Evidence for linkage position determination in cobalt coordinated pentasaccharides using ion trap mass spectrometry

A methodology to determine the linkage position of oligosaccharides is presented. In order to illustrate this technique, several oligosaccharides and disaccharides were ionized by electrospray and analyzed in a Paul trap mass spectrometer. Multiple stage tandem mass spectrometry experiments were used to determine linkage and structural information for the following four cobalt coordinated and singly charged ([M+Co?H]⁺) pentasaccharides: Lacto-N-fucopentaose I, II, III, and V. In order to differentiate between linkage positions, multiple low energy collision induced experiments with mass selected C type ions have been carried out in an ion trap mass spectrometer. Because of the coordination with cobalt, which directs the dissociation pathways, these C type ions undergo specific fragmentation reactions upon low energy collision induced dissociation. These dissociation pathways are unambiguously dependent on their linkage position, thus allowing differentiation between 1→2, 1→3, 1→4, and 1→6 linkage positions throughout the oligomers. Studies on various linked disaccharides and N-acetyl-disaccharides, which are smaller constituents of the pentasaccharides, were used to verify and confirm the results obtained from the pentasaccharides.     

Kinetic studies in mass spectrometry—IV. The [M — Cl] reaction in substituted chlorobenzenes and the question of molecular ion isomerization.

The [M]⁺˙ → [M ? Cl]⁺ reaction in a series of m- and p-X substituted chlorobenzenes has been studied, utilizing a simple kinetic approach, comparison of metastable ion relative abundances, and by measurement of ionization and appearance potentials. All evidence obtained is consistent with rearrangement prior to cleavage in the molecular ions, in which substituent position becomes effectively randomized. These findings are related to known hydrogen randomization reactions occurring in either the molecular ion or [M ? Cl] ion of chlorobenzenes. Mechanisms involving carbon scrambling via such species as ionized benzvalenes or prismanes, or ring-opening to isomeric acyclic molecular ions in which hydrogen randomization might occur can be entertained, but mechanisms involving simple hydrogen shifts in the intact benzene ring appear less likely.     

Kinetic energy release and position of transition state during the intramolecular substitution of ionized 2-benzoyl pyridines

The loss of substituents X from molecular ions of ortho substituted 2-benzoyl pyridines has been investigated as a function of the dissociation energy of the C? X bond. Comparison of unimolecular and collisional induced decompositions of the resulting [M ? X]⁺ ions and reference ions arising from 3-hydroxypyrido[1,2-α]indole shows that cyclic fragment ions are formed in every case by an intramolecular substitution reaction with the exception of the parent compound (X = H), which gives rise to a mixture of [M ? H]⁺ ions with different structures. The heat of formation of the cyclic ion has been estimated experimentally and by calculation using thermochemical data, and from this value and the appearance energies, the activation energies of the reverse reactions have been evaluated for the different reaction systems. Measurement of the kinetic energy release during the substitution reactions shows that only part of the reverse activation energy is released as kinetic energy. The energy partitioning quotient varies from 0.37 to 0.08 depending on the dissociation energy of the C? X bond or the reaction enthalpy. A sudden change in the energy partitioning quotient is observed with increasing exothermicity of the reaction, paralleling the behaviour of similar reaction systems. These results are interpreted as a demonstration of the influence of the variation of transition state position on the energy partitioning quotient.     

Application of low energy CID in the determination of structures of [M – halogen]+ ions obtained from diethyl halosuccinates under electron impact

Low energy collision induced dissociation (CID) spectra indicate that m/z 173 ions formed by the loss of a halogen atom from diethyl chloro- and bromo-succinate under electron impact are mixtures of O-protonated diethyl maleate (>90%) and fumarate (<10 %). Hydrogen migration precedes the C-halogen bond cleavage in these cases. The low energy CID spectrum of the m/z 173 [M? I]⁺ ion obtained from diethyl iodosuccinate shows that only a small fraction of the [M? I]⁺ ions are the O-protonated species formed by hydrogen migration. The results of this study demonstrate the potential of low energy CID in the determination of structure (including configuration) of gas phase ions.     

Nitrogen incorporation in saturated aliphatic C6–C8 hydrocarbons and ethanol in low‐pressure nitrogen plasma generated by a hollow cathode discharge ion source

Ion/molecule reactions of saturated hydrocarbons (n‐hexane, cyclohexane, n‐heptane, n‐octane and isooctane) in 28‐Torr N₂ plasma generated by a hollow cathode discharge ion source were investigated using an Orbitrap mass spectrometer. It was found that the ions with [M+14]⁺ were observed as the major ions (M: sample molecule). The exact mass analysis revealed that the ions are nitrogenated molecules, [M+N]⁺ formed by the reactions of N₃⁺ with M. The reaction, N₃⁺ + M → [M+N]⁺ + N₂, were examined by the density functional theory calculations. It was found that N₃⁺ abstracts the H atom from hydrocarbon molecules leading to the formation of protonated imines in the forms of R′R″C?NH₂⁺ (i.e. C–H bond nitrogenation). This result is in accord with the fact that elimination of NH₃ is the major channel for MS/MS of [M+N]⁺. That is, nitrogen is incorporated in the C–H bonds of saturated hydrocarbons. No nitrogenation was observed for benzene and acetone, which was ascribed to the formation of stable charge‐transfer complexes benzene????N₃⁺ and acetone????N₃⁺ revealed by density functional theory calculations. Copyright © 2016 John Wiley & Sons, Ltd.     

Stereoelectronic control of the retro diels–alder reaction in 8-(N-pyrrolidyl)bicyclo[4.3.0]nona-3,7-diene isomers

The cis- and trans-annulated isomers of 8-(N-pyrrolidyl)bicyclo[4.3.0]nona-3,7-diene show different propensities for the retro Diels–Alder fragmentation following electron impact ionization. Molecular ions of the cis-annulated isomer decompose predominantly via the retro Diels–Alder reaction to give [C₉H₁₃N] ⁺· fragments of the appearance energy (AE)=8.45±0.05eV and critical energy E_c=133±8kJ mol^?1. The trans-annulated isomer gives abundant [M–H]⁺ (AE=9.34±0.08eV) and [M–C₆H₆]⁺· fragments, in addition to [C₉H₁₃N]⁺· ions of AE=8.98±0.05eV and E_c=181±8kJ mol^?1. The ionization energies (IE) were determined as IE_cis=7.07±0.05 eV and IE_trans=7.10±0.06eV. The stereochemical information is much less pronounced in unimolecular decompositions of long-lived (metastable) molecular ions which show very similar fragmentation patterns for both geometrical isomers. Nevertheless, the isomers exhibit different kinetic energy release values in the retro Diels–Alder fragmentation; T_0.5=3.8±0.3 and 4.8±0.2 kJ mol^?1 for the cis and trans isomer respectively. Topological molecular orbital calculations indicate that the retro Diels–Alder reaction prefers a two-step path, with a subsequent cleavage of the C(5)? C(6) and C(1)? C(2) bonds. The open-ring distonic intermediate represents the absolute minimum on the reaction energy hypersurface. The cleavage of the C(1)? C(2) bond is the rate-determining step in the decomposition of the cis isomer, with the critical energy calculated as 137 kJ mol^?1. The cleavage of the C(5)? C(6) bond becomes the rate-determining step in the trans-annulated isomer because of stereoelectronic control. The difference in the energy barriers to this cleavage in the isomers (ΔE=95k Jmol^?1) provides a quantitative estimate of the magnitude of the stereoelectronic effect in cation radicals.     

Characterization of N‐Boc/Fmoc/Z‐N′‐formyl‐gem‐diaminoalkyl derivatives using electrospray ionization multi‐stage mass spectrometry

N‐Boc/Fmoc/Z‐N′‐formyl‐gem‐diaminoalkyl derivatives, intermediates particularly useful in the synthesis of partially modified retro‐inverso peptides, have been characterized by both positive and negative ion electrospray ionization (ESI) ion‐trap multi‐stage mass spectrometry (MSⁿ). The MS² collision induced dissociation (CID) spectra of the sodium adduct of the formamides derived from the corresponding N‐Fmoc/Z‐amino acids, dipeptide and tripeptide acids show the [M + Na‐NH₂CHO]⁺ ion, arising from the loss of formamide, as the base peak. Differently, the MS² CID spectra of [M + Na]⁺ ion of all the N‐Boc derivatives yield the abundant [M + Na‐C₄H₈]⁺ and [M + Na‐Boc + H]⁺ ions because of the loss of isobutylene and CO₂ from the Boc protecting function. Useful information on the type of amino acids and their sequence in the N‐protected dipeptidyl and tripeptidyl‐N′‐formamides is provided by MS² and subsequent MSⁿ experiments on the respective precursor ions. The negative ion ESI mass spectra of these oligomers show, in addition to [M‐H]^?, [M + HCOO]^? and [M + Cl]^? ions, the presence of in‐source CID fragment ions deriving from the involvement of the N‐protecting group. Furthermore, MSⁿ spectra of [M + Cl]^? ion of N‐protected dipeptide and tripeptide derivatives show characteristic fragmentations that are useful for determining the nature of the C‐terminal gem‐diamino residue. The present paper represents an initial attempt to study the ESI‐MS behavior of these important intermediates and lays the groundwork for structural‐based studies on more complex partially modified retro‐inverso peptides. Copyright © 2013 John Wiley & Sons, Ltd.     

Relative stabilities of the methyltropylium and α-phenylethyl cations

Metastable decomposition of ethylbenzene molecular ions should yield [C₈H₉]⁺ ions of nearly threshold energies. Mass spectral data from collisionally activated dissociation of these ions show them to be mainly the methyltropylium (a) isomer, which is also that formed from 7-methylcycloheptatriene and isopropylbenzene. Combined with the threshold photoionization studies of McLoughlin, Morrison and Traeger, this establishes a as the most stable [C₈H₉]⁺ isomer. This is more stable than the α-phenylethyl isomer (b), which can be formed from α-bromoethylbenzene molecular ions; higher energy b ions appear to isomerize to a.     

Analysis of tetrabenzyl N-giucosidic,N-mannosidic and N-galactosidic Isomers using fast atom bombardment/mass-analysed ion kinetic energy spectrometry

A series of new synthetic tetrabenzyl N-glucosidic, N-mannosidic and N-galactosidic isomers were investigated by fast atom bombardment (FAB)/mass-analysed ion kinetic energy (MIKE) spectrometry. The [M + H]⁺ ions were obtained with high abundance in the FAB spectra when using 3-nitrobenzyl alcohol as the matrix. The FAB/MIKE spectra provide characteristic daughter ions fragmented from selected molecular parent ions, allowing these isomers to be differentiated. In addition, an interesting rearrangement was found from the MIKE spectra, indicating that the benzyl (Bzl) group on the sugar ring is rearranged on to the N atom of the base (R) group to form [R + Bzl + H]⁺ and [R+ 2Bzl]⁺ ions.     

Multiple ionization,charge separation and charge stripping reactions involving polycyclic aromatic compounds

The 70 eV electron ionization mass spectra of polycyclic aromatic compounds are characterized by the presence of relatively stable multiply charged molecular ions [M]ⁿ⁺ (n=2–4). When generated from the compounds benzene, napthalene, anthracene, phenanthrene, 2,3-benzanthracene, 1,2-benzanthracene, chrysene, 9,10-benzophenanthrene and pyrene, the relative abundances of the multiply charged ions increase dramatically with the number of rings. These compounds form multiply charged molecular ions (n=2, 3) which undergo unimolecular decompositions indicative of considerable ionic rearrangement. The main charge separation processes observed here [M]²⁺→m₁⁺+m₂⁺, [M]³⁺˙→m₃⁺+m→+m₄²⁺) involve, in almost every case, one or more of the products [CH₃]⁺, [C₂H₃]⁺˙ and [C₃H₃]⁺. This suggests the existence of preferred structures amongst the metastable parent ions. Information on the relative importance of the various fragmentation pathways is presented here along with translational energy release data. Some tentative structural information about the metastable ions has been inferred from the translational energy release on the assumption that the released energy is due primarily to coulombic repulsion within the transition state structure. For the triply charged ions these interpretations have necessitated the use of a coulombic repulsion model which takes account of an extra charge. Vertical ionization energies for the process [M]ⁿ⁺+G→[M](ⁿ⁺¹)+G+e^? (charge stripping) have also been determined where possible for n=1 and 2 and the results from these experiments allow the derivation of simple empirical equations which relate successive ionization energies for the formation of [M]²⁺ and [M]³⁺˙ to the appearance energy of [M]⁺˙.     

Direct analysis in real time mass spectrometry (DART‐MS) of highly non‐polar low molecular weight polyisobutylenes

Low molecular weight polyisobutylenes (PIB) with chlorine, olefin and succinic acid end‐groups were studied using direct analysis in real time mass spectrometry (DART‐MS). To facilitate the adduct ion formation under DART conditions, NH₄Cl as an auxiliary reagent was deposited onto the PIB surface. It was found that chlorinated adduct ions of olefin and chlorine telechelic PIBs, i.e. [M + Cl]^? up to m/z 1100, and the deprotonated polyisobutylene succinic acid [M? H]^? were formed as observed in the negative ion mode. In the positive ion mode formation of [M + NH₄]⁺, adduct ions were detected. In the tandem mass (MS/MS) spectra of [M + Cl]^?, product ions were absent, suggesting a simple dissociation of the precursor [M + Cl]^? into a Cl^? ion and a neutral M without fragmentation of the PIB backbones. However, structurally important product ions were produced from the corresponding [M + NH₄]⁺ ions, allowing us to obtain valuable information on the arm‐length distributions of the PIBs containing aromatic initiator moiety. In addition, a model was developed to interpret the oligomer distributions and the number average molecular weights observed in DART‐MS for PIBs and other polymers of low molecular weight. Copyright © 2015 John Wiley & Sons, Ltd.     

Stossaktivierungsspektren von 2-Alkoxybenzoesäuremethylestern

The CA spectra of the [M – Alkene]⁺·- and [M – Alkyl]⁺- ions from several 2-alkoxy-benzoic acid methyl esters and two 2H labelled 2-ethoxybenzoic acid methyl esters are discussed. The results show that the [M – alkene]⁺· ions decomposing after 10^?5 s by collisional activation have the structure of the ionised salicylic acid methyl ester. Moreover, it is demonstrated that the [M – methyl]⁺ ions from the 2-ethoxy esters exist in two different structures. No equilibration between these two structures is observed even after 10^?5s. Structures for several daughter ions generated by collisional activation are discussed using the CA spectra of the labelled compounds.     

Metastable ion studies. IV—thermochemistry and ion structures among fragmenting [C3H6]+· ions

Metastable ion peak shapes, dimensions and relative abundances have been measured for the three fragmentations [C₃H₆]⁺· → [C₃H₄]⁺· + H₂, [C₃H₆]⁺· → [C₃H₅]⁺ + H· and [C₃H₆]⁺· → [C₃H₃]⁺ + H₂ + H·. [C₃H₆]⁺· ions were derived from propene, cyclopropane, tetrahydrofuran, cyclohexanone, 2-methyl but-1-ene and cis-pent-2-ene. Activation energies for these fragmentations have been evaluated. Three daughter ion dissociations ([C₃H₅]⁺ → [C₃H₃]⁺ + H₂, [C₃H₅]⁺ → [C₃H₄]⁺· + H· and [C₃H₄]⁺· → [C₃H₃]⁺ + H·) have been similarly examined. Ion structures have been determined and the metastable energy releases have been correlated with the thermochemical data. It is concluded that the molecular ions of propene and cyclopropane become structurally indistinguishable prior to fragmentation and that differences in their metastable ion characteristics can be ascribed wholly to internal energy differences; the latter can be correlated with the photoelectron spectra of the isomers. The pathway for the consecutive fragmentation which generates the metastable ion peak (m/e 42 → m/e.39) has been shown to be It is likewise concluded that fragmentating [C₃H₆]⁺· ions generated from the various precursor molecules are also structurally indistinguishable and cannot be classified with either molecular ion of the isomeric C₃H₆ hydrocarbons.     

Mechanism of ionization and initial fragmentation in electron impact mass spectra of 3-halogenobenzanthrones

Electron-impact mass spectra of 3-halogenobenzanthrones (halogen X = Cl, Br, I) were measured and ionization efficiency curves and three kinds of linked-scan spectra were obtained for several fragment ions. The fundamental mechanisms of ionization and initial fragmentation were interpreted by the penetration length of an impacting electron or the density distribution on the molecular surface of a rejected electron and its orbital energy. The apparent ionization energy (IE) of a singly charged molecular ion seems to be the lower one of non-bonding electrons on O or X, and that of a doubly charged molecular ion the sum of three terms, the IE of non-bonding electron on O, that on X and the electrostatic repulsion between two positive charges. Two competing pathways of decomposition from the molecular ion M^+· to an ion [M - CO,- X]⁺ were observed: one is the initial detachment of CO in chloro and bromo compounds and the other is the initial elimination of the iodine atom in the iodo compound. The sequence of these reactions was confirmed by metastable ion analysis with linked-scan spectra and the relative magnitudes of the appearance energies. They can be explained by the driving force of a localized positive charge or unpaired electron on a heteroatom.     

Evidence for the Amino–Claisen rearrangement occurring in the molecular ions of N-allylaniline

One of the most intense peaks in the mass spectrum of N-allylaniline is at m/z 106 (97%). High resolution analysis and collision-induced dissociation studies confirm that this peak contains mostly [C₇H₈N]⁺ ions having the anilinomethene structure, but also a small contribution is seen from [C₈H₁₀]⁺ ions which result from the loss of the elements of HCN from molecular ions, following an Amino–Claisen rearrangement. The occurrence of a thermal rearrangement in the sample molecules cannot, however, be completely ruled out. Studies on metastable molecular ions of N-allylaniline and collision-induced dissociation of the m/z 106 ions formed from these show that, in the case of molecular ions with energies closer to threshold, the rearrangement reaction competes much more effectively with the direct cleavage reaction.     

Stereochemical applications of mass spectrometry. 3—Energy dependence of the fragmentation of stereoisomeric methylcyclohexanols

Breakdown graphs have been constructed from charge exchange data for the epimeric 2-methyl-, 3-methyl- and 4-methyl-cyclohexanols. Although the breakdown graphs for epimeric pairs are essentially identical above ～12 eV recombination energy, significant differences are observed for the epimeric 2-methyl- and 4-methyl-cyclohexanols at low internal energies. For the 2-methylcyclohexanols the ratio ([M? H₂O]^+·/[M]^+·)_cis/([M? H₂O]^+·/[M]^+·)_trans is 3.2 in the [C₆F₆]^+· charge exchange mass spectra. This is attributed to both energetic and conformational effects which favour the stereospecific cis-1,4-H₂O elimination for the cis epimer. The breakdown graph for trans-4-methylcyclohexanol shows a sharp peak in the abundance of the [M? H₂O]^+· ion at ～10 eV recombination energy which is absent from the breakdown graph for the cis epimer. This peak is attributed to the stereospecific cis-1,4-elimination of water from the molecular ion of the trans isomer; the reaction appears to have a low critical energy but a very unfavourable frequency factor, and alternative modes of water loss common to both epimers are observed at higher energies. As a result, in the [C₆F₆]^+· charge exchange mass spectra the ([M? H₂O]^+·/[M]^+·)_trans/([M? H₂O]^+·/[M]^+·)_cis ratio is ～24, compared to the value of 13 observed in the 70 eV EI mass spectra. No differences are observed in either the metastable ion abundances or the associated kinetic energy releases for epimeric molecules.     

Ammonium 1‐hydroxy‐2‐(2‐pyridinio)ethane‐1,1‐diyldiphosphonate dihydrate and potassium 1‐hydroxy‐2‐(2‐pyridinio)ethane‐1,1‐diyldiphosphonate dihydrate

The crystal structures of the title compounds, ammonium risedronate dihydrate, NH₄⁺·C₇H₁₀NO₇P₂⁻·2H₂O, (I), and potassium risedronate dihydrate, K⁺·C₇H₁₀NO₇P₂⁻·2H₂O, (II), have been determined from single‐crystal X‐ray data collected at 120 K. Compound (I) forms a three‐dimensional hydrogen‐bonded network which connects the ammonium and risedronate ions and the water mol­ecules. In compound (II), the K⁺ ions are seven‐coordinated in a capped distorted trigonal prism. The coordination polyhedra form chains by corner‐sharing, and these chains are connected by phosphon­ate groups into layers in the ac plane. The layers are stacked and connected by hydrogen bonds in the b direction. The risedronate conformation is determined by intra­molecular inter­actions fine‐tuned by crystal packing effects. All H‐atom donors in both structures are involved in hydrogen bonding, with D⋯A distances between 2.510 (2) and 3.009 (2) Å.     

Low-energy fragmentations of five isomeric [H3, C,N, O2] +· ions

The low-energy fragmentation characteristics of the [H₃,C,N,O₂]^+· isomers [H₃CNO₂]^+· (a), [H₂C?N(O)OH]^+· (b), [H₃CONO]^+· (c), [HC(O)NHOH]^+· (d) and [HC(OH)?NOH]^+· (e) were studied in detail by metastable ion mass spectrometry. In agreement with most earlier observations, appearance energy measurements established the potential energy surface of the isomers a, b and c, showing the intricate interrelations between them. It was concluded that a isomerizes into b prior to fragmentation by loss of ^·OH and H₂O and into c before loss of ^·H and H₃CO^· moreover, the reverse reactions do not take place on the metastable time-frame. The dominant metastable process for isomers d and e (obtained via HCN loss from glyoxime) was generation of [H₂NOH]^+·. For isomer e this process was proposed to involved a rate-determining isomerization into d. It was concluded that isomers d and e do not intercommunicate with ions a, b and c prior to fragmentation. Neutralization-reionization mass spectrometry indicated that the enol form of formohydroxamic acid as well as the keto counterpart are stable in the gas phase.     

Mass spectrometry of cycloheptatriene derivatives—II: Ring contraction of the molecular ion of 7-cyanocycloheptatriene. Participation of ring carbon in the loss of HCN (or HNC)

At an electron energy of 70 eV (nominal) both the [M]⁺·-ion and the [M? H]⁺-ion of the title compound expel hydrogen cyanide. ¹³C labelling in the cyano group shows that these ions lose—within experimental error—only H¹³CN when decomposing in the ion source, i.e. when possessing a relatively high internal energy. In the first and second field free region, however, as well as in the ion source at low ionizing energies (9 eV, nominal), H¹²CN is also eliminated. This phenomenon may be explained by ring contraction of the molecular ion to a six membered ring, possibly initiated by the formation of a norcaradiene structure, which may then rearrange further to a species of higher symmetry. This ring contraction is supported by the occurrence of peaks of low intensity at m/e 78 and m/e 77, due to fragments which are generated in one step from the molecular ion.     

Rearrangement of molecular ions following electron impact: IV—Origin of the [M—28]+˙ ions in the mass spectra of α-methyl-2-decalone

The transposition of the molecular ions (ring contraction) of 2-decalones is demonstrated by a study of the [M–28]⁺˙ peak and its homologue in labelled products using ionization and appearance energy measurements, and mass analysed ion kinetic energy and collision induced dissociation spectra.