Single Solvent Molecules Induce Dual Nucleophiles in Gas-Phase Ion-Molecule Nucleophilic Substitution Reactions.

Direct dynamics simulation of singly hydrated peroxide ion reacting with CH3Cl reveals a new product channel that forms CH3OH + Cl- + HOOH, besides the traditional channel that forms CH3OOH + Cl- + H2O. This finding shows that singly hydrated peroxide ion behaves as a dual nucleophile through proton transfer between HOO-(H2O) and HO-(HOOH). Trajectory analysis attributes the occurrence of the thermodynamically and kinetically unfavored HO--induced pathway to the entrance channel dynamics, where extensive proton transfer occurs within the deep well of the prereaction complex. This study represents the first example of a single solvent molecule altering the nucleophile in a gas-phase ion-molecule nucleophilic substitution reaction, in addition to reducing the reactivity and affecting the dynamics, signifying the importance of dynamical effects of solvent molecules.

Gas-Phase Reactions of Deprotonated Nucleobases with H, N, and O Atoms.

Complex organic molecules, the hallmark of terrestrial life, are increasingly detected in exotic environments throughout the universe. Our studies probe the ion chemistry of these biomolecules. We report gas-phase reaction rate constants for five deprotonated nucleobases (adenine, cytosine, guanine, thymine, and uracil) reacting with the atomic species H, N, and O. Hydrogen atoms react at moderate rates via associative electron detachment. Oxygen atom reactions occur more rapidly, generating complex product distributions; reaction pathways include associative electron detachment, substitution of the hydrogen atom by an oxygen atom, and generation of OCN-. Nitrogen atoms do not react with the nucleobase anions. The reaction thermodynamics were investigated computationally, and reported product channels are exothermic. Many of the proposed products have been observed in various astrochemical environments. These reactions provide insight into chemical processes that may occur at the boundaries between diffuse and dense interstellar clouds and in complex extraterrestrial ionospheres.

Elucidating the Reactivity of O2 (a 1Δg): A Study with Amino Acid Anions and Related Sulfur and Oxygen Anionic Species.

Rate constants and product ions were determined for a series of anions reacting with singlet molecular oxygen O2 (a 1Δg) at thermal energy using an electrospray ionization-selected ion flow tube. The 20 naturally occurring amino acids were used to produce corresponding deprotonated anions; only [Cys-H]- and [Pro-H]- were found to be reactive with O2 (a 1Δg), generating OSCH2CH(NH2)CO2- + HO and C5H6NO2- + H2O2, respectively. The reaction of O2 (a 1Δg) with [Cys-H]- has a rate constant more than ten times larger than the reaction of O2 (a 1Δg) with [Pro-H]-. Furthermore, reactions of O2 (a 1Δg) with carboxylic acid and thiol anions were carried out to elucidate the reactivity of the sulfur-containing functional groups. Potential energy surfaces and overall reaction exothermicities were calculated for representative reactions using density functional theory. Reactions in which attack occurs at the sulfur produce HCSO- as an ionic product. Reactions of several carboxylic acid anions likely proceed through a hydroperoxide intermediate that is analogous to that calculated for reactions with amino acid anions at a higher collision energy. Overall, rate constants for reactions of carboxylic acid anions RC(O)O- were found to be smaller for larger R groups.

The HNO- radical anion: A proposed intermediate in diazeniumdiolate synthesis using nitric oxide and alkoxides.

The strategy of synthesizing diazeniumdiolates (X-N(O)=NO-) through the coexistence of nitric oxide and alkoxides (RO-) was introduced by Wilhelm Traube 120 years ago. Today, despite the wide use of diazeniumdiolate derivatives to release nitric oxide in the treatment of cancer, the first step of the reaction mechanism for diazeniumdiolate synthesis remains a mystery and is thought to be complex. We have studied the gas-phase reactions of nitric oxide with alkoxides at room temperature. An electron-coupled hydrogen transfer is observed, and the radical anion HNO- is the only ionic product in these reactions. HNO- can further react with nitric oxide to form N2O and HO-.

Photoelectron spectroscopy and thermochemistry of o-, m-, and p-methylenephenoxide anions.

The anionic products following (H + H+) abstraction from o-, m-, and p-methylphenol (cresol) are investigated using flowing afterglow-selected ion flow tube (FA-SIFT) mass spectrometry and anion photoelectron spectroscopy (PES). The PES of the multiple anion isomers formed in this reaction are reported, including those for the most abundant isomers, o-, m- and p-methylenephenoxide distonic radical anions. The electron affinity (EA) of the ground triplet electronic state of neutral m-methylenephenoxyl diradical was measured to be 2.227 ± 0.008 eV. However, the ground singlet electronic states of o- and p-methylenephenoxyl were found to be significantly stabilized by their resonance forms as a substituted cyclohexadienone, resulting in measured EAs of 1.217 ± 0.012 and 1.096 ± 0.007 eV, respectively. Upon electron photodetachment, the resulting neutral molecules were shown to have Franck-Condon active ring distortion vibrational modes with measured frequencies of 570 ± 180 and 450 ± 80 cm-1 for the ortho and para isomers, respectively. Photodetachment to excited electronic states was also investigated for all isomers, where similar vibrational modes were found to be Franck-Condon active, and singlet-triplet splittings are reported. The thermochemistry of these molecules was investigated using FA-SIFT combined with the acid bracketing technique to yield values of 341.4 ± 4.3, 349.1 ± 3.0, and 341.4 ± 4.3 kcal mol-1 for the o-, m-, and p-methylenephenol radicals, respectively. Construction of a thermodynamic cycle allowed for an experimental determination of the bond dissociation energy of the O-H bond of m-methylenephenol radical to be 86 ± 4 kcal mol-1, while this bond is significantly weaker for the ortho and para isomers at 55 ± 5 and 52 ± 5 kcal mol-1, respectively. Additional EAs and vibrational frequencies are reported for several methylphenyloxyl diradical isomers, the negative ions of which are also formed by the reaction of cresol with O-.

Reactivity of amino acid anions with nitrogen and oxygen atoms.

For many decades, astronomers have searched for biological molecules, including amino acids, in the interstellar medium; this endeavor is important for investigating the hypothesis of the origin of life from space. The space environment is complex and atomic species, such as nitrogen and oxygen atoms, are widely distributed. In this work, the reactions of eight typical deprotonated amino acids (glycine, alanine, cysteine, proline, aspartic acid, histidine, tyrosine, and tryptophan) with ground state nitrogen and oxygen atoms are studied by experiment and theory. These amino acid anions do not react with nitrogen atoms. However, the reactions of these ions with oxygen atoms show an intriguing variety of ionic products and the reaction rate constants are of the order of 10-10 cm3 s-1. Density functional calculations provide detailed mechanisms of the reactions, and demonstrate that spin conversion is essential for some processes. Our study provides important data and insights for understanding the kinetic and dynamic behavior of amino acids in space environments.

Reactions of Sulfur- and Oxygen-Containing Anions with Hydrogen Atoms: A Comparative Study.

Reactions of hydrogen atoms with small sulfur-containing anions, SCN-, CH3COS-, C6H5COS-, -SCH2COOH, C6H5S-, 2-HOOCC6H4S-, and related oxygen-containing anions, OCN-, CH3COO-, C6H5COO-, HOCH2COO-, C6H5O-, 2-HOOCC6H4O-, have been studied both experimentally and computationally. The experimental results show that associative electron detachment (AED) is the only channel for the reactions. The rate constants for reactions between sulfur-containing anions and H atoms are generally higher than for the related oxygen-containing anions with the exception of the reaction of SCN-. The generally higher reactivity of the sulfur anions contrasts with previous results where AED reactivity was found to correlate with reaction exothermicity. Density functional theory calculations indicate that the reaction enthalpies, the characteristics of the reaction potential energy surfaces, and other structural and electronic factors can influence the reaction rate constants. This study indicates that organic sulfur anions can be more reactive than related oxygen anions in the interstellar medium where hydrogen atoms are abundant.

Experimental and Computational Studies of the Reactions of N and O Atoms with Small Heterocyclic Anions.

The existence of heterocyclic aromatic anions in extraterrestrial environments, such as the upper atmosphere of Titan, has been recently confirmed by data from the Cassini spacecraft. Nitrogen and oxygen atoms are also common species in the ionospheres of planets and moons and in the interstellar medium. In the current work, we extend previous studies to explore the reactivity of five-membered ring aromatic anions that contain nitrogen, oxygen, or sulfur (deprotonated pyrrole, furan, and thiophene) with N and O atoms both experimentally and computationally. Furanide and thiophenide anions react with the N atom by associative electron detachment (AED). All three anions react with the O atom both by AED and by processes that form ionic products. The reaction of pyrrolide anion with the O atom generates only one ionic product C4H3NO-, corresponding to an O addition and H loss process. The corresponding process is observed as the major channel for the reaction of furanide anion with the O atom while other ionic products HCOO- and C2H- are also formed. The reaction of thiophenide with the O atom is more complex, and four ionic products are generated, of which three are sulfur-containing ions. The reaction mechanisms are studied theoretically by employing density functional theory calculations, and spin conversion is found to be critical for understanding some product distributions. This work provides insight into the rich gas-phase chemistry of aromatic ion-atom reactions, which are relevant to ionospheric and interstellar chemistry.

Reactions of substituted benzene anions with N and O atoms: Chemistry in Titan's upper atmosphere and the interstellar medium.

The likely existence of aromatic anions in many important extraterrestrial environments, from the atmosphere of Titan to the interstellar medium (ISM), is attracting increasing attention. Nitrogen and oxygen atoms are also widely observed in the ISM and in the ionospheres of planets and moons. In the current work, we extend previous studies to explore the reactivity of prototypical aromatic anions (deprotonated toluene, aniline, and phenol) with N and O atoms both experimentally and computationally. The benzyl and anilinide anions both exhibit slow associative electron detachment (AED) processes with N atom, and moderate reactivity with O atom in which AED dominates but ionic products are also formed. The reactivity of phenoxide is dramatically different; there is no measurable reaction with N atom, and the moderate reactivity with O atom produces almost exclusively ionic products. The reaction mechanisms are studied theoretically by employing density functional theory calculations, and spin conversion is found to be critical for understanding some product distributions. This work provides insight into the rich gas-phase chemistry of aromatic ion-atom reactions and their relevance to ionospheric and interstellar chemistry.

Experimental and Theoretical Studies of the Reactivity and Thermochemistry of Dicyanamide: N(CN)(2)(-).

Dicyanamide [N(CN)2(-)] is a common anionic component of ionic liquids, several of which have shown hypergolic reactivity upon mixing with white-fuming nitric acid. In this study, we explore the thermochemistry of dicyanamide and its reactivity with nitric acid and other molecules to gain insight into the initial stages of the hypergolic phenomenon. We have developed and utilized an electrospray ion source for our selected ion flow tube (SIFT) to generate the dicyanamide anion. We have explored the general reactivity of this ion with several neutral molecules and atoms. Dicyanamide does not show reactivity with O2, H2SO4, H2O2, DBr, HCl, NH3, N2O, SO2, COS, CO2, CH3OH, H2O, CH4, N2, CF4, or SF6 (k < 1 × 10(-12) cm(3)/s); moreover, dicyanamide does not react with N atom, O atom, or electronically excited molecular oxygen (k < 5 × 10(-12) cm(3)/s), and our previous studies showed no reactivity with H atom. However, at 0.45 Torr helium, we observe the adduct of dicyanamide with nitric acid with an effective bimolecular rate constant of 2.7 × 10(-10) cm(3)/s. Intrinsically, dicyanamide is a very stable anion in the gas phase, as illustrated by its lack of reactivity, high electron-binding energy, and low proton affinity. The lack of reactivity of dicyanamide with H2SO4 gives an upper limit for the gas-phase deprotonation enthalpy of the parent compound (HNCNCN; <310 ± 3 kcal/mol). This limit is in agreement with theoretical calculations at the MP2/6-311++G(d,p) level of theory, finding that ΔH298 K(HNCNCN) = 308.5 kcal/mol. Dicyanamide has two different proton acceptor sites. Experimental and computational results indicate that it is lower in energy to protonate the terminal nitrile nitrogen than the central nitrogen. Although proton transfer to dicyanamide was not observed for any of the acidic molecules investigated here, the calculations on dicyanamide with one to three nitric acid molecules reveal that higher-order solvation can favor exothermic proton transfer. Furthermore, the formation of 1,5-dinitrobiuret, proposed to be the key intermediate during the hypergolic ignition of dicyanamide ionic liquids with nitric acid, is investigated by calculation of the reaction coordinate. Our results suggest that solvation dynamics of dicyanamide with nitric acid play an important role in hypergolic ignition and the interactions at the droplet/condensed-phase surface between the two hypergolic liquids are very important. Moreover, dicyanamide exists in the atmosphere of Saturn's moon, Titan; the intrinsic stability of dicyanamide strongly suggests that it may exist in molecular clouds of the interstellar medium, especially in regions where other stable carbon-nitrogen anions have been detected.

Computational studies of the gas phase reactions of ethers with anions: kinetic barriers, isotope effects, consecutive eliminations and site selectivity.

Bimolecular elimination reactions (E2) are fundamentally important processes in organic chemistry. Our current work focuses on a computational investigation of several interesting and unexpected experimental results previously obtained in our laboratory. In particular, we have examined the detailed mechanisms for generating CH(2)CHO(‒) from the reaction of HO(‒) + CH(3)CH(2)OCH(2)CH(2)OCH(3), the unusually large isotope effect (k(D)/k(H) = 5.5) for the reaction of NH(2)(‒) + CH(3)CH(2)OCH(2)CH(3), and the possible kinetic barriers in the reaction of H(‒) + CH(3)CH(2)OCH(2)CH(3). Moreover, we have explored the high site selectivity in the reaction of NH(2)(‒) + CH(3)CH(2)OC(CH(3))(3). In the HO(‒) + CH(3)CH(2)OCH(2)CH(2)OCH(3) reaction, three ion‒neutral encounter complexes were located and fully optimized. The corresponding transition states were confirmed during the first E2 hydrogen-transfer process and they all possess E1(cb)-like antiperiplanar conformations. The formation of loosely bonded CH(3)O(‒) and H(2)O moieties was found to be essential for the second E2-type hydrogen transfer, and an intriguing E1(cb)-like gauche transition state (CH(3)OH-Cα-Cß- OCHCH(2) dihedral = 40.9°) is located, which results in the formation of ionic CH(2)CHO(‒) and neutral CH(3)OH, H(2)O and C(2)H(4) products. The lowest kinetic barrier for the reaction of NH(2)(‒) + CH(3)CH(2)OCH(2)CH(3) is 5.3 kcal mol(‒1) (1 kcal mol(‒1) = 4.2 kJ mol(‒1)), which is 1.5 kcal mol(‒1) higher in energy than the lowest barrier for the reaction HO(‒) + CH(3)CH(2)OCH(2)CH(3). The higher kinetic barrier of the NH(2)(‒) + CH(3)CH(2)OCH(2)CH(3) reaction is consistent with the observation of a larger isotope effect. The lowest kinetic barrier for the reaction of H(‒) + CH(3)CH(2)OCH(2)CH(3) is +5.4 kcal mol(‒1), indicating that, although H(‒) is a strong base, this reaction cannot occur at room temperature, which agrees well with the experimental results. The high selectivity in the formation of CH(3)CH(2)O(‒) from the reaction of NH(2)(‒) + CH(3)CH(2)OC(CH(3))(3) is explained by an electrostatic potential analysis of the ether molecule. Thus, this computational study provides important insight into the detailed mechanisms of elimination reactions.

Reactions of Azine Anions with Nitrogen and Oxygen Atoms: Implications for Titan's Upper Atmosphere and Interstellar Chemistry.

Azines are important in many extraterrestrial environments, from the atmosphere of Titan to the interstellar medium. They have been implicated as possible carriers of the diffuse interstellar bands in astronomy, indicating their persistence in interstellar space. Most importantly, they constitute the basic building blocks of DNA and RNA, so their chemical reactivity in these environments has significant astrobiological implications. In addition, N and O atoms are widely observed in the ISM and in the ionospheres of planets and moons. However, the chemical reactions of molecular anions with abundant interstellar and atmospheric atomic species are largely unexplored. In this paper, gas-phase reactions of deprotonated anions of benzene, pyridine, pyridazine, pyrimidine, pyrazine, and s-triazine with N and O atoms are studied both experimentally and computationally. In all cases, the major reaction channel is associative electron detachment; these reactions are particularly important since they control the balance between negative ions and free electron densities. The reactions of the azine anions with N atoms exhibit larger rate constants than reactions of corresponding chain anions. The reactions of azine anions with O atoms are even more rapid, with complex product patterns for different reactants. The mechanisms are studied theoretically by employing density functional theory; spin conversion is found to be important in determining some product distributions. The rich gas-phase chemistry observed in this work provides a better understanding of ion-atom reactions and their contributions to ionospheric chemistry as well as the chemical processing that occurs in the boundary layers between diffuse and dense interstellar clouds.

Deprotonated purine dissociation: experiments, computations, and astrobiological implications.

A central focus of astrobiology is the determination of abiotic formation routes to important biomolecules. The dissociation mechanisms of these molecules lend valuable insights into their synthesis pathways. Because of the detection of organic anions in the interstellar medium (ISM), it is imperative to study their role in these syntheses. This work aims to experimentally and computationally examine deprotonated adenine and guanine dissociation in an effort to illuminate potential anionic precursors to purine formation. Collision-induced dissociation (CID) products and their branching fractions are experimentally measured using an ion trap mass spectrometer. Deprotonated guanine dissociates primarily by deammoniation (97%) with minor losses of carbodiimide (HNCNH) and/or cyanamide (NH2CN), and isocyanic acid (HNCO). Deprotonated adenine fragments by loss of hydrogen cyanide and/or isocyanide (HCN/HNC; 90%) and carbodiimide (HNCNH) and/or cyanamide (NH2CN; 10%). Tandem mass spectrometry (MS(n)) experiments reveal that deprotonated guanine fragments lose additional HCN and CO, while deprotonated adenine fragments successively lose HNC and HCN. Every neutral fragment observed in this study has been detected in the ISM, highlighting the potential for nucleobases such as these to form in such environments. Lastly, the acidity of abundant fragment ions is experimentally bracketed. Theoretical calculations at the B3LYP/6-311++G(d,p) level of theory are performed to delineate the mechanisms of dissociation and analyze the energies of reactants, intermediates, transition states, and products of these CID processes.

Gas-phase reactions of CF(+) with molecules of interstellar relevance.

We have studied the gas-phase reactions of CF(+) with 24 neutral species. Reaction rate constants and product branching fractions are measured at 298 K using a flowing afterglow-selected ion flow tube. Experimental work is supported by computational chemistry calculations to provide insight into the reactivity of classes of neutral molecules. Reactions of CF(+) with small triatomic species and oxygen-containing organic molecules produce the stable molecule CO. The product branching fractions are discussed, and the potential energy surfaces for a few representative reactions are examined. CF(+) is highly reactive with complex molecules and will likely be destroyed in dense environments in the interstellar medium. However, the lack of reactivity with small diatomic molecules will likely enable its survival in diffuse regions.