Ab initio study of the Wolff rearrangement of C6H4O intermediate in the gas phase

Ab initio calculations of the geometry and reactivity of 1,2-ketocarbene C₆H₄O as an intermediate in organic reactions were performed using the second-order Møller-Plesset (MP2) perturbation theory in the 6-311G^* basis set. Only the singlet state of the intermediate was considered. An oxirene-like structure (6) with a six-membered ring and a ketene-like structure (5) with a five-membered ring were localized on the potential energy surface. Attempts to locate a quinone type structure characteristic of aliphatic ketocarbenes failed. The energy of structure5 is ?70 kcal mol^?1 lower than that of structure6. Harmonic frequencies and intensities of normal vibrations in the IR spectra of6 and5 were calculated. The activation energy of the Wolff rearrangement6→5 was estimated at 12.5 kcal mol^?1. The geometry of the transition state of this reaction resembles the quinone-like structure.     

A DFT study on pyridine-derived N-heterocyclic carbenes

To appreciate the chemistry of N-heterocyclic carbenes (NHCs), eight carbenic tautomers of pyridine (azacyclohexadienylidenes) are studied at B3LYP/AUG-cc-pVTZ//B3LYP/6-31+G^∗ and B3LYP/6-311++G^∗∗//B3LYP/6-31+G^∗ levels of theory. Various thermodynamic parameters are calculated for these minima, along with a kinetic focus on carbene-pyridine tautomerization. Appropriate isodesmic reactions show stabilization energies of 2-azacyclohexa-3,5-dienylidene (1) and 4-azacyclohexa-2,5-dienylidene (6) as 119.4 and 104.1 kcal/mol, rather close to that of the synthesized 1,3-dimethylimidazol-2-ylidene (129.2 kcal/mol). Three different mechanisms are suggested for the tautomerizations including: [1,2]-H shift, [1,4]-H shift, and three sequential [1,2]-H shifts. The calculated energy barrier for [1,2]-H shift of 1 is 44.6 kcal/mol, while the first [1,2]-H shift for the proposed sequential mechanism of 6 requires 65.1 kcal/mol. Three preliminary minimum templates are introduced, which may possess the potential of synthetic consideration: 2,6-di(X)-3,5-dichloro-4-azacyclohexa-2,5-dienylidene for X=Mes, t-Bu, and Ad.     

The structure of dihydropyrroloindoles: A quantum-chemical estimation of conjugation in cyclohexadiene systems

A non-empirical quantum chemical calculation of isomeric 3,6-divinyl-3,4,5,6-tetrahydropyrrolo[3,2-e] indole 1 and 1,5-divinyl-1,4,5,8-tetrahydro[3,2-f]indole 2 structures carried out by DFT (B3LYP) method with 6-311++G(d, p) and 6-311++G(3df, p) basis sets showed the energy preference of 2 over 1 (1.33 kcal/mol and 1.47 kcal/mol, respectively). The structure of the molecule of 2 is planar while the molecule of 1 is non-planar due to the presence of sp ³-hybridized carbon atoms.     

Heteroatom effects on allenic seven-membered ring X2C4H4C (X = CH,N, P,and As)

Stable configurations of seven-membered rings X₂C₄H₄C (1 _X , X = CH, N, P, and As) in the singlet (s) and triplet (t) states are found at B3LYB/6-311++G** level of theory. Thermal energy gaps, ΔE _s-t; enthalpy gaps, ΔH _s-t; Gibbs free energy gaps, ΔG _s-t, between the singlet and triplet states of 1 _X were estimated at the same level of theory. The ΔG _s-t gap between the singlet and triplet states of 1 _X changes in the order: 1 _P > 1 _As > 1 _N , respectively.     

Heteroatom effects in XC5H5C Arduengo-type carbenes (X = CH,N, P,and As) in singlet and triplet states

Internal energy difference, ΔE _s-t; enthalpy difference, ΔH _s-t; Gibbs free energy difference, ΔG _s-t, between the singlet (s) and triplet states (t) of XC₅H₅C, 1X (X = CH, N, P, and As) were computed at B3LYP/6-311++G** and MP2/6-311++G**//B3LYP/6-311++G** levels of theory. The ΔG _s-t between the singlet and triplet states of 1 _X were changed in the order: 1 _P > 1 _As > 1 _N .     

Heteroatom effect at C7 of norbornadiene-Quadricyclane system for maximizing the solar energy storage: DFT calculations

An attempt is made to maximize the solar energy storage in norbornadiene (1)/quadricyclane (2) system, through exchanging of heteroatoms at C₇ of 1 and 2; calculating the corresponding energies at MP2/6-311++G(3df,2p)//B3LYP/6-311++G(3df,2p) and B3LYP/6-311++G** levels of theory. Free energy gaps between 1 _X and 2 _X, δG_(1x)-(2x), and solar energy storage is the most for 1 _Se, 1 _As and 1 _Al from group VIII, VII and III of the Table, respectively.     

Theoretical study on the structures and stabilities of silacyclopropylidenoids

Isomeric structures, energies, and properties of silacyclopropylidenoids, C₂H₄SiMX (where M?=?Li or Na and X?=?F, Cl or Br), were studied ab initio at the HF and MP2 levels of theory using the 6-31+G(d,p) and aug-cc-pVTZ basis sets. The calculations indicate that each of C₂H₄SiMXs has three stationary structures: silacyclopropylidenoid (S), tetrahedral (T), and inverted (I). All of the silacyclopropylidenoid (S) forms are energetically more stable than others except that S-LiF is by only 0.7?kcal/mol higher in energy than I-LiF. In contrast, all of the tetrahedral (T) forms are the most unstable ones except for T-NaF. Energy differences between S, T, and I forms range from 0.70 to 8.70?kcal?mol^?1 at the MP2/6-31+G(d,p) level. In addition, the molecular electrostatic potential maps, natural bond orbitals, and frontier molecular orbitals were calculated at the MP2/6-31+G(d,p) level.     

Molecular geometry and electronic structures of stable organic derivatives of divalent germanium and tin [(\operatorname{Me} _3 \operatorname{Si} )_2 \operatorname{N} {\kern 1pt} ---{\kern 1pt} Me_2 ]_n (M = Ge, n = 1; M = Sn, n = 2): a theoretical study

The molecular geometry and electronic structure of stable organic derivatives of divalent germanium and tin, [(Me₃Si)₂N-M-OCH₂CH₂NMe₂]_n (M = Ge (4), n = 1; M = Sn (5), n =2) and their isomers with broken (4a, 5a) and closed (4b, 5b) intramolecular coordination bonds M←NMe₂, were studied by the density functional (PBE/TZ2P/SBK-JC) and NBO methods. Factors responsible for stability of their dimers 4c and 5c were established. Dimerization of 5b in the gas phase is a thermodynamically favorable process (ΔG ⁰ = ?2.1 kcal mol^?1) while that of 4b is thermally forbidden (ΔG ⁰ = 10.1 kcal mol^?1), which is consistent with experimental data. The M←NMe₂ coordination bond energies, ΔE ⁰, were found to be ?5.3 and ?8.6 kcal mol^?1 for M = Ge and Sn, respectively. NBO analysis showed that the metal atoms M in molecules 4 and 5 are weakly hybridized. The lone electron pairs of the M atoms have strong s-character while vacant orbitals of these atoms, LP* M, are represented exclusively by the metal np_z-AOs. The strongest orbital interactions between subunits in dimers 4c and 5c involve electron density donation from the lone electron pairs of oxygen atoms (LP O) to the LP* M orbitals.     

Stabilization Studies on Divalent Five‐Membered Rings C4H4C,C4H4Si,C4H4Ge,C4H4Sn,and C4H4Pb

Energy differences, ΔX_S‐t (X = E, H and G) (ΔX_S‐t = X_(singlet)‐X_(triplet)) between singlet (s) and triplet (t) states are calculated at B3LYP/6‐311++G (3df,2p). The DFT calculations show that the triplet state of C₄H₄C is a ground state with planar conformer respect to its corresponding nonplanar singlet state. Both singlet and triplet states of C₄H₄M (M = Si, Ge, Sn and Pb) have a planar conformer with the singlet ground state. Four isodesmic reactions are presented for determining the stability energies, SE. NICS calculations are carried out for C₄H₄M to determine the aromatic character.     

Computational study of conformations and of sulfinyl oxygen-induced pentacoordination at silicon in 4-chloro-4-silathiacyclohexane 1-oxide and 4,4-dichloro-4-silathiacyclohexane 1-oxide

Second-order Møller-Plesset theory (MP2) and density functional theory (B3LYP) with the 6-311G(d,p) and 6-311+G(d,p) basis sets have been used to calculate the equilibrium geometries and relative energies of the chair, twist, and boat conformations of 4-chloro-4-silathiacyclohexane 1-oxide and 4,4-dichloro-4-silathiacyclohexane 1-oxide. The chair conformers of the axial sulfoxides are lower in energy than the chair conformers of the corresponding equatorial sulfoxides. MP2/6-311+G(d,p) predicted the chair conformer of axial trans-4-chloro-4-silathiacyclohexane 1-oxide (4a) to be 6.12, 0.44, and 0.45 kcal/mol, respectively, more stable than the corresponding 1,4-twist (4b), 2,5-twist (4c) and 1,4-boat (4d) conformers and 6.93 kcal/mol more stable than the 2,5-boat transition state ([4e]^‡). Structures 4c and 4d are stabilized by intramolecular coordination of the sulfinyl oxygen with silicon that results in trigonal bipyramidal geometry at silicon. The 1,4-boat conformer (7d) of axial 4,4-dichloro-4-silathiacyclohexane 1-oxide is also stabilized by transannular coordination of the sulfinyl oxygen with silicon. The energy difference (E_rel = 4.23 kcal/mol) between the chair conformer (7a) and 7d is larger than that between 4a and 4d. The relatively lower stability of the 1,4-boat conformer (7d) of axial 4,4-dichloro-4-silathiacyclohexane 1-oxide (7a) may be due to repulsive interactions of the axial halogen and sulfinyl oxygen atoms. The relative energies and structures of the conformers and transition states of cis- and trans-4-chloro-4-silathiacyclohexane 1-oxide and 4,4-dichloro-4-silathiacyclohexane 1-oxide are discussed in terms of hyperconjugative interactions, orbital interactions, nonbonded interactions, and intramolecular sulfinyl oxygen-silicon coordination.     

Synthesis,spectroscopy, computational study and prospective biological activity of two novel 1,3,2-diazaphospholidine-2,4,5-triones

The preparation of two new 1,3,2-diazaphospholidine-2,4,5-triones is reported. Thus, 2-chloro-1,3,2-diazaphospholidine-2,4,5-trione [ClP(O)(NHC(O)C(O)NH) (I)] and 2-benzylamino-1,3,2-diazaphospholidine-2,4,5-trione [C₆H₅CH₂NHP(O)(NHC(O)C(O)NH) (II)] have been synthesized by the reaction of POCl₃ with the corresponding carboxylic diamide salts. The characterization of the compound I was performed by multinuclear (¹H, ¹³C, ³¹P) NMR and FTIR spectroscopies, elemental analysis and also mass spectrometry. Both compounds show two signals at room temperature in the low field region of the ¹H NMR spectrum, which collapsed to a single peak when the temperature is increased. Dynamic NMR (¹H DNMR) and quantum chemical studies were performed to gain insight from this conversion process. The free activation energies, calculated at the coalescence temperatures are 18.51 and 17.45 kcal/mol for compounds (I) and (II), respectively, which are associated with a tautomeric interconversion process, most likely between the lactam and lactim forms. The relative energy, molecular geometry and vibrational properties of several plausible tautomers were analyzed by using quantum chemical calculations at the HF/6-311G** and B3LYP/6-311++G** levels of the theory. The nuclear magnetic shielding tensors have been calculated for both tautomeric forms using the gauge independent atomic orbital (GIAO) method at the B3LYP/6-311++G(3df,2p) level of approximation. A biological activity prediction using the PASS software shows that compound (I) can be characterized by a superb anti-HIV activity whereas compound (II) is a very good antineoplastic.     

Electron affinities of a homologous series of tertiary alkyl radicals and their C-H bond dissociation energies (BDEs)

Heats of formation have been derived from G3(MP2)//B3LYP and G3MP2B3(+) atomization energies for tert-butyl radical (6R), cubyl radical, bicyclooctyl radical (1R), and tricyclo[3.3.n.0^3,7]alk-3(7)-yl (n=0-3, 2R-5R) radicals, and their respective anions (1A-6A) and hydrocarbons (1H-6H). The electron affinity (EA) of 6R is estimated at 1.5±2 kcal/mol and tert-butyl anion (6A) is likely to be bound. In the homologous series 2R-5R the EAs range from 3.4±2 to 13.5±2 kcal/mol. The computed enthalpies of the acidities of the tricyclic hydrocarbons 1H-5H are in the range 407-411 kcal/mol. Their C-H bond dissociation energies (BDEs) are in the range 97-110 kcal/mol. The increase of the BDEs in the homologous series 2H-5H and the increase of EAs of 2A-5A is attributed to the enhanced pyramidalization induced in radicals 2R-5R by the shortening of the methylene chain connecting carbons C₃ and C₇.     

A potential energy surface survey of OB6: global minima and isomerization stability

In light of the very recent significant discrepancies on the global isomer of the sept-atomic molecule OB₆, we performed a detailed potential energy surface survey of OB₆ covering various isomeric forms. We showed that at the CCSD(T)/6-311+G(2df)//B3LYP/6-311+G(d) level, the planar knife-like isomer 01 with a –BO moiety has the lowest energy, followed by the planar belt-like isomer 02 at 22.6 kcal/mol. Another isomer 05 at 33.1 kcal/mol can be viewed as the direct O-adduct of the pentagonal pyramid B₆. Kinetically, the three isomers 01, 02 and 05 all have considerable barriers (19–29 kcal/mol) (obtained at B3LYP/6-311+G(d) level) against isomerization. However, other isomers either have much higher energy or possess much smaller conversion barriers and are thus of little likeliness for isolation. Moreover, though being isoelectronic to the well-known CB ₆ ^2? molecule, OB₆ does not have any kinetically stabilized wheel-like isomers with O or B centers. The three OB₆ isomers 01, 02 and 05 await future laboratory studies. The detailed results reported in this paper are expected to provide useful information for understanding the growing process of boron oxides, O-doping and oxidation mechanism of boron clusters.     

Enantioselective Supramolecular Carriers for Nucleoside Drugs. A Thermodynamic and Kinetic Gas Phase Investigation

The enantioselective interactions between chiral tetra-amidic receptors and nucleosides have been investigated by the ESI-IT-MS and ESI-FT-ICR-MS methodologies. Configurational effects on the CID fragmentation of diastereomeric [M ^H ₂ ?H?A]?⁺ aggregates (A?=?2'-deoxycytidine dC, citarabine (ara-C) were found to be mostly offset by isotope effect in [S ^X ₂ ?H?A]?⁺ (X?=?H, D) differently from the results obtained on the analogues (A?=?cytidine C and gemcitabine G). This result points the involvement of two different nucleoside/tetraamide isoforms. The structural differences of the [M ^H ₂ ?H?A]?⁺ (A?=?C and G) complexes vs. the [M ^H ₂ ?H?A]?⁺ (dC and ara-C) ones is fully confirmed by the kinetics of their uptake of the 2-aminobutane enantiomers, measured by FT-ICR mass spectrometry. Indeed, uptake of the 2-aminobutane enantiomers by [M ^H _n ?H?A]?⁺ (n?=?1,2; A?=?dC and ara-C) complexes is reversible, while that by [M ^H _n ?H?A]?⁺ (n?=?1,2; A?=?C and G) is not. The most encouraging result concerning the measured fragmentation and kinetic differences between C and ara-C, that are just epimers, indicates the possibility to subtly modulate the non-covalent drug/receptor interactions, through the electronic properties of the 2'-substituent on the nucleoside furanose ring, and furthermore on its three-dimensional position.     

Pyridine derived N-heterocyclic germylenes: A density functional perspective

Three novel germanimines, 2-, 3-, and 4-germapyridines (1, 2, and 3, respectively) along with their isomeric germylenes, are compared and contrasted at B3LYP/AUG-cc-pVTZ//B3LYP/6-31+G^∗ level of theory. From a thermodynamic viewpoint, two germylenes out of a total of eight singlet minima, 1H-2-germapyridine-2-ylidene (1a) and 1H-4-germapyridine-4-ylidene (3a), are found 29.2 and 15.4 kcal/mol more stable than their corresponding aromatic germapyridine isomers, respectively. Indeed, 1a is the global minimum on the potential energy surface of cyclic C₄NGeH₅ with a singlet-triplet energy gap larger than that of Herrmann’s germylene, i.e. 57.4 vs. 49.7 kcal/mol. From a kinetic viewpoint, the calculated energy barrier for 1,2-H shift of 1a to 1 is 70.8 kcal/mol compared to more prohibitive 92.5 kcal/mol for 1,4-H shift of 3a to 3. No GeGe doubly bonded minimum structure is found as dimer for 1a. The doubly bonded dimer of 3a is 11.2 kcal/mol less stable than its two separate monomers. This study signifies the thermodynamic and kinetic stabilities of divalent 1a and 3a hoping to prompt the experimental attentions toward them.     

Synthesis, crystal structure, and properties of triphenylguanidinium perrhenate hemihydrate

Triphenylguanidinium perrhenate hemihydrate, [(C₆H₅NH)₃C]ReO₄ · 0.5H₂O (I), is synthesized, and its crystal structure and some properties are studied. The colorless extended plate-like crystals of compound I are triclinic (space group $P\bar 1$ , Z = 4, 293 K, a = 9.8716(17), b = 14.093(2), c = 15.439(3)Å, α = 99.632(9)^○, β = 101.802(9)^○, γ = 95.361(10)^○). Compound I has no isostructural analogs, and the conformations of both crystallographically independent triphenylguanidinium cations differ by a higher symmetry (C _3h ) from those for cations of this type in all other structurally studied compounds. The following parameters are determined: the upper limit of the temperature stability of compound I (383 K), the melting point of anhydrous [(C₆H₅NH)₃C]ReO₄ (Ia) of 441 K, the enthalpy of dehydration of compound I (ΔH _dehydr ^{(383 K)} = 10.0(8) kJ/mol), and the enthalpy of melting of anhydrous Ia (ΔH _m ^{(441 K)} = 16.6(9) kJ/mol).     

Naphthologs of overcrowded bistricyclic aromatic enes: (E)-bisbenzo[a]fluorenylidene

(E)-11H-Bisbenzo[a]fluorenylidene (E-6) was synthesized by Barton’s double extrusion diazo-thione coupling method from 11H-benzo[a]fluoren-11-thione (11) and 11-diazo-11H-benzo[a]fluorene (13). The reaction is probably thermodynamically controlled; in the event that the less stable Z -6 is also formed, it would rapidly undergo Z → E diastereomerization to give E -6. The B3LYP/6-311G(d,p) calculated diastereomerization barrier for Z -6 → E -6 is ΔG ₂₉₈ = 57.0 kJ/mol (13.6 kcal/mol). The calculated equilibrium constant K _eq(E -6 → Z -6) = 92:8 (at 298 K) is indicative of a marked diastereoselectivity of the reaction leading to E -6. The structure of E-6 was established by ¹H-NMR and ¹³C-NMR spectroscopies and by X-ray analysis. PAE E-6 crystallizes in the monoclinic space group C2/c. The unit cell of the crystal structure E -6 contains eight molecules, arranged as four pairs of enantiomers. PAE E -6 adopts a twisted conformation with the pure twist of the central C¹¹=C^11′ bond ω = 39°. The dihedral angle ν in E -6 is 60.6°, which is significantly higher than the respective dihedral angle in PAEs Z -6, 2, E -7, Z -7, 14, and 15. The large syn-pyramidalization angles at C¹¹ and C^11′ (χ = 12.6° and 14.8°) of E-6 indicates the enhanced strain in the fjord regions of the molecule. The enhanced twist is primarily attributed to the double benzo[a]annelation of the bifluorenylidene moiety at the fjord regions. The B3LYP/6-311G(d,p) calculated structure of E -6 is in a very good agreement with the experimental X-ray structure. PAE E -6 adopts a twisted conformation in solution, with the downfield chemical shift of H¹/H^1′ (8.31 ppm); H¹⁰/H^10′ (δ = 7.20 ppm) and H⁹/H^9′ (δ = 6.86 ppm) in E -6 are positioned above the planes of the opposing naphthalene rings. PAEs E -6 and Z -6 are significantly higher in energy than their corresponding benzo[b]annelated isomers E -7 and Z -7.     

Quantum chemical study of the Cspiro-O bond dissociation in spiropyran molecules

To study the possibility of photochromic transformations in the crystals of bifunctional compounds, quantum chemical B3LYP/6-31G(d) calculations of the C_spiro-O bond dissociation energies were carried out with the Gaussian-03 program for two dissimilar neutral spiropyrans (Sp) and three cations of their salts in the singlet ground state. For C_spiro-O bond dissociation in the cations Sp ⁺ and the neutral systems SpI consisting of Sp ⁺ and I^?, the energy barriers do not exceed 10 kcal mol^?1, increasing when moving from the cations Sp ⁺ to the neutral systems SpI. The changes in the HOMO and LUMO energies when going from the closed to open form of the cations Sp ⁺ correlate with the energy barriers to the corresponding C_spiro-O bond dissociations.     

Thermal decomposition of iron(VI) oxides, K2FeO4 and BaFeO4, in an inert atmosphere

The thermal decomposition of solid samples of iron(VI) oxides, K₂FeO₄·0.088 H₂O (1) and BaFeO₄·0.25H₂O (2) in inert atmosphere has been examined using simultaneous thermogravimetry and differential thermal analysis (TG/DTA), in combination with in situ analysis of the evolved gases by online coupled mass spectrometer (EGA-MS). The final decomposition products were characterized by ⁵⁷Fe Mössbauer spectroscopy. Water molecules were released first, followed by a distinct decomposition step with endothermic DTA peak of 1 and 2 at 273 and 248 °C, respectively, corresponding to the evolution of molecular oxygen as confirmed by EGA-MS. The released amounts of O₂ were determined as 0.42 and 0.52 mol pro formula of 1 and 2, respectively. The decomposition product of K₂FeO₄ at 250 °C was determined as Fe(III) species in the form of KFeO₂. Formation of an amorphous mixture of superoxide, peroxide, and oxide of potassium may be other products of the thermal conversion of iron(VI) oxide 1 to account for less than expected released oxygen. The thermogravimetric and Mössbauer data suggest that barium iron perovskite with the intermediate valence state of iron (between III and IV) was the product of thermal decomposition of iron(VI) oxide 2.