Probing the mechanisms and dynamics of gas phase hydrogen-deuterium exchange reactions of sodiated polyglycines.

The rate constants for H-D exchange reactions of sodiated polyglycines (GnNa(+), n = 2-8) and polyalanines (AnNa(+), n = 2, 3 and 5) with ND3 have been measured in the cell of an FT-ICR mass spectrometer. All peptides except G2Na(+) are found to undergo three exchange reactions, all of which are consecutive with no sign of multiple exchanges within a single collision event. This information has been used to construct full mechanistic scenarios with the help of detailed quantum chemical calculations of the possible reaction paths for H-D exchange. The first exchange is always located at the C terminus however with different mechanisms depending upon whether the peptide termini can (larger peptides) or cannot (smaller peptides) interact directly without strong energy penalty. The most favourable mechanisms for the second and third exchanges of the N terminus protons, are found to be different from those for the first for all peptide sizes. The peptide distortions that are necessary in order for some of these reactions to occur are made possible by the energy reservoir provided by the favorable interaction of the peptide ion with ND3. Their occurrence and variety preclude any general relationship between H-D exchange kinetics and the most stable ion structures. There is however a break at G7Na(+) in the kinetics trend, with a first exchange rate which is much smaller than for all other peptide sizes. This break can be directly related to a different structural type in which the C terminus is neither free nor close to the N terminus.

Infrared multiphoton dissociation spectra as a probe of ion molecule reaction mechanism: the formation of the protonated water dimer via sequential bimolecular reactions with 1,1,3,3-tetrafluorodimethyl ether.

The gas-phase ion-molecule reactions of 1,1,3,3-tetrafluorodimethyl ether and water have been examined using Fourier transform ion cyclotron resonance mass spectrometry, infrared multiphoton dissociation (IRMPD) spectroscopy, and ab initio molecular orbital calculations. This reaction sequence leads to the efficient bimolecular production of the proton-bound dimer of water (H5O2+). Evidence for the dominant mechanistic pathway involving the reaction of CF2H-O=CHF+, an ion of m/z 99, with water is presented. The primary channel occurs via nucleophilic attack of water on the ion of m/z 99 (CF2H-O=CHF+), to lose formyl fluoride and yield-protonated difluoromethanol (m/z 69). Association of a second water molecule with protonated difluoromethanol generates a reactive intermediate that decomposes via a 1,4-elimination to release hydrogen fluoride and yield the proton-bound dimer of water and formyl fluoride (m/z 67). Last, the elimination of formyl fluoride occurs by the association of a third water molecule to produce H5O2+ (m/z 37). The most probable isomeric forms of the ions with m/z 99 and 69 were found using IRMPD spectroscopy and electronic structure theory calculations. Thermochemical information for reactant, transition state, and product species was obtained using MP2(full)/6-311+G**//6-31G* level of theory.

Gas phase SN2 reactions of halide ions with trifluoromethyl halides: front- and back-side attack vs. complex formation.

Density functional theory computations and pulsed-ionization high-pressure mass spectrometry experiments have been used to explore the potential energy surfaces for gas-phase S(N)2 reactions between halide ions and trifluoromethyl halides, X(-) + CF(3)Y --> Y(-) + CF(3)X. Structures of neutrals, ion-molecule complexes, and transition states show the possibility of two mechanisms: back- and front-side attack. From pulsed-ionization high-pressure mass spectrometry, enthalpy and entropy changes for the equilibrium clustering reactions for the formation of Cl(-)(BrCF(3)) (-16.5 +/- 0.2 kcal mol(-1) and -24.5 +/- 1 cal mol(-1) K(-1)), Cl(-)(ICF(3)) (-23.6 +/- 0.2 kcal mol(-1)), and Br(-)(BrCF(3)) (-13.9 +/- 0.2 kcal mol(-1) and -22.2 +/- 1 cal mol(-1) K(-1)) have been determined. These are in good to excellent agreement with computations at the B3LYP/6-311+G(3df)//B3LYP/6-311+G(d) level of theory. It is shown that complex formation takes place by a front-side attack complex, while the lowest energy S(N)2 reaction proceeds through a back-side attack transition state. This latter mechanism involves a potential energy profile which closely resembles a condensed phase S(N)2 reaction energy profile. It is also shown that the Cl(-) + CF(3)Br --> Br(-) + CF(3)Cl S(N)2 reaction can be interpreted using Marcus theory, in which case the reaction is described as being initiated by electron transfer. A potential energy surface at the B3LYP/6-311+G(d) level of theory confirms that the F(-) + CF(3)Br --> Br(-) + CF(4) S(N)2 reaction proceeds through a Walden inversion transition state.

Isomerization of the protonated acetone dimer in the gas phase.

Mass spectrometry-based methods have been employed in order to study the reactions of non- (h(6)/h(6)), half (d(6)/h(6)), and fully (d(6)/d(6)) deuterium labeled protonated dimers of acetone in the gas phase. Neither kinetic nor thermodynamic isotope effects were found. From MIKES experiments (both spontaneous and collision-induced dissociations), it was found that the relative ion yield (m/z 65 vs m/z 59) from the dissociation reaction of half deuterium labeled (d(6)/h(6)) protonated dimer of acetone is dependent on the internal energy. A relative ion yield (m/z 65 vs m/z 59) close to unity is observed for cold, nonactivated, metastable ions, whereas the ion yield is observed to increase (favoring m/z 65) when the pressure of the collision gas is increased. This is in striking contrast to what would be expected if a kinetic isotope effect were present. A combined study of the kinetics and the thermodynamics of the association reaction between acetone and protonated acetone implicates the presence of at least two isomeric adducts. We have employed G3(MP2) theory to map the potential energy surface leading from the reactants, acetone and protonated acetone, to the various isomeric adducts. The proton-bound dimer of acetone was found to be the lowest-energy isomer, and protonated diacetone alcohol the next lowest-energy isomer. Protonated diacetone alcohol, even though it is an isomer hidden behind many barriers, can possibly account for the observed relative ion yield and its dependence on the mode of activation.

Ter-body intermediates in the gas phase: reaction of ionized enols with tert-butanol.

In the gas phase, the CH2CHOH.+ enol radical cation 1 as well as its higher homologues CH3CHCHOH.+ 2 and (CH3)2CCHOH.+ 3, undergo exactly the same sequence of reactions with tert-butanol, leading to the losses of isobutene, water and water plus alkene. Fourier transform ion cyclotron resonance (FT-ICR) experiments using labeled reactants as well as ab initio calculations show that independent pathways can be proposed to explain the observed reactivity. For ion 1, taken as the simplest model, the first step of the reaction is formation of a proton bound complex which gives, by a simple exothermic proton transfer, the ter-body intermediate [CH2CHO., H2O, C(CH3)3+]. This complex, which was shown to possess a significant lifetime, is the key intermediate which undergoes three reactions. First, it can collapse to yield tert-butylvinyl ether with elimination of water. Second, by a regiospecific proton transfer, this complex can isomerize into three different ter-body complexes formed of water, isobutene and ionized enol. Within one of these complexes, which does not interconvert with the others, elimination of isobutene leads to the formation of a solvated enol ion. Within the others, a cycloaddition-cycloreversion process can proceed to yield the ionized enol 3 (loss of water and ethylene channel).

The reaction of protonated dimethyl ether with dimethyl ether: temperature and isotope effects on the methyl cation transfer reaction forming trimethyloxonium cation and methanol.

Fourier transform ion cyclotron resonance mass spectrometry has been used to study the temperature and deuterium isotope effects on the methyl cation transfer reaction between protonated dimethyl ether and dimethyl ether to produce trimethyloxonium cation and methanol. From the temperature dependence of this bimolecular reaction it was possible to obtain thermodynamic information concerning the energy barrier for methyl cation transfer for the first time. From the slope of an Arrhenius plot, a value for DeltaH(++) of -1.1 +/- 1.2 kJ mol(-1) was obtained, while from the intercept a value for DeltaS(++) of -116 +/- 15 J K(-1) mol(-1) was derived. This yields a DeltaG(++)(298) value of 33.7 +/- 2.1 kJ mol(-1). All thermodynamic values were in good agreement with ab initio calculations. Rate constant ratios for the unimolecular dissociation forming trimethyloxonium cation and the dissociation re-forming reactants were extracted from the apparent bimolecular rate constant. Attempts at modeling the temperature dependence and isotope effects of the unimolecular dissociation forming trimethyloxonium cation were also made.

Consecutive infrared multiphoton dissociations in a fourier transform ion cyclotron resonance mass spectrometer.

Consecutive infrared multiphoton dissociations (IRMPD) may be observed in a Fourier transform ion cyclotron resonance mass spectrometer (FTICR). This is the IRMPD equivalent of previous MS(n)() experiments using CID. This work presents a versatile technique, using a bistable shutter to gate ON and OFF a continuous-wave (CW) CO(2) laser for multiple irradiation periods of 0.1-1000 s duration. Consecutive photodissociations, up to MS(4), are demonstrated for the proton-bound dimer of diethyl ether and the resulting fragment ions. The photoproducts are formed close to the center of the FTICR cell, resulting in high product ion recovery efficiency. This differs from CID products, which are formed throughout the FTICR cell causing reisolation/detection problems. The fragmentation resulting from the use of low-intensity, CW, infrared laser radiation is shown to be much more energy selective than CID. Photodissociation of C(2)H(5)OH(2)(+) ion produces the lowest energy product ion exclusively, even though the two product channels differ only by ∼5 kcal/mol. Low-energy CID, however, produces a mixture of C(2)H(5)(+) and H(3)O(+) products in the ratio of 1.3:1. Hence, the higher energy pathway (C(2)H(5)(+)) is substantially favored. The current results indicate that this IRMPD MS(n)() technique may be successfully applied to large biomolecules prepared by electrospray or MALDI.

Protonation of ferrocene in the gas phase.

Hydrogen-deuterium exchange, proton and deuteron transfer, and collision-induced dissociation experiments involving protonated ferrocene, [Fe(cC5H5)2]H(+), and isotopically labeled analogues have been carried out using a Fourier transform ion cyclotron resonance (FTICR) spectrometer and a double-focusing mass spectrometer of reversed geometry. These experiments reveal that the structure in which the added proton is bound to one of the cyclopentadienyl rings, possibly via agostic interaction with the iron atom, plays an important role in the gas-phase behavior of protonated ferrocene. It is demonstrated that extensive hydrogen atom scrambling occurs in the cyclopentadiene ring and that the extra hydrogen can also switch from one ring to the other, probably via the iron atom. An interpretation is presented which implicates slow thermal unimolecular rearrangement on the FKR time scale from a metal-protonated form to a ring-protonated form which is higher in energy. This interpretation successfully rationalizes the current data as well as previous gas-phase measurements and is found to be in good agreement with solution and matrix isolation studies.

a compact high pressure ion source for high and low energy collision-induced dissociation studies of cluster ions on a VG analytical ZAB-2FQ.

A compact, field-free high pressure ion source designed to replace, with minimum disruption, the electron impact/chemical ionization ion source of a VG Analytical ZAB-2FQ hybrid BEqQ mass spectrometer is described. This ion source may be operated at temperatures from ≈40 to 250 °C and at pressures up to 4-5 torr and, thus, is capable of producing proton-bound cluster ions up to hexamers in good yields. Examples of high energy collision-induced dissociation, low energy collision-induced dissociation, and neutralization-reionization studies of proton-bound cluster ions produced in this source are presented.

Ion-Molecule reactions in methylamine and dimethylamine and trimethylamine systems.

Fourier transform ion cyclotron resonance mass spectrometry has been used to measure the reaction rates for ions derived from methylamine with dimethylamine or trimethylamine. The use of the selective ion ejection technique greatly simplifies the elucidation of the ion-molecule reaction channels. The rate constants for proton transfer from protonated metwlamine, CH3NH 3 (+) (m/z 32), to dimethylamine and trimethylamine are 16.1 ± 1.6 × 10(-10) and 9.3 ± 0.9 × 10(-10) cm(3) molec(-1)s(-1), respectively. The rate constants for charge transfer from methylamine molecular ion, CH3NH 2 (+) (m/z 31), to dimethylamine and trimethylamine are 9.3 ± 1.8 x 10(-10) and 15.0 ± 5 × 10(-10) cm(3)molec(-1)s(-1), respectively.