Internal energy effects on the ion/molecule reactions of ionized methyl isocyanide

Electron ionization of methyl isocyanide in various chemical ionization conditions is reported and, depending on the energy conditions used, different ion/molecule reactions are observed. It is proposed, on the basis of combined quantum chemical (DFT) calculations and tandem mass spectrometric experiments, that a common intermediate could be a cumulenic ionized dimer dissociating in the ion source following two energy depending competitive channels, a loss of a hydrogen atom and a loss of a methyl group. Proposed structures for new cumulenic ions are supported by collision experiments in the high (collisional activation) or/and low (collision- induced dissociations) translational energy regime.

Isomeric recognition by ion/molecule reactions: the ionized phenol-cyclohexadienone case

The isomerization process between ionized phenol and ionized cyclohexadienone is studied by performing ion/molecule reactions with several alkyl nitrites in a hexapole collision cell inserted in a six-sector mass spectrometer. The distinction between both isomeric species is readily achieved on the basis of the completely different reactivity patterns observed for them in subsequent reactions. When reacting with alkyl nitrite, ionized phenol undergoes two competitive reactions corresponding to the formal radical substitution of the hydroxylic hydrogen atom by respectively (i) the nitrosyl radical (m/z 123) and (ii) an alkoxyl radical (m/z 138 if alkyl=ethyl). Both reactions were theoretically demonstrated by density functional theory calculations [B3LYP/6-311++G(d,p)+ZPE] to involve hydrogen-bridged radical cations as key intermediates. The ion/molecule reaction products detected starting from ionized cyclohexadienone as the mass-selected ions arise from *OAlkyl, *OH, and NO2* radical additions. The occurrence of a spontaneous ring-opening of cyclohexadienone radical ion into a distonic species is suggested to account for the observed ion/molecule reaction products. We also demonstrated that ionized cyclohexadienone is partly isomerized during a proton-transfer catalysis process into ionized phenol inside the Hcell with ethyl nitrite as the base. The molecular ions of phenol generated in such conditions consecutively undergo reactions producing m/z 123 and 138 radical cations. The proposed mechanism is supported by results of quantum chemical calculations.

Chromium-doped germanium clusters CrGen (n = 1-5): geometry, electronic structure, and topology of chemical bonding

The structure and properties of small neutral and cationic CrGen(0,+) clusters, with n from 1 to 5, were investigated using quantum chemical calculations at the CASSCF/CASPT2 and DFT/B3LYP levels. Smaller clusters prefer planar geometries, whereas the lowest-lying electronic states of the neutral CrGe4, CrGe5, and cationic CrGe5+ forms exhibit nonplanar geometries. Most of the clusters considered prefer structures with high-spin ground state and large magnetic moments. Relative to the values obtained for the pure Gen clusters, fragmentation energies of doped CrGen clusters are smaller when n is 3 and 4 and larger when n = 5. The averaged binding energy tends to increase with the increasing number of Ge atoms. For n = 5, the binding energies for Ge5, CrGe5, and CrGe5+ are similar to each other, amounting to approximately 2.5 eV. The Cr atom acts as a general electron donor in neutral CrGen clusters. Electron localization function (ELF) analyses suggest that the chemical bonding in chromium-doped germanium clusters differs from that of their pure or Li-doped counterparts and allow the origin of the inherent high-spin ground state to be understood. The differential DeltaELF picture, obtained in separating both alpha and beta electron components, is consistent with that derived from spin density calculations. For CrGen, n = 2 and 3, a small amount of d-pi back-donation is anticipated within the framework of the proposed bonding model.

Adenine radicals in the gas phase: an experimental and computational study of hydrogen atom adducts to adenine

The elusive hydrogen atom adduct to the N-1 position in adenine, which is thought to be the initial intermediate of chemical damage, was specifically generated in the gas phase and characterized by neutralization-reionization mass spectrometry. The N-1 adduct, 1,2-dihydroaden-2-yl radical (1), was generated by femtosecond electron transfer to N-1-protonated adenine that was selectively produced by electrospray ionization of adenine in aqueous-methanol solution. Radical 1 is an intrinsically stable species in the gas phase that undergoes specific loss of the N-1-hydrogen atom to form adenine, but does not isomerize to the more stable C-2 adduct, 1,2-dihydroaden-1-yl radical (5). Radicals 1 that are formed in the fifth and higher electronically excited states of DeltaE > or = 2.5 eV can also undergo ring-cleavage dissociations resulting in expulsion of HCN. The relative stabilities, dissociation, and transition state energies for several hydrogen atom adducts to adenine have been established computationally at highly correlated levels of theory. Transition state theory calculations of 298 K rate constants in the gas phase, including quantum tunnel corrections, indicate the branching ratios for H-atom additions to C-8, C-2, N-3, N-1, and N-7 positions in adenine as 0.68, 0.20, 0.08, 0.03, and 0.01, respectively. The relative free energies of adenine radicals in aqueous solution point to the C-8 adduct as the most stable tautomer, which is predicted to be the predominating (>99.9%) product at thermal equilibrium in solution at 298 K.

Computational study of the release of H2 from ammonia borane dimer (BH3NH3)2 and its ion pair isomers

High-level electronic structure calculations have been used to map out the relevant portions of the potential energy surfaces for the release of H2 from dimers of ammonia borane, BH3NH3 (AB). Using the correlation-consistent aug-cc-pVTZ basis set at the second-order perturbation MP2 level, geometries of stationary points were optimized. Relative energies were computed at these points using coupled-cluster CCSD(T) theory with the correlation-consistent basis sets at least up to the aug-cc-pVTZ level and in some cases extrapolated to the complete basis set limit. The results show that there are a number of possible dimers involving different types of hydrogen-bonded interactions. The most stable gaseous phase (AB)2 dimer results from a head-to-tail cyclic conformation and is stabilized by 14.0 kcal/mol with respect to two AB monomers. (AB)2 can generate one or two H2 molecules via several direct pathways with energy barriers ranging from 44 to 50 kcal/mol. The diammoniate of diborane ion pair isomer, [BH4-][NH3BH2NH3+] (DADB), is 10.6 kcal/mol less stable than (AB)2 and can be formed from two AB monomers by overcoming an energy barrier of approximately 26 kcal/mol. DADB can also be generated from successive additions of two NH3 molecules to B2H6 and from condensation of AB with separated BH3 and NH3 molecules. The pathway for H2 elimination from DADB is characterized by a smaller energy barrier of 20.1 kcal/mol. The alternative ion pair [NH4+][BH3NH2BH3-] is calculated to be 16.4 kcal/mol above (AB)2 and undergoes H2 release with an energy barrier of 17.7 kcal/mol. H2 elimination from both ion pair isomers yields the chain BH3NH2BH2NH3 as product. Our results suggest that the neutral dimer will play a minor role in the release of H2 from ammonia borane, with a dominant role from the ion pairs as observed experimentally in ionic liquids and the solid state.

Heats of Formation of Boron Hydride Anions and Dianions and Their Ammonium Salts [BnHmy-][NH4+]y with y = 1−2

Thermochemical parameters of the closo boron hydride BnHn2- dianions, with n=5-12, the B3H8- and B11H14- anions, and the B5H9 and B10H14 neutral species were predicted by high-level ab initio electronic structure calculations. Total atomization energies obtained from coupled-cluster CCSD(T)/complete basis set (CBS) extrapolated energies, plus additional corrections were used to predict the heats of formation of the simplest BnHmy- species in the gas phase in kcal/mol at 298 K: DeltaHf(B3H8-)=-23.1+/-1.0; DeltaHf(B5H52-)=119.4+/-1.5; DeltaHf(B6H62-)=64.1+/-1.5; and DeltaHf(B5H9)=24.1+/-1.5. The heats of formation of the larger species were evaluated by the G3 method from hydrogenation reactions (values at 298 K, in kcal/mol with estimated error bars of+/-3 kcal/mol): DeltaHf(B7H72-)=51.8; DeltaHf(B8H82-)=46.1; DeltaHf(B9H92-)=24.4; DeltaHf(B10H102-)=-12.5; DeltaHf(B11H112-)=-11.8; DeltaHf(B12H122-)=-86.3; DeltaHf(B11H14-)=-57.3; and DeltaHf(B10H14)=18.7. A linear correlation between atomization energies of the dianions and energies of the BH units was found. The heats of formation of the ammonium salts of the anions and dianions were predicted using lattice energies (UL) calculated from an empirical expression based on ionic volumes. The UL values (0 K) of the BnHn2- dianions range from 319 to 372 kcal/mol. The values of UL for the B3H8- and B11H14- anions are 113 and 135 kcal/mol, respectively. The calculated lattice energies and gas-phase heats of formation of the constituent ions were used to predict the heats of formation of the ammonium crystal salts [BnHmy-][NH4+]y. These results were used to evaluate the thermodynamics of the H2 release reactions from the ammonium hydro-borate salts.

Quantum Chemical and Statistical Rate Investigation of the CF2(a3B1) + NO(X2Π) Reaction: A Fast Chemical Quenching Process

The reaction of CF2(a3B1) with NO(X2Pi) was theoretically investigated using the B3LYP, MP2, CCSD(T), G2M, CASSCF, and CASPT2 quantum chemical methods with various basis sets including 6-31G(d), 6-311G(d), 6-311+G(3df), cc-pVDZ, and cc-pVTZ. In agreement with the experimental kinetic data, the CF2(a3B1)+NO(X2Pi) reaction is found to proceed via a fast, barrier-free combination. This process, occurring on the doublet potential energy surface, leads to the electronically excited adduct F2C-NO(22A''), which readily undergoes a surface hopping to the 12A' electronic surface, with a Landau-Zener transition probability estimated to be close to 90% per C-N vibration. The metastable adduct F2C-NO(12A') can then either spontaneously decompose into CF2(X1A1)+NO(X2Pi) in a direct chemical quenching mechanism or relax to its ground-state equilibrium structure F2CNO(X2A'). The product distribution resulting from the latter, chemically activated intermediate was evaluated by solution of the master equation (ME), under different reaction conditions, using the exact stochastic simulation method; microcanonical rate constants were computed using Rice-Ramsperger-Kassel-Marcus (RRKM) theory, based on the potential energy surfaces (PESs) constructed using both G2M and CASPT2 methods. The RRKM/ME analysis reveals that the hot F2CNO(X2A') rapidly fragments almost exclusively to the same products as above, CF2(X1A1)+NO(X2Pi), which amounts to an indirect chemical quenching mechanism. The reaction on the quartet PES is unlikely to be significant except at very high temperatures. The high crossing probability (up to 90%) between the two "avoided" doublet PESs points out the inherent difficulty in treating chemically activated reactions with fast-moving nuclei within the Born-Oppenheimer approximation.

Hydrogen bonding to pi-systems of indole and 1-methylindole: is there any OH...phenyl bond?

The weak hydrogen-bonded complexes between proton donors and the pi-cloud of indole and 1-methylindole (MI) are investigated theoretically by three different methods: DFT/B3LYP, MPW1B95, and MP2. This study addresses the question as to whether the 1:1 complex can only form between the proton and the pi-cloud of the pyrrole part of indole or if there also exists a 1:1 complex between the proton and the pi-cloud of the phenyl ring. For the water-indole system, the more elaborate MP2 and MPW1B95 methods yield only one minimum with a hydrogen bond to the pyrrole part and weak secondary interactions to the phenyl ring, in agreement with a recent criticism by Van Mourik (Chem. Phys. 2004, 304, 317-319) that the B3LYP functional is unable to account for the dispersion interaction. However, for the 1:1 complexes between MI and 2-propanol, all three methods indicate that both the five-membered and the six-membered rings of the indole chromophore can form pi-complexes. For the MI-trifluoroethanol (TFE) system, it is shown that the ethanol conformation is specific for the interaction site: for the complex to the five-membered ring, TFE is in the cis-gauche conformation, while for the complex to the six-membered ring site, it is in the trans conformation. These results are discussed as a function of local interactions in the systems.