies, enthalpies, and Gibbs free energies of activation were also calculated for each reaction investigated. All pathways yield an initial tetrahedral intermediate and an intermediate in the last step that dissociates to products via a 1,3-proton shift. At the G3MP2 level of theory, deamination with OH(-) was found to have an activation energy barrier of 155 kJ mol(-1) compared to 187 kJ mol(-1) for the reaction with H(2)O and 243 kJ mol(-1) for GuaH(+) with H(2)O. The lowest overall activation energy, 144 kJ mol(-1) at the G3MP2 level, was obtained for the deamination of guanine with H(2)O/OH(-). Due to a lack of experimental results for guanine deamination, a comparison is made with those of cytosine, whose deamination reaction parallels that of guanine.     

12.

Experimental and computational thermochemistry of the dihydroxypyridine isomers     

《The Journal of chemical thermodynamics》2006,38(4):450-454

The standard (p^∘ = 0.1 MPa) molar enthalpy of formation for crystalline 2,3-dihydroxypyridine was measured, at T = 298.15 K, by static bomb calorimetry and the standard molar enthalpy of sublimation, at T = 298.15 K, was obtained using Calvet microcalorimetry. These values were used to derive the standard molar enthalpy of formation of 2,3-dihydroxypyridine in gaseous phase, at T = 298.15 K, –(263.9 ± 4.6) kJ · mol⁻¹.Additionally, high-level density functional theory calculations using the B3LYP hybrid exchange-correlation energy functional with extended basis sets have been performed for all dihydroxypyridine isomers to determine the thermochemical order of stability of these systems. The agreement between experiment and theory for the 2,3-dihydroxypyridine isomer gives confidence to the estimates of the enthalpies of formation concerning the other five isomers. It is found that the enthalpic increment for the dihydroxy substitution of pyridine is equal to the sum of the respective enthalpic increment of the monosubstituted pyridines.     

13.

A computational study of photochemical isomerization reactions of thiophenes     

Ming‐Der Su 《Journal of computational chemistry》2010,31(1):43-56

The mechanisms of the photochemical isomerization reactions were investigated theoretically using three model systems; 2‐methylthiophene, 2‐cyanothiophene, and 2‐phenylthiophene. The CASSCF (10‐electron/eight‐orbital active space) and MP2‐CAS methods were employed with the 6‐311(d) basis set. Three mechanisms, i.e., the internal cyclization‐isomerization route (path A), the zwitterion‐tricyclic route (path B), and the direct route (path C), have been used to explore the real photochemical reaction mechanism of these three model molecules. The structures of the conical intersections, which play a key role in such phototranspositions, were obtained. The intermediates and transition structures of the ground states were also calculated to assist in providing a qualitative explanation of the reaction pathways. Our model investigations suggest that the preferred reaction route is as follows: reactant → Franck‐Condon region → conical intersection → photoproduct. In particular, the conical intersection mechanism described in this work gives a better explanation than either the previously proposed internal cyclization‐isomerization (path A) or the zwitterion‐tricyclic pathway (path B) mechanisms, and is supported by the experimental observations. The results obtained allow a number of predictions to be made. © 2009 Wiley Periodicals, Inc. J Comput Chem 2010     

14.

A calorimetric and computational study of the thermochemistry of halogenated 1-phenylpyrrole derivatives     

Ana Filipa L.O.M. Santos  Manuel A.V. Ribeiro da Silva 《The Journal of chemical thermodynamics》2010,42(12):1441-1450

The standard molar enthalpies of formation, in the crystalline phase, of three halogenated 1-phenylpyrrole derivatives, namely 1-(4-fluorophenyl)pyrrole, 1-(4-chlorophenyl)pyrrole, and 1-(4-iodophenyl)pyrrole were derived from the respective enthalpies of combustion, measured by rotating-bomb combustion calorimetry. Their enthalpies of sublimation, at T = 298.15 K, were obtained from the Knudsen mass-loss effusion technique. From these two experimental parameters, the standard molar enthalpies of formation, in the gaseous phase, at T = 298.15 K, of 1-(4-fluorophenyl)pyrrole, 1-(4-chlorophenyl)pyrrole, and 1-(4-iodophenyl)pyrrole were calculated, respectively, as (26.2 ± 2.4) kJ · mol⁻¹, (196.2 ± 2.5) kJ · mol⁻¹, and (311.5 ± 2.4) kJ · mol⁻¹.The gas-phase enthalpies of formation of both fluorine and chlorine compounds were estimated by G3(MP2)//B3LYP computations. For the iodine compound, the B3LYP/6-311G(d):ECP46MDF approach was employed. Additionally, the DFT calculations were extended to estimate the enthalpy of formation of the bromine derivative, 1-(4-bromophenyl)pyrrole, performed at the B3LYP/6-311G(d) level of theory.     

15.

Reactivity and selectivity in the Wittig reaction: a computational study     

Robiette R  Richardson J  Aggarwal VK  Harvey JN 《Journal of the American Chemical Society》2006,128(7):2394-2409

The salt-free Wittig reaction of non-, semi-, and stabilized ylides has been investigated on realistic systems using density functional theory (DFT) calculations, including continuum solvation. Our results provide unequivocal support for the generally accepted mechanism and are in very good agreement with experimental selectivities. This study shows that E/Z selectivity of non- and semi-stabilized ylides cannot be fully understood without considering the energy of the elimination TS. The influence of ylide stabilization and the nature of phosphorus substituents on reversibility of oxaphosphetane formation is clarified. Unexpectedly, the puckering ability of addition TSs is shown not to depend on ylide stabilization, but the geometry of the TS is decided by an interplay of 1,2; 1,3; and C-H...O interactions in the case of non- and semi-stabilized ylides, whereas a dipole-dipole interaction governs the addition TS structures for stabilized ylides. The well-known influence of ylide stabilization on selectivity of PPh(3) derivatives is explained as follows: in non- and semi-stabilized ylides reactions, cis and trans addition TSs have, respectively, puckered and planar geometries, and selectivity is governed by an interplay of 1,2 and 1,3 interactions. For stabilized ylides, the high E selectivity is due to a strong dipole-dipole interaction at the addition TS. The influence of the nature of phosphorus substituents on selectivity is also detailed, the different behavior of (MeO)(3)PCHCO(2)Me ylides being explained by their lower dipole. This novel picture of the factors determining TS structures and selectivity provides a sound basis for the design of new ylides.     

16.

Quantitative computational thermochemistry of transition metal species     

Deyonker NJ  Peterson KA  Steyl G  Wilson AK  Cundari TR 《The journal of physical chemistry. A》2007,111(44):11269-11277

The correlation consistent Composite Approach (ccCA), which has been shown to achieve chemical accuracy (+/-1 kcal mol-1) for a large benchmark set of main group and s-block metal compounds, is used to compute enthalpies of formation for a set of 17 3d transition metal species. The training set includes a variety of metals, ligands, and bonding types. Using the correlation consistent basis sets for the 3d transition metals, we find that gas-phase enthalpies of formation can be efficiently calculated for inorganic and organometallic molecules with ccCA. However, until the reliability of gas-phase transition metal thermochemistry is improved, both experimentally and theoretically, a large experimental training set where uncertainties are near +/-1 kcal mol-1 (akin to commonly used main group benchmarking sets) remains an ambitious goal. For now, an average deviation of +/-3 kcal mol-1 appears to be the initial goal of "chemical accuracy" for ab initio transition metal model chemistries. The ccCA is also compared to a more robust but relatively expensive composite approach primarily utilizing large basis set coupled cluster computations. For a smaller training set of eight molecules, ccCA has a mean absolute deviation (MAD) of 3.4 kcal mol-1 versus the large basis set coupled-cluster-based model chemistry, which has a MAD of 3.1 kcal mol-1. However, the agreement for transition metal complexes is more system dependent than observed in previous benchmark studies of composite methods and main group compounds.     

17.

Computational thermochemistry of C-nitroso compounds     

Igor Novak 《Structural chemistry》2016,27(5):1395-1401

The molecular structure and thermodynamic stability of C-nitroso and dinitroso (azodioxide) compounds (CNC) have been studied by using high-level, composite, ab initio method (G4MP2) via the series of appropriate homodesmotic, dimerization reactions. The calculated reaction enthalpies and Gibbs free energies allowed us to estimate relative stability of dinitroso moiety and the role of substituents in thermodynamic stabilization of dinitroso group versus its monomeric precursor. The stability of dinitroso compounds is generally low as is indicated by large positive values for standard enthalpies of formation. The stabilization of the dinitroso group is much more pronounced in alkyl, alkenyl, or alkynyl derivatives than in the aromatic derivatives. The thermodynamic stability of E-stereoisomers of dinitroso compounds is generally larger than their Z-stereoisomer analogues. However, the difference in E/Z stereoisomer stability is quite small in aromatic dinitroso compounds. We have discussed the influence of substituents on the molecular geometry of the nitroso and dinitroso groups. We have also discussed the nature and strengths of solid-state forces pertaining to CNC.     

18.

A computational study of the thermochemistry of bromine- and iodine-containing methanes and methyl radicals     

Marshall P  Srinivas GN  Schwartz M 《The journal of physical chemistry. A》2005,109(28):6371-6379

Bromo- and iodomethanes and the corresponding halogenated methyl radicals have been investigated by ab initio methods. Geometries and vibrational frequencies were derived with quadratic configuration interaction methods at the QCISD/6-311G(d,p) level of theory, and energies via QCISD(T)/6-311+G(3df,2p). Core electrons were represented with relativistic effective potentials. Anharmonicity of the out-of-plane bending modes in the methyl radicals was taken into account by numerical integration of the Schr?dinger equation with potentials derived from relaxed scans of these modes. The results are in good accord with experimental data where available. Thermochemistry derived via isodesmic reactions referenced to CH3, CH4, and monohalomethanes yields excellent accord with new experiments on dihalomethanes and provides recommendations for the more poorly characterized tri- and tetrahalomethanes and halomethyl radicals. For the methanes CH2Br2, CHBr3, CBr4, CH2I2, CHI3, CI4, CH2BrI, CHBr2I, and CHBrI2 we compute DeltafH degrees (298) values of 4.3, 51.6, 110.6, 108.1, 208.5, 321.3, 56.8, 104.8, and 157.1 kJ mol(-1), respectively. For the methyl radicals CH2Br, CHBr2, CBr3, CH2I, CHI2, CI3, CHBrI, CBr2I, and CBrI2 we compute DeltafH degrees (298) values of 166.6, 191.7, 224.0, 217.2, 290.4, 369.1, 241.6, 320.8, and 272.3 kJ mol(-1), respectively. Recommended confidence limits are +/-3 kJ mol(-1) per Br or I atom. Trends in these values and the corresponding C-H bond strengths are discussed and compared with prior experiments, empirical estimation schemes, and ab initio calculations.     

19.

The reaction of triplet nitrenes with oxygen: a computational study     

Liu J  Hadad CM  Platz MS 《Organic letters》2005,7(4):549-552

Triplet carbenes react much more rapidly with oxygen than do triplet nitrenes. This trend is explained by DFT and MO calculations. [reaction: see text]     

20.

Combined experimental and computational thermochemistry of isomers of chloronitroanilines     

Manuel A.V. Ribeiro da Silva  Luís M. Spencer S. Lima  Ana Rita G. Moreno  Ana I.M.C.L. Ferreira  José R.B. Gomes 《The Journal of chemical thermodynamics》2008,40(2):155-165

The standard (p^° = 0.1 MPa) molar enthalpies of formation, at T = 298.15 K, of 4-chloro-3-nitroaniline and 5-chloro-2-nitroaniline, in the condensed phase, were derived from their standard molar energies of combustion, in oxygen, to yield CO₂(g), N₂(g), and HCl · 600H₂O(l), measured by rotating bomb combustion calorimetry. From the temperature dependence of the vapour pressures of these compounds, measured by the Knudsen effusion technique, their standard molar enthalpies of sublimation, at T = 298.15 K, were derived by means of the Clausius–Clapeyron equation. The Calvet microcalorimetry was also used to measure the standard molar enthalpies of sublimation of these compounds, at T = 298.15 K. The combination of the standard molar enthalpies of formation in the condensed phases and the standard molar enthalpies of sublimation yielded the standard molar enthalpies of formation in the gaseous phase at T = 298.15 K for each isomer. Further, the standard (p^° = 0.1 MPa) molar enthalpies, entropies and Gibbs free energies of sublimation, at T = 298.15 K, were also derived.The standard molar enthalpies of formation, in the gaseous phase of all the chloronitroaniline isomers were also estimated by the Cox scheme and by the use of computational thermochemistry and compared with the available experimental values.     

The quinones of bicyclo[3.1.0]hexatriene: A computational study of their chemistry and thermochemistry

Quinones of bicyclo[3.1.0]hexa-1,3,5-triene were examined computationally. The six compounds considered were the five possible classical and one non-classical quinone: bicyclo[3.1.0]hexa-1(6),4-diene-2,3-dione (and its monocyclic isomer with a long trans-annular bond), bicyclo[3.1.0]hexa-1(5),3-diene-2,6-dione, bicyclo[3.1.0]hexa-1,4-diene-3,6-dione (and its monocyclic isomer with a long trans-annular bond), and bicyclo[3.1.0]hexa-1(5),4-diene-2,4-dione-3,6-diyl, a non-classical (non-Kekulé) zwitterion. The two long trans-annular bond structures are akin to that found for m-benzyne. Geometries were calculated (BLYP/6-31G¹, CASSCF(2,2)/6-31G¹, MP2/6-31G¹) and electronic structural inferences were made from the geometries. Also calculated were relative energies and heats of formation (CBS-QB3), singlet and triplet energies (BLYP/6-31G¹), and ionization energies and electron affinities (HF/6-311+G⁷//BLYP/6-31G¹). The NICS(1) calculations were performed as a probe of the aromaticity of the diverse quinones.     

Combined experimental and computational study of the thermochemistry of methylpiperidines

To understand the influence of the methyl group in the stability and conformational behavior of the piperidine ring, the standard (p0= 0.1 MPa) molar enthalpies of formation of 1-methylpiperidine, 3-methylpiperidine, 4-methylpiperidine, 2,6-dimethylpiperidine, and 3,5-dimethylpiperidine, both in the liquid and in the gaseous states, were determined at the temperature of 298.15 K. The numerical values of the enthalpies of formation in the liquid and in the gaseous state are, respectively, -(95.9 +/- 1.6) and -(59.1 +/- 1.7) kJ.mol(-1) for 1-methylpiperidine; -(123.6 +/- 1.4) and -(79.2 +/- 1.6) kJ.mol(-1) for 3-methylpiperidine; -(123.5 +/- 1.5) and -(82.9 +/- 1.7) kJ.mol(-1) for 4-methylpiperidine; -(153.6 +/- 2.1) and -(111.2 +/- 2.2) kJ.mol(-1) for 2,6-dimethylpiperidine; and -(155.0 +/- 1.7) and -(105.9 +/- 1.8) kJ.mol(-1) for 3,5-dimethylpiperidine. In addition, and to be compared with the experimental results, theoretical calculations were carried out considering different ab initio and density functional theory based methods. The standard molar enthalpies of formation of the four isomers of methylpiperidine and of the 12 isomers of dimethylpiperidine have been computed. The G3MP2B3-derived numbers are in excellent agreement with experimental data, except in the case of 2,6-dimethylpiperidine for which a deviation of 9 kJ.mol(-1) was found. Surprisingly, the DFT methods fail in the prediction of these properties with the exception of the most approximated SVWN functional.     

Experimental and computational study of the thermochemistry of the fluoromethylaniline isomers

The standard (po = 0.1 MPa) molar enthalpies of formation in the condensed phase of seven isomers of fluoromethylaniline were derived from the standard molar energies of combustion, in oxygen, to yield CO2(g), N2(g) and HF.10H2O(l), at T = 298.15 K, measured by rotating bomb combustion calorimetry. The standard molar enthalpies of vaporization or sublimation of these compounds, also at T = 298.15 K, were determined using Calvet microcalorimetry, while the enthalpies of fusion of the solid compounds were determined by differential scanning calorimetry. The standard molar enthalpies of formation in the gaseous phase, at T = 298.15 K, were derived from the former two experimental quantities. G3MP2//B3LYP calculations were performed for all possible fluoromethylanilines allowing the estimation of data for the isomers that were not studied experimentally. The Cox scheme was applied with two different approaches for the estimation of the standard molar enthalpies of formation of all the isomers studied, and this led to the conclusion that the literature values for the enthalpies of formation of the meta and para isomers of methylaniline seem to be not reliable. Further G3MP2//B3LYPs calculations on the methylaniline isomers yielded new values for the standard molar enthalpies of formation of the isomers of methylaniline, which have been tested under the Cox scheme, resulting in better estimates.     

Comparative computational and experimental study on the thermochemistry of the chloropyrimidines

The standard (p0 = 0.1 MPa) molar enthalpies of formation, Delta fH(0)(M), for liquid 2,4,6-trichloropyrimidine and for crystalline 2-chloropyrimidine, 2,4- and 4,6-dichloropyrimidine, and 2,4,5,6-tetrachloropyrimidine compounds were determined at T = 298.15 K by rotating-bomb combustion calorimetry. The standard molar enthalpies of vaporization or sublimation, Delta (g)(cr,l) H(0)(M), of these compounds at T = 298.15 K were determined by Calvet microcalorimetry. The experimental standard molar enthalpies of formation of those compounds, in the gaseous state, at T = 298.15 K, were thus obtained by combining these two sets of results. The latter values have been employed in the calibration of the computational procedure, which has been used to estimate the gas-phase enthalpies of formation for the other chloropyrimidines that were not possible to obtain in a pure form for the experimental study. It is found that the exchange-correlation functional based on the local spin density approximation (LSDA) seems to be a cheap choice for the estimation of enthalpies of formation for heterocycles containing nitrogen atoms; the well-known B3LYP hybrid method yields larger differences, with respect to the experimental values, for 2,4,6-tri- and 2,4,5,6-tetrachloropyrimidines.     

Stairway to the conical intersection: a computational study of the retinal isomerization

The potential-energy surface of the first excited state of the 11-cis-retinal protonated Schiff base (PSB11) chromophore has been studied at the density functional theory (DFT) level using the time-dependent perturbation theory approach (TDDFT) in combination with Becke's three-parameter hybrid functional (B3LYP). The potential-energy curves for torsion motions around single and double bonds of the first excited state have also been studied at the coupled-cluster approximate singles and doubles (CC2) level. The corresponding potential-energy curves for the ground state have been calculated at the B3LYP DFT and second-order M?ller-Plesset (MP2) levels. The TDDFT study suggests that the electronic excitation initiates a turn of the beta-ionone ring around the C6-C7 bond. The torsion is propagating along the retinyl chain toward the cis to trans isomerization center at the C11=C12 double bond. The torsion twist of the C10-C11 single bond leads to a significant reduction in the deexcitation energy indicating that a conical intersection is being reached by an almost barrierless rotation around the C10-C11 single bond. The energy released when passing the conical intersection can assist the subsequent cis to trans isomerization of the C11=C12 double bond. The CC2 calculations also show that the torsion barrier for the twist of the retinyl C10-C11 single bond adjacent to the isomerization center almost vanishes for the excited state. Because of the reduced torsion barriers of the single bonds, the retinyl chain can easily deform in the excited state. Thus, the CC2 and TDDFT calculations suggest similar reaction pathways on the potential-energy surface of the excited state leading toward the conical intersection and resulting in a cis to trans isomerization of the retinal chromophore. According to the CC2 calculations the cis to trans isomerization mechanism does not involve any significant torsion motion of the beta-ionone ring.     

Combined experimental and computational study of the thermochemistry of the fluoroaniline isomers

The standard (p degrees = 0.1 MPa) molar enthalpies of formation in the condensed phase of all the fluoroanilines, with the exception of the 2,3,5-trifluoroaniline compound, were derived from the standard molar energies of combustion in oxygen at T = 298.15 K, measured by rotating bomb combustion calorimetry. Calvet high-temperature vacuum sublimation experiments were performed to measure their enthalpies of vaporization or sublimation. These experiments allowed the determination of the standard molar enthalpies of formation in the gaseous phase and at T = 298.15 K. These values are also compared with estimates based on G3MP2B3 and BP86/6-31+G(d) computations, which have been extended also to the fluoroaniline that was not studied experimentally. The results are in close agreement with a mean deviation of approximately 3 kJ.mol-1. The largest difference between experimental and G3MP2B3 values is found for the pentafluoroaniline (-7.0 kJ.mol-1). For the three monofluoroanilines, the composite approach has been used also to compute gas-phase acidities, electron and proton affinities, ionization enthalpies and N-H bond dissociation enthalpies. The computed values compare well with available experimental results supporting the new computed data.     

Mechanistic study of the deamination reaction of guanine: a computational study

The mechanism for the deamination of guanine with H(2)O, OH(-), H(2)O/OH(-) and for GuaH(+) with H(2)O has been investigated using ab initio calculations. Optimized geometries of the reactants, transition states, intermediates, and products were determined at RHF/6-31G(d), MP2/6-31G(d), B3LYP/6-31G(d), and B3LYP/6-31+G(d) levels of theory. Energies were also determined at G3MP2, G3MP2B3, G4MP2, and CBS-QB3 levels of theory. Intrinsic reaction coordinate (IRC) calculations were performed to characterize the transition states on the potential energy surface. Thermodynamic properties (ΔE, ΔH, and ΔG), activation energies, enthalpies, and Gibbs free energies of activation were also calculated for each reaction investigated. All pathways yield an initial tetrahedral intermediate and an intermediate in the last step that dissociates to products via a 1,3-proton shift. At the G3MP2 level of theory, deamination with OH(-) was found to have an activation energy barrier of 155 kJ mol(-1) compared to 187 kJ mol(-1) for the reaction with H(2)O and 243 kJ mol(-1) for GuaH(+) with H(2)O. The lowest overall activation energy, 144 kJ mol(-1) at the G3MP2 level, was obtained for the deamination of guanine with H(2)O/OH(-). Due to a lack of experimental results for guanine deamination, a comparison is made with those of cytosine, whose deamination reaction parallels that of guanine.     

Experimental and computational thermochemistry of the dihydroxypyridine isomers

The standard (p^∘ = 0.1 MPa) molar enthalpy of formation for crystalline 2,3-dihydroxypyridine was measured, at T = 298.15 K, by static bomb calorimetry and the standard molar enthalpy of sublimation, at T = 298.15 K, was obtained using Calvet microcalorimetry. These values were used to derive the standard molar enthalpy of formation of 2,3-dihydroxypyridine in gaseous phase, at T = 298.15 K, –(263.9 ± 4.6) kJ · mol⁻¹.Additionally, high-level density functional theory calculations using the B3LYP hybrid exchange-correlation energy functional with extended basis sets have been performed for all dihydroxypyridine isomers to determine the thermochemical order of stability of these systems. The agreement between experiment and theory for the 2,3-dihydroxypyridine isomer gives confidence to the estimates of the enthalpies of formation concerning the other five isomers. It is found that the enthalpic increment for the dihydroxy substitution of pyridine is equal to the sum of the respective enthalpic increment of the monosubstituted pyridines.     

A computational study of photochemical isomerization reactions of thiophenes

The mechanisms of the photochemical isomerization reactions were investigated theoretically using three model systems; 2‐methylthiophene, 2‐cyanothiophene, and 2‐phenylthiophene. The CASSCF (10‐electron/eight‐orbital active space) and MP2‐CAS methods were employed with the 6‐311(d) basis set. Three mechanisms, i.e., the internal cyclization‐isomerization route (path A), the zwitterion‐tricyclic route (path B), and the direct route (path C), have been used to explore the real photochemical reaction mechanism of these three model molecules. The structures of the conical intersections, which play a key role in such phototranspositions, were obtained. The intermediates and transition structures of the ground states were also calculated to assist in providing a qualitative explanation of the reaction pathways. Our model investigations suggest that the preferred reaction route is as follows: reactant → Franck‐Condon region → conical intersection → photoproduct. In particular, the conical intersection mechanism described in this work gives a better explanation than either the previously proposed internal cyclization‐isomerization (path A) or the zwitterion‐tricyclic pathway (path B) mechanisms, and is supported by the experimental observations. The results obtained allow a number of predictions to be made. © 2009 Wiley Periodicals, Inc. J Comput Chem 2010     

A calorimetric and computational study of the thermochemistry of halogenated 1-phenylpyrrole derivatives

The standard molar enthalpies of formation, in the crystalline phase, of three halogenated 1-phenylpyrrole derivatives, namely 1-(4-fluorophenyl)pyrrole, 1-(4-chlorophenyl)pyrrole, and 1-(4-iodophenyl)pyrrole were derived from the respective enthalpies of combustion, measured by rotating-bomb combustion calorimetry. Their enthalpies of sublimation, at T = 298.15 K, were obtained from the Knudsen mass-loss effusion technique. From these two experimental parameters, the standard molar enthalpies of formation, in the gaseous phase, at T = 298.15 K, of 1-(4-fluorophenyl)pyrrole, 1-(4-chlorophenyl)pyrrole, and 1-(4-iodophenyl)pyrrole were calculated, respectively, as (26.2 ± 2.4) kJ · mol⁻¹, (196.2 ± 2.5) kJ · mol⁻¹, and (311.5 ± 2.4) kJ · mol⁻¹.The gas-phase enthalpies of formation of both fluorine and chlorine compounds were estimated by G3(MP2)//B3LYP computations. For the iodine compound, the B3LYP/6-311G(d):ECP46MDF approach was employed. Additionally, the DFT calculations were extended to estimate the enthalpy of formation of the bromine derivative, 1-(4-bromophenyl)pyrrole, performed at the B3LYP/6-311G(d) level of theory.     

Reactivity and selectivity in the Wittig reaction: a computational study

The salt-free Wittig reaction of non-, semi-, and stabilized ylides has been investigated on realistic systems using density functional theory (DFT) calculations, including continuum solvation. Our results provide unequivocal support for the generally accepted mechanism and are in very good agreement with experimental selectivities. This study shows that E/Z selectivity of non- and semi-stabilized ylides cannot be fully understood without considering the energy of the elimination TS. The influence of ylide stabilization and the nature of phosphorus substituents on reversibility of oxaphosphetane formation is clarified. Unexpectedly, the puckering ability of addition TSs is shown not to depend on ylide stabilization, but the geometry of the TS is decided by an interplay of 1,2; 1,3; and C-H...O interactions in the case of non- and semi-stabilized ylides, whereas a dipole-dipole interaction governs the addition TS structures for stabilized ylides. The well-known influence of ylide stabilization on selectivity of PPh(3) derivatives is explained as follows: in non- and semi-stabilized ylides reactions, cis and trans addition TSs have, respectively, puckered and planar geometries, and selectivity is governed by an interplay of 1,2 and 1,3 interactions. For stabilized ylides, the high E selectivity is due to a strong dipole-dipole interaction at the addition TS. The influence of the nature of phosphorus substituents on selectivity is also detailed, the different behavior of (MeO)(3)PCHCO(2)Me ylides being explained by their lower dipole. This novel picture of the factors determining TS structures and selectivity provides a sound basis for the design of new ylides.     

Quantitative computational thermochemistry of transition metal species

The correlation consistent Composite Approach (ccCA), which has been shown to achieve chemical accuracy (+/-1 kcal mol-1) for a large benchmark set of main group and s-block metal compounds, is used to compute enthalpies of formation for a set of 17 3d transition metal species. The training set includes a variety of metals, ligands, and bonding types. Using the correlation consistent basis sets for the 3d transition metals, we find that gas-phase enthalpies of formation can be efficiently calculated for inorganic and organometallic molecules with ccCA. However, until the reliability of gas-phase transition metal thermochemistry is improved, both experimentally and theoretically, a large experimental training set where uncertainties are near +/-1 kcal mol-1 (akin to commonly used main group benchmarking sets) remains an ambitious goal. For now, an average deviation of +/-3 kcal mol-1 appears to be the initial goal of "chemical accuracy" for ab initio transition metal model chemistries. The ccCA is also compared to a more robust but relatively expensive composite approach primarily utilizing large basis set coupled cluster computations. For a smaller training set of eight molecules, ccCA has a mean absolute deviation (MAD) of 3.4 kcal mol-1 versus the large basis set coupled-cluster-based model chemistry, which has a MAD of 3.1 kcal mol-1. However, the agreement for transition metal complexes is more system dependent than observed in previous benchmark studies of composite methods and main group compounds.     

Computational thermochemistry of C-nitroso compounds

The molecular structure and thermodynamic stability of C-nitroso and dinitroso (azodioxide) compounds (CNC) have been studied by using high-level, composite, ab initio method (G4MP2) via the series of appropriate homodesmotic, dimerization reactions. The calculated reaction enthalpies and Gibbs free energies allowed us to estimate relative stability of dinitroso moiety and the role of substituents in thermodynamic stabilization of dinitroso group versus its monomeric precursor. The stability of dinitroso compounds is generally low as is indicated by large positive values for standard enthalpies of formation. The stabilization of the dinitroso group is much more pronounced in alkyl, alkenyl, or alkynyl derivatives than in the aromatic derivatives. The thermodynamic stability of E-stereoisomers of dinitroso compounds is generally larger than their Z-stereoisomer analogues. However, the difference in E/Z stereoisomer stability is quite small in aromatic dinitroso compounds. We have discussed the influence of substituents on the molecular geometry of the nitroso and dinitroso groups. We have also discussed the nature and strengths of solid-state forces pertaining to CNC.     

A computational study of the thermochemistry of bromine- and iodine-containing methanes and methyl radicals

Bromo- and iodomethanes and the corresponding halogenated methyl radicals have been investigated by ab initio methods. Geometries and vibrational frequencies were derived with quadratic configuration interaction methods at the QCISD/6-311G(d,p) level of theory, and energies via QCISD(T)/6-311+G(3df,2p). Core electrons were represented with relativistic effective potentials. Anharmonicity of the out-of-plane bending modes in the methyl radicals was taken into account by numerical integration of the Schr?dinger equation with potentials derived from relaxed scans of these modes. The results are in good accord with experimental data where available. Thermochemistry derived via isodesmic reactions referenced to CH3, CH4, and monohalomethanes yields excellent accord with new experiments on dihalomethanes and provides recommendations for the more poorly characterized tri- and tetrahalomethanes and halomethyl radicals. For the methanes CH2Br2, CHBr3, CBr4, CH2I2, CHI3, CI4, CH2BrI, CHBr2I, and CHBrI2 we compute DeltafH degrees (298) values of 4.3, 51.6, 110.6, 108.1, 208.5, 321.3, 56.8, 104.8, and 157.1 kJ mol(-1), respectively. For the methyl radicals CH2Br, CHBr2, CBr3, CH2I, CHI2, CI3, CHBrI, CBr2I, and CBrI2 we compute DeltafH degrees (298) values of 166.6, 191.7, 224.0, 217.2, 290.4, 369.1, 241.6, 320.8, and 272.3 kJ mol(-1), respectively. Recommended confidence limits are +/-3 kJ mol(-1) per Br or I atom. Trends in these values and the corresponding C-H bond strengths are discussed and compared with prior experiments, empirical estimation schemes, and ab initio calculations.     

The reaction of triplet nitrenes with oxygen: a computational study

Triplet carbenes react much more rapidly with oxygen than do triplet nitrenes. This trend is explained by DFT and MO calculations. [reaction: see text]     

Combined experimental and computational thermochemistry of isomers of chloronitroanilines

The standard (p^° = 0.1 MPa) molar enthalpies of formation, at T = 298.15 K, of 4-chloro-3-nitroaniline and 5-chloro-2-nitroaniline, in the condensed phase, were derived from their standard molar energies of combustion, in oxygen, to yield CO₂(g), N₂(g), and HCl · 600H₂O(l), measured by rotating bomb combustion calorimetry. From the temperature dependence of the vapour pressures of these compounds, measured by the Knudsen effusion technique, their standard molar enthalpies of sublimation, at T = 298.15 K, were derived by means of the Clausius–Clapeyron equation. The Calvet microcalorimetry was also used to measure the standard molar enthalpies of sublimation of these compounds, at T = 298.15 K. The combination of the standard molar enthalpies of formation in the condensed phases and the standard molar enthalpies of sublimation yielded the standard molar enthalpies of formation in the gaseous phase at T = 298.15 K for each isomer. Further, the standard (p^° = 0.1 MPa) molar enthalpies, entropies and Gibbs free energies of sublimation, at T = 298.15 K, were also derived.The standard molar enthalpies of formation, in the gaseous phase of all the chloronitroaniline isomers were also estimated by the Cox scheme and by the use of computational thermochemistry and compared with the available experimental values.