Mass spectrometry of nitroazoles: 2—the mass spectra of methyl substituted nitroimidazoles

The mass spectra of six isomers of methylnitroimidazoles are reported and discussed. All compounds exhibit strong molecular ions, along with the characteristic fragmentations of aromatic nitro compounds. In some cases ortho effects—losses of OH^., H₂O, CHO^., CH₂O—are observed, due to interactions of adjacent substituents.     

Mass spectra of methylsubstituted monosila- and monogermacyclobutanes, 1,2- disila- and 1,2-digermacyclopentanes. Some correlations with thermal decomposition

The mass spectra of 1,1-dimethyl-1-silacyclobutane (I—as reported by Cherniak et al.),⁶, 1,1-dimethyl-1-germacyclobutane (II), 1,1,2,2-tetramethyl-1,2-disilacyclopentane (III) and 1,1,2,2-tetramethyl-1,2-digermacyclopentane (IV) are compared and some correlations between electron-impact fragmentation and thermal decomposition are derived. The mass spectra of the germanium compounds with respect to the silicone compounds are enriched by light fragment ions and exhibit lower intensities of odd-electron ions. The composition of some ions and apparently of neutral fragments coincides with that of the unstable intermediates which are suggested in the thermal decomposition mechanism of some related compounds. The loss of C₂H₄ is more characteristic under electron-impact as well as in thermal decomposition of Si-compounds, while C₃H₆ is preferable eliminated by the Ge-compounds.     

Mannose7 Glycan Isomer Characterization by IMS-MS/MS Analysis

The isomers of the Man₇GlcNAc₂ glycan obtained from bovine ribonuclease B have been characterized by ion mobility spectrometry-tandem mass spectrometry (IMS-MS/MS). In these experiments, [Man7 + 2Na]²⁺ precursors having different mobilities are selected by ion mobility spectrometry and analyzed by MS/MS techniques in an ion trap. The fragmentation spectra obtained for various precursor ions are specific, suggesting the isolation or enrichment of different glycan isomers. One fragment ion with a mass-to-charge ratio (m/z) of 903.8 is found to correspond to the loss of an internal mannose residue of a specific isomer. Extracted fragment ion drift time distributions (XFIDTDs) yield distinctive precursor ion drift time profiles indicating the existence of four separate isomers as proposed previously.     

Single series peptide fragment ion spectra generated by two-stage collision-induced dissociation in a triple quadrupole

By using nanoelectrospray ionization and a triple quadrupole analyzer, simplified fragment ion spectra of peptides have been recorded by combining skimmer collision-induced dissociation with precursor ion scanning or neutral loss scanning. These pseudo-MS³ scan modes are characterized by two-stage collision-induced dissociation and have been termed sCID/precursor and sCID/neutral loss scan, respectively. By these scan modes, peptide fragment ion spectra can be generated that predominantly show signals of a single fragment ion series, such as the B or Y″ series. Skimmer collision-induced dissociation combined with scanning for neutral loss of 28 generates spectra showing B ions, whereas combination with precursor ion scanning for the Y″₁ ion results in spectra showing Y″ ions for tryptic peptides (Y″₁=m/z 147 for C-terminal lysine, Y″₁=m/z 175 for C-terminal arginine). Sequence information including the direction of the sequence is easily extracted from the simplified fragment ion spectra generated by two-stage collision-induced dissociation, because the scan mode defines the type of fragments observed. The analytical results reported are similar to those that have been achieved in MS³ experiments using a hybrid BEQQ or a pentaquadrupole mass spectrometer (Schey, K. L.; Schwartz, J. C.; Cooks, R. G. Rapid Commun. Mass Spectrom. 1989, 3, 305–309). The pseudo-MS³ technique used in this study has some limitations with respect to sample purity, because there is no step of mass selection before the first stage of collisional activation; however, it has the advantage that a standard triple quadrupole instrumentation can be used.     

Die Massenspektren einiger Arsen- und Arsenigsäureester – Kinetische Untersuchung ihres Fragmentierungsverhaltens

Mass Spectra of some Arsenic and Arsenious Esters. Kinetic Study of their Fragmentation Reactions The mass spectra of some arsenic and arsenious esters are reported. Based on a mechanistic interpretation of the kinetic of competitive and consecutive reactions correlations between mass spectra and molecular structure have been found. Conclusions: (a) molecular ions are not or very small observable; (b) fragment ions with trivalent and fivevalent arsenic (e.g. As(OCH₃)) are very abundant; (c) the first fragmentation reaction of the molecular ion is usually a simple cleavage, the second is elimination of a neutral by a rearrangement; (d) rearrangement reactions exhibit less activation energies and less frequency factors than simple cleavages, this is the reason for the differences between 70 eV and 9 eV spectra; (e) C? C cleavage in the ethoxy compounds is favoured because of the formation of mesomeric onium ions; (f) some fragmentations by electron impact are analogous to pyrolytic decompositions; (g) in the fragment ions of OAs(OCH₂C₆H₅)₃ the charge is placed on the aromatic ring.     

Fragmentation reactions of some aliphatic esters in the NCl(F−) and NCl(NH2−) mass spectra

The NCI(F^?) and NCI(NH₂^?) mass spectra of a series of aliphatic acetates and of methyl and ethyl trimethylacetate have been obtained. The formation of fluoroenolate ions CH₂COF^? and of carboxamide anions RCONH^? (R ? CH₃))CH₃C). respectively, is observed besides formation of [M ? H]^? ions and carboxylate ions RCOO^? (R ? CH₃, (CH₃)₃C). The relative intensities of the different anions depend on the structure of the ester molecules and on the primary reactant anions. Usually, the NCI(NH₂^?) spectra of the acetates are dominated by [M ? H]^? ions ([M? D]^? ions in the case of trideuteroacetates) fragmenting unimolecularly by elimination of an alcohol. The carboxylate ions are important fragments, too, but carboxamide ions are only observed with large intensities in the NCI(NH₂^? spectra of the trimethylacetates. The NCI(F^?) spectra show much larger intensities of carboxylate ions and fluoroenolate ions. The mechanisms of the fragmentation reactions are discussed. The results indicate that most or even all of the fragment ions in the NCI(F^? mass spectra of aliphatic esters are formed by addition-elimination reactions via a tetrahedral intermediate, while competition between direct proton abstraction and addition-elimination reactions occurs in the NCI(NH₂^?) mass spectra because of the higher basicity of NH₂^? resulting in an early transition state for direct proton abstraction.     

Cyclization of peptide b9 ions

The product ion mass spectra obtained by CID of the b₉ ions derived by loss of neutral alanine from the MH⁺ ion of the peptides Tyr(Ala)₉, (Ala)₄Tyr(Ala)₅, and (Ala)₈TyrAla are essentially identical, indicative of full cyclization reaction to a common intermediate before fragmentation. This leads to abundant nondirect sequence ions in the product ion mass spectra of the b₉ ions. The product ion mass spectra of the b₈ ions from the first two peptides also are essentially identical. The fragmentation of the MH⁺ ions also leads to low intensity nondirect sequence ions in the product ion mass spectra. N-terminal acetylation blocks the cyclization and eliminates nondirect sequence fragment ions in the product ion mass spectra.     

Gas-phase fragmentation reactions of protonated glycerol and its oligomers: Metastable and collision-induced dissociation reactions,associated deuterium isotope effects and the structure of [C3H5O]+, [C2H5O]+, [C2H4O]+. and [C2H3O]+ ions

The chemistry of glycerol subjected to a high-energy particle beam was explored by studying the mass spectral fragmentation characteristics of gas-phase protonated glycerol and its oligomers by using tandem mass spectrometry. Both unimolecular metastable and collision-induced dissociation reactions were studied. Collision activation of protonated glycerol results in elimiation of H₂O and CH₃OH molecules. The resulting ions undergo further fragmentations. The origin of several fragment ions was established by obtaining their product and precursor ion spectra. Corresponding data for the deuterated analogs support those results. The structures of the fragment ions of compositions [C₃H₅O]⁺, [C₂H₅O]⁺, [C₂H₄O]^+. and [C₂H₃O]⁺ derived from protonated glycerol were also identified. Proton-bound glycerol oligomers fragment principally via loss of neutral glycerol molecules. Dissociation of mixed clusters of glycerol and deuterated glycerol displays normal secondary isotope effects.     

Mass spectrometry of systems containing a group IVB—transition metal bond : I. The phenyl- and pentafluorophenyl- silicon, -germanium and -tin derivatives of pentacarbonylmanganese

The 70 eV mass spectra of the series Ph_3?n(C₆F₅)_nMMn(CO)₅ (n = 0 to 3 and M = Si, Ge or Sn) and Ph₃PbMn(CO)₅ have been examined and the proposed fragmentation schemes are supported by the observance of the appropriate metastable ions. Most of the total ion current is carried by metal-containing ions, particularly those containing just a Group IV metal. In all cases the initial fragmentation is by the loss of one or more carbonyl groups from the molecular ion, followed, except in the case of the fully fluorinated silicon derivatives, by the cleavage of the metal—metal bond. The fragmentation of the remainder of the molecule is then controlled by the nature of M and the number of pentafluorophenyl groups, the silicon derivatives showing a greater abundance of ions formed by the cleavage of the CC, CH or CF bonds in the aromatic ring, in contrast to the tin and lead derivatives which fragment almost exclusively by the cleavage of the metal—carbon bond. The formation of metal fluoride species plays an important part in the fragmentation of the pentafluorophenyl derivatives and becomes more important as the Group IV metal becomes heavier, while except for Ph₃PbMn(CO)₅ the abundances of the ions resulting from the migration of a complete aromatic ring from one metal to the other remain essentially constant. However, some of the observed changes in the fragmentation modes are not readily predicted on the basis of the expected variation in the relative metal—carbon or metal—metal bond strengths since these appear to be more dependent on the stabilities of the radical species or on the ion species formed. The tin—metal molecular bond dissociation energies in Ph₃SnMn(CO)₅ and Ph₃SnFe(CO)₂Cp were found to be 61 ± 8 and 54 ± 9 kcal mol^?1, respectively.     

Synthesis and Infrared Spectral Study of Neodymium Furfuroxides and Tetrahydrofurfuroxides

Nd(OR')₃, Nd(OR)(OR')₂ and Nd(OR)₂(OR') are prepared from neodymium isopropoxide and furfurylalcohol and tetrahydrofurfuryl alcohol in different stoichiometric ratios under reflux where OR=OPrⁱ or OBu'; OR'=deprotonated furfuryl and tetrahydrofurfuryl alcohol. Neodymium tertiary butoxide derivatives were prepared by alcohol exchange technique from the corresponding isopropoxide derivatives. The i.r. spectra of the alkoxy derivatives are discussed.     

Extending a Tandem Mass Spectral Library to Include MS<Superscript>2</Superscript> Spectra of Fragment Ions Produced In-Source and MS<Superscript>n</Superscript> Spectra

Tandem mass spectral library searching is finding increased use as an effective means of determining chemical identity in mass spectrometry-based omics studies. We previously reported on constructing a tandem mass spectral library that includes spectra for multiple precursor ions for each analyte. Here we report our method for expanding this library to include MS² spectra of fragment ions generated during the ionization process (in-source fragment ions) as well as MS³ and MS⁴ spectra. These can assist the chemical identification process. A simple density-based clustering algorithm was used to cluster all significant precursor ions from MS¹ scans for an analyte acquired during an infusion experiment. The MS² spectra associated with these precursor ions were grouped into the same precursor clusters. Subsequently, a new top-down hierarchical divisive clustering algorithm was developed for clustering the spectra from fragmentation of ions in each precursor cluster, including the MS² spectra of the original precursors and of the in-source fragments as well as the MSⁿ spectra. This algorithm starts with all the spectra of one precursor in one cluster and then separates them into sub-clusters of similar spectra based on the fragment patterns. Herein, we describe the algorithms and spectral evaluation methods for extending the library. The new library features were demonstrated by searching the high resolution spectra of E. coli extracts against the extended library, allowing identification of compounds and their in-source fragment ions in a manner that was not possible before.

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Graphical Abstract ?

     

193-nm Photodissociation of ions from saturated and unsaturated aliphatic molecules

To determine the analytical utility of photodissociation as a general fragmentation technique for tandem mass spectrometry of organic ions, the ability to fragment those ions considered least likely to absorb photons efficiently was investigated. To this end, the ability to photodissociate ions of aliphatic compounds by using 193-nm photons has been studied. Three fragment ions, the C₄H ₉ ⁺ ion from n-hexane, the C₄H ₇ ⁺ ion from 2-hexene, and C₄H ₅ ⁺ from 2-hexyne, have been photodissociated. The fragmentation efficiencies for all three ions studied were between 25 and 45%. The photofragment ion spectrum for each precursor ion studied is made up of characteristic fragments. These spectra demonstrate the ability to photodissociate aliphatic ions that originate from both saturated and unsaturated molecules. This provides substantial hope that virtually all organic ions will be able to be photodissociated by using 193-nm photons.     

Positive and negative ion mass spectrometric studies of dioximes of α-diketones and their nickel complexes

The positive and negative ion mass spectra of glyoxime, methylglyoxime, dimethylglyoxime, diphenyl glyoxime and of their nickel(II) complexes are reported. Both the positive and negative ion mass spectra of the dioximes show loss of OH^˙ and H₂O from the molecular ion to give fragment ions which probably have cyclic furazan type structures. The positive ion spectra of the complexes fragment mainly by loss of ligand radicals whereas the negative ion spectra show mainly loss of OH^˙ and H₂O.     

Specific and random fragmentations in the mass spectra of some neopentyl compounds

The mass spectra of neopentyl alcohol, bromide and chloride and some ¹³C and ²H labelled analogues have been studied. Most fragmentations of the molecular ions of these compounds occur by simple bond cleavages and do not involve rearrangement before fragmentation. We propose that in the [M ? CH₃]⁺ fragment ions, seven of the eight hydrogen atoms and all four carbon atoms are involved in randomisation when an ethylene molecule is ejected. The eighth hydrogen atom (which comes from a methyl group) is probably associated with the heteroatom. The neopentylcation, observed only in the mass spectrum of the bromide, fragments mainly by loss of an ethylene molecule, also containing randomly selected hydrogen and carbon atoms. The [C₄H₇]⁺ ion also was observed to undergo complete atom scrambling.     

Comparative dissociation of peptide polyanions by electron impact and photo-induced electron detachment

We compare product-ion mass spectra produced by electron detachment dissociation (EDD) and electron photodetachment dissociation (EPD) of multi-deprotonated peptides on a Fourier transform and a linear ion trap mass spectrometer, respectively. Both methods, EDD and EPD, involve the electron emission-induced formation of a radical oxidized species from a multi-deprotonated precursor peptide. Product-ion mass spectra display mainly fragment ions resulting from backbone cleavages of C_α-C bond ruptures yielding a and x ions. Fragment ions originating from N-C_α backbone bond cleavages are also observed, in particular by EPD. Although EDD and EPD methods involve the generation of a charge-reduced radical anion intermediate by electron emission, the product ion abundance distributions are drastically different. Both processes seem to be triggered by the location and the recombination of radicals (both neutral and cation radicals). Therefore, EPD product ions are predominantly formed near tryptophan and histidine residues, whereas in EDD the negative charge solvation sites on the backbone seem to be the most favorable for the nearby bond dissociation.     

Mass spectrometry of heterocyclic compounds VIII–electron-impact-induced fragmentation of 1,2-diphenyl-pyrazolidine-3,5-dione and some 4-substituted derivatives

The mass spectra of 1,2-diphenyl-pyrazolidine-3,5-dione and twenty-one 4-substituted derivatives are reported. Their fragmentation patterns have been studied by deuterium labelling, exact mass measurements, metastable studies by the defocusing technique and low energy spectra. Hydrogen rearrangements from the 4-position of the heterocycle and/or from the ß-position of the 4-substituent groups, lead to the main primary fragment ions [C₁₂H₁₁N₂]⁺ (m/e 183) as shown by the metastables. The 4,4-d₂ derivative shows an appreciable isotope effect even for molecular ions decomposing in the ion source. By comparison with the metastable abundances of competitive reactions, the molecular ions (m/e 252) of the 4-unsubstituted compound appear to be structurally different from the corresponding m/e 252 fragment ions formed from 4-derivatives by the loss of 4-substituent with H rearrangement. If only vinylic or aromatic hydrogen atoms are present, primary cleavage of the heterocyclic ring occurs with loss of OH·, C₃O₂ and C₃HO₂. Important rearrangements leading to elimination of C₆H₆N and C₆H₇N are typical for unsaturated substituents on position four having allylic hydrogen atoms. Fragment ions, identical to molecular ions of some compounds discussed here, are obtained by electron-impact and/or thermal decompostion of some complex compounds containing more than one 1,2-diphenyl-pyrazolidine-3,5-dione system. The [C₆H₅N₂]⁺ (m/e 105) and [C₆H₅]⁺ (m/e 77) ions are common fragments of all the title compounds. Any hydrogen scrambling reactions between phenyl and heterocycle or 4-substituent groups can be excluded.     

Identification of Barrenwort flavonoids by high-resolution tandem mass spectrometry

Fragmentation of the main Barrenwort flavonoids—icariin, icaritin, icarisides I and II, and epimedins A and B—is studied by tandem mass spectrometry. High-resolution mass spectra of positively charged ions of these compounds are obtained under the conditions of collision-induced dissociation. Characteristic fragment ions are determined, which ensured the classification of unknown compounds as Barrenwort flavonoids. Epimedin C was isolated from raw plant material by preparative liquid chromatography; its structure was confirmed by ¹H and ¹³C NMR spectra.     

Multiply charged ions of ruthenium(II), rhodium(III) and cobalt(III) complexes in electrospray ionization mass spectrometry

Multiply charged ions from electrospray ionization (ESI) were observed for ruthenium-bidentate ligand complexes, such as [RuL₂B]X₂ and [(RuL₂)₂B]X₄, where L is 2,2′-bipyridine, B are tetradentate ligands of 2,2′-bis(2′-pyridyl)bibenzimidazole and 2,6-bis(2′-pyridyl)benzodiimidazole, bidentate ligand of 2-(2′-pyridyl)benzimidazole and related compounds and X is CIO₄^- or CI^-. ESI mass spectra showed a simple mass pattern for easy structural assignment and detecting impurities. The mass spectra for binuclear complexes provide a charge state distribution ranging from 4+ to 2+ for Ru(II)—Ru(II) compounds and 5+ to 2+ for Ru(II)—Rh(III) compounds. It was found that different multiply charged ions are generated by loss of counterions and by protonation/deprotonation at the proton site of ligands B. The abundances of these ions are qualitatively explained in terms of the acidity of metal complexes depending on the bridging ligand structures and the charge of the metal ions. Ions produced by removal of ligands were hardly observed.     

Enhanced positive secondary ion emission from substituted polynuclear aromatic hydrocarbon/sulfuric acid solutions

Secondary ion mass spectra of singly substituted aromatic hydrocarbon/H₂SO₄ solutions showed intense aromatic molecular ion and protonated aromatic molecule peaks characteristic of dissolved aromatic compounds from a number of aromatic compound classes, including acids, aldehydes, ketones, nitriles and nitrogen heterocycles. The presence of simultaneously abundant peaks for molecular ions and protonated molecules in secondary ion mass spectra of each aromatic compound/sulfuric acid solution is consistent with known or expected gas-phase proton transfer chemistry. The ratio of intensities, M⁺˙:[M + H]⁺, appears to be determined by sulfuric acid solution chemistry of the compound. Spectra obtained from 1–2 μl samples were relatively free from chemical noise and persisted for up to 20 min. Detection limits for some substituted aromatic compounds are estimated to be 10^?12.     

Differentiation among the four diastereomers of benzyloxycarbonyl-protected γ-hydroxyornithine in negative-ion fast atom bombardment mass spectrometry

Discrimination among the four γ-hydroxyornithine diastereomers was studied by fast atom bombardment mass spectrometry (FABMS). It is impossible to distinguish among the four diastereomers of this amino acid by positive- and negative-ion FAB and collisionally activated dissociation MS, but benzyloxycarbonyl group protection of the α- and δ-amino groups in γ-hydroxyornithine allows differentiation among the diastereomers in negative-ion FABMS. The negative-ion mass spectra of benzyloxycarbonyl-protected γ-hydroxyornithine diastereomers showed differences among the abundances of the molecule ion [M – H]^-, the dehydrated ion [M — H — H₂O]^- due to the loss of the γ-hydroxyl group and the fragment ions formed from both [M — H]^- and [M — H — H₂O]^- ions. On the other hand, no difference was found between the fragmentations of the benzyloxycarbonyl-protected enantiomers of ornithine in negative-ion FABMS. These results indicate that the orientation of the γ-hydroxyl group and the existence of two benzene rings in the benzyloxycarbonyl group are important factors which are responsible for the fragmentations of the four benzyloxycarbonyl-protected γ-hydroxyornithine diastereomers in negative-ion FABMS. These studies also showed that the negative-ion FABMS for benzyloxycarbonyl-protected γ-hydroxyornithine diastereomers is a useful method for determining the configuration of each diastereomer of γ-hydroxyornithine.