Cation–ether complexes in the gas phase: thermodynamic insight into molecular recognition

Trends in the bond dissociation energies for the binding of the alkali metal cations, Li⁺, Na⁺, K⁺, Rb⁺, and Cs⁺, to a series of ethers, 1–4 dimethyl ethers, 1 and 2 dimethoxy ethanes, and the crown ethers, 12c4, 15c5, and 18c6, are discussed. The bond energies have been determined in previous studies by analysis of the thresholds for collision-induced dissociation of the cation–ether complexes by xenon as measured in a guided ion beam tandem mass spectrometer. Details of the analysis of the data are reviewed and the accuracy of the results ascertained by comparison with theoretical results taken from the literature. Combined, the experimental and theoretical results provide an extensive thermochemical database for evaluation of the metal-crown complexes, a simple example of molecular recognition. These results indicate the importance of optimizing the metal–oxygen bond distances and the orientation of the local dipole on the oxygen towards the metal. Further, it is shown that excited state conformers of these complexes are probably observed in several systems as a result of interesting metal-dependent dynamics in the formation of the complexes.     

Can radical cations of the constituents of nucleic acids be formed in the gas phase using ternary transition metal complexes?

Electrospray ionization (ESI) tandem mass spectrometry (MS/MS) of ternary transition metal complexes of [M(L(3))(N)](2+) (where M = copper(II) or platinum(II); L(3) = diethylenetriamine (dien) or 2,2':6',2'-terpyridine (tpy); N = the nucleobases: adenine, guanine, thymine and cytosine; the nucleosides: 2'deoxyadenosine, 2'deoxyguanosine, 2'deoxythymine, 2'deoxycytidine; the nucleotides: 2'deoxyadenosine 5'-monophosphate, 2'deoxyguanosine 5'-monophosphate, 2'deoxythymine 5'-monophosphate, 2'deoxycytidine 5'-monophosphate) was examined as a means of forming radical cations of the constituents of nucleic acids in the gas phase. In general, sufficient quantities of the ternary complexes [M(L(3))(N)](2+) could be formed for MS/MS studies by subjecting methanolic solutions of mixtures of a metal salt [M(L(3))X(2)] (where M = Cu(II) or Pt(II); L(3) = dien or tpy; X = Cl or NO(3)) and N to ESI. The only exceptions were thymine and its derivatives, which failed to form sufficient abundances of [M(L(3))(N)](2+) ions when: (a) M = Pt(II) and L(3) = dien or tpy; (b) M = Cu(II) and L(3) = dien. In some instances higher oligomeric complexes were formed; e.g., [Pt(tpy)(dG)(n)](2+) (n = 1-13). Each of the ternary complexes [M(L(3))(N)](2+) was mass-selected and then subjected to collision-induced dissociation (CID) in a quadrupole ion trap. The types of fragmentation reactions observed for these complexes depend on the nature of all three components (metal, auxiliary ligand and nucleic acid constituent) and can be classified into: (i) a redox reaction which results in the formation of the radical cation of the nucleic acid constituent, N(+.); (ii) loss of the nucleic acid constituent in its protonated form; and (iii) fragmentation of the nucleic acid constituent. Only the copper complexes yielded radical cations of the nucleic acid constituent, with [Cu(tpy)(N)](2+) being the preferred complex due to suppression, in this case, of the loss of the nucleobase in its protonated form. The yields of the radical cations of the nucleobases from the copper complexes follow the order of their ionization potentials (IPs): G (lowest IP) > A > C > T (highest IP). Sufficient yields of the radical cations of each of the nucleobases allowed their CID reactions (in MS(3) experiments) to be compared to their even-electron counterparts.     

Density functional theory study of 1:1 glycine–water complexes in the gas phase and in solution

We present a systematic study of 1:1 glycine-water complexes involving all possible glycine conformers. The complex geometries are fully optimized for the first time both in the gas phase and in solution using three DFT methods (B3LYP, PBE1PBE, X3LYP) and the MP2 method. We calculate the G3 energies and use them as the reference data to gauge hydrogen bond strength in the gas phase. The solvent effects are treated via the integral equation formalism-polarizable continuum model (IEF-PCM). Altogether, we loca...     

Experimental validation of the α-effect in the gas phase

The α-effect-enhanced nucleophilicity of an anion with a lone pair of electrons adjacent to the attacking atom-has been well documented in solution; however, there is continuing disagreement about whether this effect is a purely solvent-induced phenomenon or an intrinsic property of the α-nucleophiles. To resolve these discrepancies, we explore the α-effect in the bimolecular nucleophilic substitution reaction in the gas phase. Our results show enhanced nucleophilicity for HOO(-) relative to "normal" alkoxides in three separate reaction series (methyl fluoride, anisole, and 4-fluoroanisole), validating an intrinsic origin of the α-effect. Caution must be employed when making comparisons of the α-effect between the condensed and gas phases due to significant shifts in anion basicity between these media. Variations in electron affinities and homolytic bond strengths between the normal and α-anions indicate that HOO(-) has distinctive thermochemical properties.     

UV photolysis of α-cyclohexanedione in the gas phase

Ultraviolet absorption spectrum of α-cyclohexanedione (α-CHD) vapor in the wavelength range of 220-320 nm has been recorded in a 1 m long path gas cell at room temperature. With the aid of theoretical calculation, the band has been assigned to the S(2) ← S(0) transition of largely ππ* type. The absorption cross section at the band maximum (～258 nm) is nearly 3 orders of magnitude larger compared to that for the S(2) ← S(0) transition of a linear α-diketo prototype, 2,3-pentanedione. The photolysis was performed by exciting the sample vapor near this band maximum, using the 253.7 nm line of a mercury vapor lamp, and the products were analyzed by mass spectrometry as well as by infrared spectroscopy. The identified products are cyclopentanone, carbon monoxide, ketene, ethylene, and 4-pentenal. Geometry optimization at the CIS/6-311++G** level predicts that the carbonyl group is pyramidally distorted in the excited S(1) and S(2) states, but the α-CHD ring does not show dissociative character. Potential energy curves with respect to a ring rupture coordinate (C-C bond between two carbonyl groups) for S(0), S(1), S(2), T(1), T(2), and T(3) states have been generated by partially optimizing the ground state geometry at DFT/B3LYP/6-311++G** level and calculating the vertical transition energies to the excited states by TDDFT method. Our analysis reveals that the reactions can take place at higher vibrational levels of S(0) as well as T(1) states.     

Chiral recognition in gas-phase cyclodextrin: Amino acid complexes—Is the three point interaction still valid in the gas phase?

The validity of the "three-point interaction" model is examined in the guest exchange reaction involving complexes of cyclodextrins and amino acids. The amino acid guest is exchanged in the gas phase in the presence of a gaseous alkyl amine. The net reaction is proton transfer between the protonated amino acid and the alkyl amine. The amino acid is lost as a neutral species. This reaction is sensitive to the chirality of the amino acid. Several amino acids are examined as well as the respective methyl esters to determine the role of the three interacting groups (ammonium, carboxylic acid, and side chain) in enantioselectivity. We find that the three-point interaction model is indeed valid in the gas phase. Enantioselectivity is optimal when two points of attraction and one repulsion is present in the gas-phase complex. The results are supported by molecular modeling calculations. A mechanism for the exchange is proposed.     

Mass spectrometric studies of non-covalent compounds: why supramolecular chemistry in the gas phase?

Supramolecular chemistry has progressed quite a long way in recent decades. The examination of non-covalent bonds became the focus of research once the paradigm that the observed properties of a molecule are due to the molecule itself was revised, and researchers became aware of the often quite significant influence of the environment. Mass spectrometry and gas-phase chemistry are ideally suited to study the intrinsic properties of a molecule or a complex without interfering effects from the environment, such as solvation and the effects of counterions present in solution. A comparison of data from the gas phase, i.e. the intrinsic properties, with results from condensed phase, i.e. the properties influenced by the surroundings of the molecule, can consequently contribute significantly to the understanding of non-covalent bonds. This review provides insight into the often-underestimated power of mass spectrometry for the investigation of supramolecules. Through example studies, several aspects are discussed, including determination of structure in solution and the gas phase, ion mobility studies to reveal the formation of zwitterionic structures, stereochemical issues, analysis of reactivity of supramolecular compounds in the condensed and in the gas phase, and the determination of thermochemical data.     

Site of protonation of nicotine and nornicotine in the gas phase: pyridine or pyrrolidine nitrogen?

The gas-phase basicities (GBs) of nornicotine, nicotine, and model pyrrolidines have been measured by FT-ICR. These experimental GBs are compared with those calculated (for the two sites of protonation in the case of nicotine and nornicotine) at the B3LYP/6-311+G(3df,2p)//B3LYP/6-31G(d,p) level, or those estimated from substituent effects on the GBs of 2-substituted pyrrolidines, 2-substituted N-methylpyrrolidines, and 3-substituted pyridines. It is found that, in contrast to the Nsp(3) protonation in water, in the gas phase nornicotine is protonated on the pyridine nitrogen, because the effects of an intramolecular CH.Nsp(3) hydrogen bond and of the polarizability of the 3-(pyrrolidin-2-yl) substituent add up on the Nsp(2) basicity, while the polarizability effect of the 2-(3-pyridyl) substituent on the Nsp(3) basicity is canceled by its field/inductive electron-withdrawing effect. The same structural effects operate on the Nsp(3) and Nsp(2) basicities of nicotine, but here, the polarizability effect of the methyl group puts the pyrrolidine nitrogen basicity very close to that of pyridine. Consequently, protonated nicotine is a mixture of the Nsp(3) and Nsp(2) protonated forms.     

μSr studies of free radicals in the gas phase

Muonium (Mu=₊+e^-) is the bound state of a positive muon and an electron. Since the positive muon has a mass about 1/9 of the proton, Mu can be regarded as an ultra light isotope of hydrogen with unusually large mass ratios (MuHDT=1/9123). The muon spin rotation technique (SR) relies on the facts that (1) the muon produced in pion decay, ^{+ +} + , is 100% spin polarized and (2) the positron from muon decay is emitted preferentially along the instantaneous muon spin direction at the time of the muon decay.In transverse field SR (TF-SR), the precession of the muon spin in muonium substituted radicals is directly observed by detecting decay positrons time differentially. From observed radical frequencies, the hyperfine coupling constants (A ) of C₂H₄Mu, C₂D₄Mu,¹³C₂H₄Mu, C₂F₄Mu, and C₂H₃FMu are determined. In the longitudinal field avoided level crossing (LF-ALC) technique, one observes the resonant loss of the muon spin polarization caused by the crossing of hyperfine levels at particular magnetic fields. The LF-ALC method together with the information onA obtained from TF-SR allows one to determine the magnitude and sign of the nuclear hyperfine constants at - and -positions. Results are compared with hydrogen substituted ethyl-radicals and isotope effects are discussed.     

Are the radical centers in peptide radical cations mobile? The generation, tautomerism, and dissociation of isomeric alpha-carbon-centered triglycine radical cations in the gas phase

The mobility of the radical center in three isomeric triglycine radical cations[G(*)GG](+), [GG(*)G](+), and [GGG(*)](+) has been investigated theoretically via density functional theory (DFT) and experimentally via tandem mass spectrometry. These radical cations were generated by collision-induced dissociations (CIDs) of Cu(II)-containing ternary complexes that contain the tripeptides YGG, GYG, and GGY, respectively (G and Y are the glycine and tyrosine residues, respectively). Dissociative electron transfer within the complexes led to observation of [Y(*)GG](+), [GY(*)G](+), and [GGY(*)](+); CID resulted in cleavage of the tyrosine side chain as p-quinomethide, yielding [G(*)GG](+), [GG(*)G](+), and [GGG(*)](+), respectively. Interconversions between these isomeric triglycine radical cations have relatively high barriers (> or = 44.7 kcal/mol), in support of the thesis that isomerically pure [G(*)GG](+), [GG(*)G](+), and [GGG(*)](+) can be experimentally produced. This is to be contrasted with barriers < 17 kcal/mol that were encountered in the tautomerism of protonated triglycine [Rodriquez C. F. et al. J. Am. Chem. Soc. 2001, 123, 3006-3012]. The CID spectra of [G(*)GG](+), [GG(*)G](+), and [GGG(*)](+) were substantially different, providing experimental proof that initially these ions have distinct structures. DFT calculations showed that direct dissociations are competitive with interconversions followed by dissociation.     

Sequential methyl-fluorine exchange reactions of siloxide ions in the gas phase

Exchange Me for a fluorine: Trimethylsiloxide ions in the presence of NF(3) in the gas?phase undergo an unusual and sequential metathesis-type reaction wherein methyl groups are exchanged for fluorine. Theoretical calculations suggest that the reaction proceeds by a three-step internal-nucleophilic-displacement mechanism which features a pentacoordinated siliconate species as a transition state rather than as an intermediate.     

Where does the electron go? Electron distribution and reactivity of peptide cation radicals formed by electron transfer in the gas phase

We report the first detailed analysis at correlated levels of ab initio theory of experimentally studied peptide cations undergoing charge reduction by collisional electron transfer and competitive dissociations by loss of H atoms, ammonia, and N-C alpha bond cleavage in the gas phase. Doubly protonated Gly-Lys, (GK + 2H) (2+), and Lys-Lys, (KK + 2H) (2+), are each calculated to exist as two major conformers in the gas phase. Electron transfer to conformers with an extended lysine chain triggers highly exothermic dissociation by loss of ammonia from the Gly residue, which occurs from the ground ( X ) electronic state of the cation radical. Loss of Lys ammonium H atoms is predicted to occur from the first excited ( A ) state of the charge-reduced ions. The X and A states are nearly degenerate and show extensive delocalization of unpaired electron density over spatially remote groups. This delocalization indicates that the captured electron cannot be assigned to reduce a particular charged group in the peptide cation and that superposition of remote local Rydberg-like orbitals plays a critical role in affecting the cation-radical reactivity. Electron attachment to ion conformers with carboxyl-solvated Lys ammonium groups results in spontaneous isomerization by proton-coupled electron transfer to the carboxyl group forming dihydroxymethyl radical intermediates. This directs the peptide dissociation toward NC alpha bond cleavage that can proceed by multiple mechanisms involving reversible proton migrations in the reactants or ion-molecule complexes. The experimentally observed formations of Lys z (+*) fragments from (GK + 2H) (2+) and Lys c (+) fragments from (KK + 2H) (2+) correlate with the product thermochemistry but are independent of charge distribution in the transition states for NC alpha bond cleavage. This emphasizes the role of ion-molecule complexes in affecting the charge distribution between backbone fragments produced upon electron transfer or capture.     

Multiply-charged negative clusters of adenosine-5′-monophosphate in the gas phase

Multiply-charged noncovalent cluster anions of adenosine-5'-monophosphate (AMP) were formed by electrospray ionization (ESI). Ions in higher charge states were observed when the ions were accumulated in an ion trap with helium buffer gas before detection. We determined the smallest size (n(a)) or appearance size as a function of charge state (q), i.e., n(a) = 4 for q = 2, n(a) = 8 for q = 3, and n(a) = 13 for q = 4. The relation between n(a) and q can be described by a charged droplet model. When the size is larger than n(a) for a given q, the fragmentation pathway of an anion cluster is dominated by loss of neutral fragments. In contrast, when the size approaches the appearance size, only charged fragments are formed.     

Dissociation behavior of “dry water” C_3H_8 hydrate below ice point:Effect of phase state of unreacted residual water on a mechanism of gas hydrates dissociation

The results on a dissociation behavior of propane hydrates prepared from "dry water" and contained unreacted residual water in the form of ice inclusions or supercooled liquid water(water solution of gas) were presented for temperatures below 273 K.The temperature ramping or pressure release method was used for the dissociation of propane hydrate samples.It was found that the mechanism of gas hydrate dissociation at temperatures below 273 K depended on the phase state of unreacted water in the hydrate sample.Gas hydrates dissociated into ice and gas if the ice inclusions were in the hydrate sample.The samples of propane hydrates with inclusions of unreacted supercooled water only(without ice inclusions) dissociated into supercooled water and gas below the pressure of the supercooled water-hydrate-gas metastable equilibrium.     

Structural connectivity of 18-Crown-6/H+/L-tryptophan noncovalent complexes in gas phase and in solution: Delineating host–guest–solvent interactions in solution from gas phase structures

We investigate the structural correlation of noncovalent crown ether/H⁺/L-tryptophan (CR/TrpH⁺) host–guest complexes in the solution phase with those in the gas phase generated through electrospray ionization/mass spectrometry (ESI/MS) techniques. We perform quantum chemical calculations to determine their structures, relative Gibbs free energies, and infrared spectra. We compare the calculated infrared (IR) spectra with the IR multiphoton dissociation (IRMPD) spectra observed for the 18-Crown-6/TrpH⁺ complex by Polfer and co-workers [J. Phys. Chem. A 2013, 117, 1181–1188] for assigning the IR bands. We observe that the carboxyl group remains “naked,” lacking hydrogen bonding with the CR unit in the gas phase, and that this most stable conformer originates from the corresponding lowest Gibbs free energy structure in solution. Based on these findings, we propose that gas phase host–guest complexes directly correlate with those in solution, reinforcing the possibility of obtaining invaluable information about host–guest–solvent interactions in solution from the structure of the host–guest pair in the gas phase.     

Molecular recognition of naphthalenediamine by polyamine modified β-cyclodextrin:yttrium metal complexes

The 6-OH group of β-cyclodextrin was modified by diethylene triamine and triethylene tetramine, respectively, mono[6-diethylenetriamino]-6-deoxy-β-cyclodextrin (DTCD) and mono[6-triethylenetetraamino]-6-deoxy-β-cyclodextrin (TTCD) were synthesized, which included 1,5-naphthalenediamine and 1,8-naphthalenediamine, respectively, in the presence of rare earth metal yttrium chloride. As a result, four ternary inclusion complexes (host–guest-metal) formed, which were characterized via ¹HNMR spectroscopy. The chemical shift variations of host and guest molecules were studied. The stoichiometric proportion of host and guest molecules is 2:1 for all the complexes. Signal degeneration still exists for the guest molecules after the inclusion process, which verifies the symmetrical conformation of guest molecules inside the cavities of two host molecules. All the four complexes exhibit “sandwich”-typed structure.     

The kinetics of chemical reactions in the products of dissociation of the CO2−H2 gas mixture in microwave discharge

The yields of hydrogen atoms, oxygen atoms and molecules, and hydroxyl radicals after a microwave discharge in the mixture of CO₂ and H₂ were measured by ESR spectroscopy in a flow-type system. A mathematical model of the kinetics of chemical reactions downstream the microwave discharge was devised. The concentrations of particles that cannot be detected under our experimental conditions were estimated. Experimental values of the concentration sensitivity for an RE-1306 ESR spectrometer are as follows: for a pressure of 1 Torr and optimized detection conditions, H^., 10¹¹ cm⁻³; O^., 3·10¹⁰ cm⁻³; OH^., 10¹⁰ cm⁻³; O₂, 3·10¹³ cm⁻³ (Ref. 7); for a pressure of 2 Torr, H^., 5·10¹² cm⁻³; O^., 2·10¹² cm⁻³; OH^., 2.5·10¹¹ cm⁻³; O₂, 7.5·10¹⁴ cm^{−3 8} Translated fromIzvestiya Akademii Nauk, Seriya Khimicheskaya, No. 4, pp. 665–669, April, 2000.