Structural characterization by infrared multiple photon dissociation spectroscopy of protonated gas-phase ions obtained by electrospray ionization of cysteine and dopamine

Structural characterization of protonated gas-phase ions of cysteine and dopamine by infrared multiple photon dissociation (IRMPD) spectroscopy using a free electron laser in combination with theory based on DFT calculations reveals the presence of two types of protonated dimer ions in the electrospray mass spectra of the metabolites. In addition to the proton-bound dimer of each species, the covalently bound dimer of cysteine (bound by a disulfide linkage) has been identified. The dimer ion of m/z 241 observed in the electrospray mass spectra of cysteine has been identified as protonated cystine by comparison of the experimental IRMPD spectrum to the IR absorption spectra predicted by theory and the IRMPD spectrum of a standard. Formation of the protonated covalently bound disulfide-linked dimer ions (i.e. protonated cystine) from electrospray of cysteine solution is consistent with the redox properties of cysteine. Both the IRMPD spectra and theory indicate that in protonated cystine the covalent disulfide bond is retained and the proton is involved in intramolecular hydrogen bonding between the amine groups of the two cysteine amino acid units. For cysteine, the protonated covalently bound dimer (m/z 241) dominated the mass spectrum relative to the proton-bound dimer (m/z 243), but this was not the case for dopamine, where the protonated monomer and the proton-bound dimer were both observed as major ions. An extended conformation of the ethylammonium side chain of gas-phase protonated dopamine monomer was verified from the correlation between the predicted IR absorption spectra and the experimental IRMPD spectrum. Dopamine has the same extended ethylamine side chain conformation in the proton-bound dopamine dimer identified in the mass spectra of electrosprayed dopamine. The structure of the proton-bound dimer of dopamine is confirmed by calculations and the presence of an IR band due to the shared proton. The presence of the shared proton in the protonated cystine ion can be inferred from the IRMPD spectrum.

Competing gas-phase fragmentation pathways of asparagine-, glutamine-, and lysine-containing protonated dipeptides

The fragmentation chemistry of protonated H–Val–Asn–OH, H–Val–Gln–OH and H–Val–Lys–OH is investigated in this work by means of modeling and density functional theory calculations. Former experimental studies indicate that the ratio of a ₁ and y ₁ ions cannot be explained by considering the proton affinities of the corresponding dissociating species on the a ₁–y ₁ pathway, while the fragmentation of other dipeptides can be understood in this way. We demonstrate that considering the correct PA value for H–Asn–OH eliminates the deviation observed for H–Val–Asn–OH. The larger than expected a ₁/y ₁ ratio of H–Val–Gln–OH is explained by considering the dissociation kinetics of the proton-bound dimers formed on the a ₁–y ₁ pathway and competition of the deamidation and a ₁–y ₁ channels. For H–Val–Lys–OH, it is proposed that a ₁ ions are indeed formed from one of the primary products, protonated H–Val–Cap–OH.     

Proton-bound cluster ions in ion mobility spectrometry

Gaseous oxygen and nitrogen bases, both singly and as binary mixtures, have been introduced into ion mobility spectrometers to study the appearance of protonated molecules, and proton-bound dimers and trimers. At ambient temperature it was possible to simultaneously observe, following the introduction of molecule A, comparable intensities of peaks ascribable to the reactant ion (H₂O)_nH⁺, the protonated molecule AH⁺ and AH⁺ · H₂O, and the symmetrical proton bound dimer A₂H⁺. Mass spectral identification confirmed the identifications and also showed that the majority of the protonated molecules were hydrated and that the proton-bound dimers were hydrated to a much lesser extent. No significant peaks ascribable to proton-bound trimers were obtained no matter how high the sample concentration. Binary mixtures containing molecules A and B, in some cases gave not only the peaks unique to the individual compounds but also peaks due to asymmetrical proton bound dimers AHB⁺. Such ions were always present in the spectra of mixtures of oxygen bases but were not observed for several mixtures of oxygen and nitrogen bases. The dimers, which were not observable, notable for their low hydrogen bond strengths, must have decomposed in their passage from the ion source to the detector, i.e. in a time less than ∼5 ms. When the temperature was lowered to −20 °C, trimers, both homogeneous and mixed, were observed with mixtures of alcohols. The importance of hydrogen bond energy, and hence operating temperature, in determining the degree of solvation of the ions that will be observed in an ion mobility spectrometer is stressed. The possibility is discussed that a displacement reaction involving ambient water plays a role in the dissociation.     

Dissociation of proton-bound complexes and proton affinity of benzamides

Proton-bound heterodimers of substituted benzamides 1–15 and N,N-dimethyl benzamides 16–30, respectively, with a series of reference bases were generated under chemical ionization conditions. Their dissociation into the protonated amide AH⁺ and protonated reference base BH⁺ was studied by metastable ion techniques and by collision-induced dissociation (CID) to examine substituent effects on the proton affinity (PA) of the benzarnides and to elucidate some aspects of the dissociation dynamics of proton-bound clusters. The PAs of the substituted benzarnides were determined by bracketing the amide by a pair of reference bases to give rise to more and less abundant signals of the protonated base in the mass-analyzed ion kinetic energy (MIKE) spectra of the proton-bound heterodimers. The substituent effects observed agree with O-protonation in both the primary and the tertiary benzamides. However, the susceptibility of the benzamide to polar substituent effects is remarkably small, which indicates a “resonance saturation”), of the amide group. The relative abundances of AH⁺ and BH⁺ in the MIKE and collisional activation (CA) mass spectra depend strongly on the pressure of the collision gas during CID, and in certain cases a reversal of the relative abundances with increasing pressure that favors the formation of BH+ from a less basic reference base is observed. Although this effect underlines the limited possibilities of the “kinetic method” for PA determination by CID of proton-bound heterodimers, it uncovers important kinetic effects during the dissociation of proton-bound heterodimers and of proton transfer reactions in the gas phase.. In the case of the protonated amide clusters, the observed intensity effects in the CA mass spectra are explained by a double-well potential energy surface caused by solvation of the protonated base by the polar amide in the protonated heterodimer.     

Negative ion mode electrospray ionization mass spectrometry study of ammonium-counter ion clusters

Electrospray ionization mass spectrometry (ESI-MS) was used to examine clusters of protonated amine salt solutions with chloride counter ions in the negative ion mode. These ions have the general formula [(RNH₃)_xCl_x+1]⁻. Primary amines generate a wide cluster distribution with clusters up to 14 mer for methylamine hydrochloride clusters. Secondary and quaternary amines only generate the monomer ion under identical conditions. Collision induced dissociation (CID) of the cluster ions generates cluster ions of lower m/z with the next lower cluster being the most abundant. The product ions from MeNH₃Cl₂⁻, Me₂NH₂Cl₂⁻ and (MeNH₃)₂Cl₃⁻ have low threshold appearance energies of 1. 24 to 2. 22 eV center-of-mass frame. Secondary amine monomer ions have lower threshold CID energies than primary amine monomer ions. The amine threshold CID energy decreases as the carbon chain length increases. As an electrospray solvent, isopropyl alcohol (IPA) promotes the formation of counter ions and clustering.     

Reactive collisions in quadrupole cells. 3: H/D exchange reactions of protonated aromatic amines with ND3

The H/D exchange reactions of a variety of protonated aromatic amines with ND₃ m the collision cell of a hybrid BEqQ tandem mass spectrometer have been studied. The MH⁺ ions were prepared by CH₄, t-C₄H₁₀, and NH₃ chemical ionization (CI) and, for some amines, by fast-atom bombardment (FAB). Evidence is presented that the kinetic energy of the incident ion as well as its internal energy must be dissipated by nonexchanging collisions before exchange occurs, once deactivated the MH⁺ ions exchange efficiently, which leads, in most cases, to [MHJ⁺ d _x ions m which all active hydrogens have been exchanged. The MH⁺ ion of 1,3-phenylenediamine formed by gas-phase CI exchanges only very slightly with ND₃ whereas a significant fraction of the MH⁺ ions formed by FAB exchange efficiently. This difference is rationalized in terms of dominant formation of the ring-protonated species in gas-phase CI reactions and significant formation of the N-protonated species by FAB with only the N-protonated species exchanging efficiently. Similar, although less pronounced, differences are observed for the MH⁺ ion of m-anisidine. In a number of cases apparent exchange of aromatic hydrogens also is observed. Evidence is presented for the interchange of ring and amine hydrogens in protonated aromatic amines and it is suggested that only the N-protonated species undergoes significant exchange with ND₃.     

Gas phase infrared multiple-photon dissociation spectra of methanol, ethanol and propanol proton-bound dimers, protonated propanol and the propanol/water proton-bound dimer

The infrared multiphoton dissociation (IRMPD) spectra of three homogenous proton-bound dimers are presented and the major features are assigned based on comparisons with the neutral alcohol and with density functional theory calculations. As well, the IRMPD spectra of protonated propanol and the propanol/water proton-bound dimer (or singly hydrated protonated propanol) are presented and analysed. Two primary IRMPD photoproducts were observed for each of the alcohol proton bound dimers and were found to vary with the frequency of the radiation impinging upon the ions. For example, when the proton-bound dimer absorbs weakly a larger amount of S(N)2 product, protonated ether and water, are observed. When the proton-bound dimer absorbs more strongly, an increase in the simple dissociation product, protonated alcohol and neutral alcohol, is observed. With the aid of RRKM calculations this frequency dependence of the branching ratio is explained by assuming that photon absorption is faster than dissociation for these species and that only a few photons extra are necessary to make the higher-energy dissociation channel (simple cleavage) competitive with the lower energy (S(N)2) reaction channel.     

Electrospray Ionization Tandem Mass Spectrometry of Ammonium Cationized Polyethers

Quaternary ammonium salts (Quats) and amines are known to facilitate the MS analysis of high molar mass polyethers by forming low charge state adduct ions. The formation, stability, and behavior upon collision-induced dissociation (CID) of adduct ions of polyethers with a variety of Quats and amines were studied by electrospray ionization quadrupole time-of-flight, quadrupole ion trap, and linear ion trap tandem mass spectrometry (MS/MS). The linear ion trap instrument was part of an Orbitrap hybrid mass spectrometer that allowed accurate mass MS/MS measurements. The Quats and amines studied were of different degree of substitution, structure, and size. The stability of the adduct ions was related to the structure of the cation, especially the amine’s degree of substitution. CID of singly/doubly charged primary and tertiary ammonium cationized polymers resulted in the neutral loss of the amine followed by fragmentation of the protonated product ions. The latter reveals information about the monomer unit, polymer sequence, and endgroup structure. In addition, the detection of product ions retaining the ammonium ion was observed. The predominant process in the CID of singly charged quaternary ammonium cationized polymers was cation detachment, whereas their doubly charged adduct ions provided the same information as the primary and tertiary ammonium cationized adduct ions. This study shows the potential of specific amines as tools for the structural elucidation of high molar mass polyethers.     

Pt-Sn/γ-Al2O3-catalyzed highly efficient direct synthesis of secondary and tertiary amines and imines

Versatile syntheses of secondary and tertiary amines by highly efficient direct N‐alkylation of primary and secondary amines with alcohols or by deaminative self‐coupling of primary amines have been successfully realized by means of a heterogeneous bimetallic Pt–Sn/γ‐Al₂O₃ catalyst (0.5 wt % Pt, Pt/Sn molar ratio=1:3) through a borrowing‐hydrogen strategy. In the presence of oxygen, imines were also efficiently prepared from the tandem reactions of amines with alcohols or between two primary amines. The proposed mechanism reveals that an alcohol or amine substrate is initially dehydrogenated to an aldehyde/ketone or NH‐imine with concomitant formation of a [PtSn] hydride. Condensation of the aldehyde/ketone species or deamination of the NH‐imine intermediate with another molecule of amine forms an N‐substituted imine which is then reduced to a new amine product by the in‐situ generated [PtSn] hydride under a nitrogen atmosphere or remains unchanged as the final product under an oxygen atmosphere. The Pt–Sn/γ‐Al₂O₃ catalyst can be easily recycled without Pt metal leaching and has exhibited very high catalytic activity toward a wide range of amine and alcohol substrates, which suggests potential for application in the direct production of secondary and tertiary amines and N‐substituted imines.     

Mass-analysed ion kinetic energy and collisionally induced dissociation mass spectra of clusters of acetylated xylo-oligosaecharides with protonated ammonia and methylannine

Per-O-acetylated methyl glycosides of D -xylan-type di- and trisaccharides were studied by mass-analysed ion kinetic energy (MIKE) and collisionally induced dissociation (CID) mass Spectrometry using protonated ammonia and methylamine, respectively, as reaction gases in chemical ionization (CI). The oligosaccharides form abundant cluster ions, [M + NH₄]⁺ or [M + CH₃NH₃]⁺, and the main fragmentation of these ions in the MIKE and CID spectra is the cleavage of interglycosidic linkages. Thus, CI (NH₃) or CI (CH₃NH₂) spectra in combination with the MIKE or CID spectra allow the molecular masses, the masses of monosaccharide units and the branching point in oligosaccharides to be established. In the case of disaccharides, it is possible to distinguish the (1 → 2) linkage from the other types of linkages.     

Chemical standards in ion mobility spectrometry

Positive ion mobility spectra for three compounds (2,4-dimethylpyridine (2,4-DMP, commonly called 2,4-lutidine), dimethyl methylphosphonate (DMMP) and 2,6-di-t-butyl pyridine (2,6-DtBP)) have been studied in air at ambient pressure over the temperature range 37-250 °C with (H₂O)_nH⁺ as the reactant ion. All three compounds yield a protonated molecule but only 2,4-dimethylpyridine and dimethyl methylphosphonate produced proton-bound dimers. The reduced mobilities (K₀) of protonated molecules for 2,4-dimethylpyridine and DMMP increase significantly with increasing temperature over the whole temperature range indicating changes in ion composition or interactions; however, K₀ for the protonated molecule of 2,6-di-t-butyl pyridine was almost invariant with temperature. The K₀ values for the proton-bound dimers of 2,4-dimethylpyridine and DMMP also showed little dependence on temperature, but could be obtained only over an experimentally smaller and lower temperature range and at elevated concentrations. Chemical standards will be helpful as mobility spectra from laboratories worldwide are compared with increased precision and 2,6-di-t-butyl pyridine may be a suitable compound for use in standardizing reduced mobilities. The effect of thermal expansion of the drift tube length on the calculation of reduced mobilities is emphasized.     

Hydrogen/deuterium exchange of monomers and dimers of leucine enkephalin

Leucine enkephalin has been studied using the combination of electrospray ionization (ESI) with a fast flow technique. ESI of leucine enkephalin produces an isotopic multiplet of peaks beginning at m/z 556. Hydrogen/deuterium exchange of this multiplet with ND₃ has revealed the contribution of two ion populations to this multiplet: The singly protonated monomer and the doubly protonated dimer. These populations were separated through their different kinetic behavior. Whereas the dimers undergo slow exchange the monomers undergo pronounced complexation with ND₃ and display a fast exchange of four labile hydrogens. The results indicate a more compact globular structure for the diprotonated dimer.     

Using Gas-Phase Guest–Host Chemistry to Probe the Structures of b Ions of Peptides

Middle-sized b _n (n????5) fragments of protonated peptides undergo selective complex formation with ammonia under experimental conditions typically used to probe hydrogen?Cdeuterium exchange in Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR-MS). Other usual peptide fragments like y, a, a*, etc., and small b _n (n????4) fragments do not form stable ammonia adducts. We propose that complex formation of b _n ions with ammonia is characteristic to macrocyclic isomers of these fragments. Experiments on a protonated cyclic peptide and N-terminal acetylated peptides fully support this hypothesis; the protonated cyclic peptide does form ammonia adducts while linear b _n ions of acetylated peptides do not undergo complexation. Density functional theory (DFT) calculations on the proton-bound dimers of all-Ala b ₄ , b ₅ , and b ₇ ions and ammonia indicate that the ionizing proton initially located on the peptide fragment transfers to ammonia upon adduct formation. The ammonium ion is then solvated by N⁺-H??O H-bonds; this stabilization is much stronger for macrocyclic b _n isomers due to the stable cage-like structure formed and entropy effects. The present study demonstrates that gas-phase guest?Chost chemistry can be used to selectively probe structural features (i.e., macrocyclic or linear) of fragments of protonated peptides. Stable ammonia adducts of b ₉ , b ₉ -A, and b ₉ -2A of A₈YA, and b ₁₃ of A₂₀YVFL are observed indicating that even these large b-type ions form macrocyclic structures.     

Dehydration versus deamination of N-terminal glutamine in collision-induced dissociation of protonated peptides

Some of the most prominent "neutral losses" in peptide ion fragmentation are the loss of ammonia and water from N-terminal glutamine. These processes are studied by electrospray ionization mass spectrometry in singly- and doubly-protonated peptide ions undergoing collision-induced dissociation in a triple quadrupole and in an ion trap instrument. For this study, four sets of peptides were synthesized: (1) QLLLPLLLK and similar peptides with K replaced by R, H, or L, and Q replaced by a number of amino acids, (2) QLnK (n = 0, 1, 3, 5, 7, 9, 11), (3) QLnR (n = 0, 1, 3, 5, 7, 9), and (4) QLn (n = 1, 2, 3, 4, 8). The results for QLLLPLLLK and QLLLPLLLR show that the singly protonated ions undergo loss of ammonia and to a smaller extent loss of water, whereas the doubly protonated ions undergo predominant loss of water. The fast fragmentation next to P (forming the y5 ion) occurs to a larger extent than the neutral losses from the singly protonated ions but much less than the water loss from the doubly protonated ions. The results from these and other peptides show that, in general, when N-terminal glutamine peptides have no "mobile protons", that is, the number of charges on the peptide is no greater than the number of basic amino acids (K, R, H), deamination is the predominant neutral loss fragmentation, but when mobile protons are present the predominant process is the loss of water. Both of these processes are faster than backbone fragmentation at the proline. These results are rationalized on the basis of resonance stabilization of the two types of five-membered ring products that would be formed in the neutral loss processes; the singly protonated ion yields the more stable neutral pyrrolidinone ring whereas the doubly protonated ion yields the protonated aminopyrroline ring (see Schemes). The generality of these trends is confirmed by analyzing an MS/MS spectra library of peptides derived from tryptic digests of yeast. In the absence of mobile protons, glutamine deamination is the most rapid neutral loss process. For peptides with mobile protons, dehydration from glutamine is far more rapid than from any other amino acid. Most strikingly, end terminal glutamine is by far the most labile source of neutral loss in excess-proton peptides, but not highly exceptional when mobile protons are not available. In addition, rates of deamination are faster in lysine versus arginine C-terminus peptides and 20 times faster in positively charged than negatively charged peptides, demonstrating that these formal neutral loss reactions are not "neutral reactions" but depend on charge state and stability.     

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.     

Selective ion-molecule reactions of lactams with dimethyl ether ions

The ion-molecule reactions of dimethyl ether ions CH₃OCH₃ ⁺ and (CH₃OCH₃)H⁺, and four- to seven-membered ring lactams with methyl substituents in various positions were characterized by using a quadrupole ion trap mass spectrometer and a triple-quadrupole mass spectrometer. In both instruments, the lactams were protonated by dimethyl ether ions and formed various combinations of [M + 13] ⁺, [M + 15] ⁺, and [M + 45] ⁺ adduct ions, as well as unusual [M + 3] ⁺ and [M + 16] ⁺ adduct ions. An additional [M + 47] ⁺ adduct ion was formed in the conventional chemical ionization source of the triple-quadrupole mass spectrometer. The product ions were isolated and collisionally activated in the quadrupole ion trap to understand formation pathways, structures, and characteristic dissociation pathways. Sequential activation experiments were performed to elucidate fragment ion structures and stepwise dissociation sequences. Protonated lactams dissociate by loss of water, ammonia, or methylamine; ammonia and carbon monoxide; and water and ammonia or methylamine. The [M + 16] ⁺ products, which are identified as protonated lactone structures, are only formed by those lactams that do not have an N-methyl substituent. The ion-molecule reactions of dimethyl ether ions with lactams were compared with those of analogous amides and lactones.     

Dehydrogenation of tertiary amines in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry

In the matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI TOF MS) analysis of various compounds synthesized in our laboratory, strong [M - H]+ ion peaks were often observed for the molecules with tertiary amino groups. In this work, the MALDI TOF MS behavior of two groups of compounds that incorporate tertiary amino moieties was investigated. One group is bisurea dimethylanilines (BUDMAs) prepared for the study of molecular recognition in thermoplastic elastomers, and the other group is the poly(propylene imine) diaminobutane dendrimers. The results clearly demonstrate the appearance of the [M - H]+ ions. In order to understand the possible mechanisms for the generation of these ions, a series of model compounds, ranging from primary to tertiary amines, were investigated. Unlike the tertiary amines, no [M - H]+ ion peaks were recorded for the primary amines, and only barely detectable ones, if any, for some secondary amines. It appears that the tertiary amino groups play an important role in the formation of these ions. In addition to MALDI TOF MS analysis, these samples were also applied to electrospray ionization (ESI) MS where no [M - H]+ ions were observed. The results indicate that the generation of [M - H]+ ion is due to the unique MALDI conditions and is likely to be formed via dehydrogenation of a protonated tertiary amine resulting in an N=C double bond. The absence of [M - H]+ ion peaks for the primary and secondary amines is probably because upon their formation these ions could easily transfer one proton to the corresponding amines in the MALDI gas-phase plume, yielding neutral imines that cannot be detected by MS.     

Does the reagent gas influence collisional activation when performing in situ chemical ionization with an ion trap mass spectrometer?

Users of ion trap mass spectrometers frequently develop methods that associate chemical ionization with tandem mass spectrometry detection. With apparatus using internal ionization, the chemical reagent is present in the trap during the collision induced dissociation (CID) step and one may wonder if the reagent influences the fragmentation ratios in MS/MS. We report a comparison of the fragmentation ratios of protonated molecules when using the most common reagents (methane, ammonia, methanol, acetonitrile, isobutane) for performing in situ chemical ionization. Four molecules were chosen in the medical field to serve as models: alprazolam, diazepam, flunitrazepam and acetaminophen. In the non-resonant CID mode, the influence of the reagent mass is clearly seen in spite of its low partial pressure in the ion trap; the reagent acts as a "heavy target": the degree of fragmentation increases with the molecular weight of the reagent. In the resonant CID mode, there is no evident correlation between the fragmentation ratio of MH(+) ions and the nature of the CI reagent; a slight shift of the secular frequency of the precursor ion, which tends to reduce the CID efficiency, could compensate for the "heavy target" effect underscored in the non-resonant mode.     

Decay Mechanisms of Protonated 4-Quinolone Antibiotics After Electrospray Ionization and Ion Activation

This study presents a detailed experimental investigation of charge isomers of protonated 4-quinolone antibiotics molecules formed during electrospray ionization (ESI) with proposed dissociation mechanisms after collisional activation. Piperazinyl quinolones have been previously shown to exhibit erratic behavior during tandem MS analyses of biological samples, which originated from varying ratios of two isomeric variants formed during ESI. Here, a combination of ESI-collision-induced dissociation (CID), differential ion mobility spectrometry (DMS), high resolution MS, and density functional theory (DFT) was used to investigate the underlying mechanisms of isomer formation and their individual dissociation behaviors. The study focused on ciprofloxacin; major findings were confirmed using structurally related 4-quinolones. DFT calculations showed a reversal of basicity for piperazinyl quinolones between liquid and gas phase. We provide an experimental comparison and theoretical treatment of factors influencing the formation ratio of the charge isomers during ESI, including solvent pH, protic/aprotic nature of solvent, and structural effects such as pK _a and proton affinity. The actual dissociation mechanisms of the isomers of the protonated molecules were studied by separating the individual isomers via DMS-MS, which allowed type-specific CID spectra to be recorded. Both primary CID reactions of the two charge isomers originated from the same carboxyl group by charge-remote (CO₂ loss) and charge-mediated (H₂O loss) fragmentation of the piperazinyl quinolones, depending on whether the proton resides on the more basic keto or the piperazinyl group, followed by a number of secondary dissociation reactions. The proposed mechanisms were supported by calculated energies of precursors, transition states, and products for competing pathways. Graphical Abstract

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Non‐covalent dimers of the lysine containing protonated peptide ions in gaseous state: electrospray ionization mass spectrometric study

Study of the non‐covalent molecular complexes in gas phase by electrospray ionization mass spectrometry (ESI‐MS) represents a promising strategy to probe the intrinsic nature of these complexes. ESI‐MS investigation of a series of synthetic octapeptides containing six alanine and two lysine residues differing only by their positions showed the formation of non‐covalent dimers, which were preserved in the gas phase. Unlike the monomers, the dimers were found to show only singly protonated state. The decrease in the solvent polarity from water to alcohol showed enhanced propensity of formation of the dimer indicating that the electrostatic interaction plays a crucial role to stabilize the dimer. Selective functionalization studies showed that ε‐NH₂ of lysine and C‐terminal amide (? CONH₂) facilitate the dimerization through intermolecular hydrogen bonding network. Copyright © 2010 John Wiley & Sons, Ltd.