ESI‐MS/MS analysis of protonated N‐methyl amino acids and their immonium ions

Methylation is one of the important posttranslational modifications of biological systems. At the metabolite level, the methylation process is expected to convert bioactive compounds such as amino acids, fatty acids, lipids, sugars, and other organic acids into their methylated forms. A few of the methylated amino acids are identified and have been proved as potential biomarkers for several metabolic disorders by using mass spectrometry–based metabolomics workstation. As it is possible to encounter all the N‐methyl forms of the proteinogenic amino acids in plant/biological systems, it is essential to have analytical data of all N‐methyl amino acids for their detection and identification. In earlier studies, we have reported the ESI‐MS/MS data of all methylated proteinogenic amino acids, except that of mono‐N‐methyl amino acids. In this study, the N‐methyl amino acids of all the amino acids ( 1 ‐ 21 ; including one isomeric pair) were synthesized and characterized by ESI‐MS/MS, LC/MS/MS, and HRMS. These data could be useful for detection and identification of N‐methyl amino acids in biological systems for future metabolomics studies. The MS/MS spectra of [M + H]⁺ ions of most N‐methyl amino acids showed respective immonium ions by the loss of (H₂O, CO). The other most common product ions detected were [MH‐(NH₂CH₃]⁺, [MH‐(RH)]⁺ (where R = side chain group) ions, and the selective structure indicative product ions due to side chain and N‐methyl group. The isomeric/isobaric N‐methyl amino acids could easily be differentiated by their distinct MS/MS spectra. Further, the MS/MS of immonium ions inferred side chain structure and methyl group on α‐nitrogen of the N‐methyl amino acids.     

Ammonium adduct ion in ammonia chemical ionization mass spectrometry: 2—Mechanism of elimination of neutrals from the ammonium adduct ion

The mechanism of elimination of ROH (R = H or CH₃) from the ammonium adduct ion, [M+NH₄]⁺, of 1-adamantanol and its methyl ether is examined by using linked-scan metastable ion spectra and by measuring the dependence of the peak intensity ratio [M+NH₄]⁺/[M+NH₄? ROH]⁺ on ammonia pressure. For 1-adamantanol both S_Ni and S_N1 reactions are suggested in metastable ion decomposition, while only the S_N1 mechanism is operative in the ion source. For 1-adamantanol methyl ether the S_N1 reaction predominates both in metastable ion decomposition and in the ion source reaction.     

MS3 using the collision cell of a tandem mass spectrometer system

We report the feasibility of multistage fragmentation in combination with a fast background subtraction method, yielding the equivalent of MS3. The first quadrupole selects an ion of interest, and the ion is axially accelerated into Q2 to generate fragment ions. Subsequent stages of mass selection and fragmentation are obtained by quadrupolar resonant excitation within the Q2 collision cell. The fragments are analyzed downstream by either a resolving quadrupole or a time-of-flight (TOF) mass spectrometer, and multistage spectra are obtained by subtraction (MS(n) - MS(n-1)) for n = 3 or 4. We discuss the characterization of this method, including product ion arrival times, fragmentation efficiencies, and ion selectivity. We report accurate TOF mass spectra of background-subtracted MS3 for protonated molecules reserpine (m/z 609), bosentan (m/z 1552), and taxol (m/z 854).     

Formation of complexes between uracil and calcium ions: an ESI/MS/MS study in combination with theoretical calculations

Cationized uracil clusters around calcium metal ions were generated in the gas phase by electrospray ionization (ESI). A previous study showed that with particular experimental conditions, hexamer, octamer, decamer, dodecamer and tetradecamer uracil clusters are present in high quantities. New experiments were carried out to understand the reasons for the particular stability of these complexes. MS/MS experiments suggested that these uracil clusters belong to the same family. Based on ab initio and DFT quantum chemistry calculations, structures in agreement with experimental results are proposed for these clusters. Copyright © 2009 John Wiley & Sons, Ltd.     

Bifunctional even-electron ions: 1—Fragmentation behaviour of ω-methoxy-, ω-hydroxy- and ω-chloro-oxonium ions

Bifunctional oxonium ions—generated from tertiary aliphatic alcohols containing an additional hydroxy, methoxy or chloro group at the end of an alkyl side-chain—do not markedly exhibit fragmentations typical of ordinary oxonium ions, but show as the main reactions those caused by functional group interaction, through-space interaction being the dominant factor. The main primary fragmentation is loss of the additional functional group X as HX, followed by loss of the side-chain originally separating the two functional groups, leading to carbonyl cations. This typical reaction sequence is initiated by proton migration from the oxonium moiety to the additional functional group. The reaction behaviour of the bifunctional ions is discussed. The lowest homologues show specific deviations from the general fragmentation behaviour.     

The behaviour of stereoisomeric ions in the gas phase: 2—Negative and positive chemical ionization of cyclohexanehexacarboxylic methyl esters

The positive ion chemical ionization (CI (isobutane)), negative ion chemical ionization (NICI) electron attachment (CH₄, He) and NICI (OH^?) spectra of the title compounds have been studied in detail with the aid of deuterium-labelled derivatives. The obtained results show that under CI conditions the stereospecificity is retained. Interesting correlations with the condensed phase epimerization yields are emphasized.     

High resolution mass spectrometry—V: Cyclic esters of aliphatic α-hydroxy acids

The main fragmentation sequences of glycollide and its homologues are initiated by fission of a CO? O bond, leading to the formation of fragment ions of low, m/e, such as [R¹CO]⁺ and [CR¹R²CCO]⁺. When a hydrogen atom is present on a ring carbon atom, 1,3 hydrogen migration occurs to produce [CHR²OH]⁺. In case where a ring carbon atom carries an alkylchain ? C₂H₅, a McLafferty rearrangement occurs with the adjacent carbonyl group. When both ring carbon atoms are dimethyl substituted, a 1,4 hydrogen migration must be invoked to account for the observed fragmentation sequence.     

Mass spectra of chlorinated esters: 2—Methyl mono- and dichlorobutanoates

The mass spectral fragmentations of methyl mono- and dichlorobutanates have been studied. Deutrium labelling and metastable ion analysis were used to elucidate the fragmentation mechanisms. The molecular ion peaks of the esters are weak and show only in the spectra of the monochloro isomers. A McLafferty rearrangement gives the base peaks in the spectra of methyl 2-chloro-, 4-chloro- and 4,4-dichlorobutanoate; α-cleavage, [COOCH₃]⁺, in methyl 2,2- and 2,4-dichlorobutanoate; [M? Cl]⁺, in methyl 3-chlorobutanoate; [M? Cl? HCl]⁺, in methyl 3,4-dichlorobutanoate; [M? Cl? CH₂CO]⁺, in methyl 3,3-dichlorobutanoate and [M? Cl? COOCH₃]^+˙, in methyl erythro- and threo-2,3-dichlorobutanoate. The mass spectra of the stereoisomers are nearly identical, the loss of a chlorine atom and the McLafferty rearrangement giving the higher peaks in the spectrum of the threo form.     

New synthesis of α-nitroalkyl- and α-nitroaralkylcarboxylic esters from α-nitroalkyl- and α-nitroaralkyl-2-oxazolines

2-Nitroalkyl- and 2-nitroaralkyl-2-oxazolines are readily converted, in one step, to α-nitroalkyl- and α-nitroaralkylcarboxylic esters on treatment with the appropriate alcohol and trifluoroacetic acid (TFA). The initial products of the ring cleavage are the TFA salts of the ammonioalkyl esters of α-nitroalkyl- and α-nitroaralkylcarboxylic acids. These salts undergo facile transesterification to the α-nitrocarboxylic esters on refluxing with the appropriate alcohol.     

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.     

Ion/molecule reaction inside the collision cell of a tandem quadrupole mass spectrometric system. 2. Energy dependence of ammonium ion formation

The dependence of the protonation of neutral ammonia on the axial kinetic energy of protonated reactant ions has been studied in the gas phase, using various protonated carbonyl compounds, inside the collision cell of a tandem quadrupole mass spectrometric system. The hypothesis of two different and non-competitive reaction channels has been proposed. The first is characterized by a very low (peaked at ±0.05 eV_cm) and well-defined axial kinetic energy of the reactant ion, while the second is more energy demanding (estimated threshold at ±0.2 eV_cm) and expressed by a collisionally induced dissociation-like energy curve. Fourier transform mass spectrometric experiments have shown that ammonium ion can be generated by direct proton exchange and fragmentation of the adduct ion obtained.     

Automated structure elucidation — the benefits of a symbiotic relationship between the spectroscopist and the expert system

Characteristic features of a new expert system StrucEluc are described. The system is intended for the structure elucidation of complex organic molecules using a variety of spectroscopic data including 2D NMR. We review here the results of challenging this system with over 100 structure elucidation problems where the 2D NMR peak tables presented in original journal publications provided the input data. This contribution is focused on methods to overcome difficult situations that can arise when contradictions are present in the input data and/or when the structure is underdetermined as a result of insufficient 2D NMR correlations. Methods by which to address these situations are examined. It has been shown that synergy between the spectroscopist and the expert system allows the solution of problems that seemed to be hopeless at the outset of the structure elucidation process.     

Destabilized carbenium ions: α-imidoyl carbenium ions and the electron impact mass spectra of α-haloaldimines and α-haloketimines

A series of α-chloro- and α-bromoketimines compounds (1-9) with different substituents at the α-position and at the imino group has been investigated by electron impact mass spectrometry as possible precursors of the correspondingly substituted α-imidoyl carbenium ion, an important class of destabilized carbenium ions. The main fragmentation of the molecular ions of compounds, 1-9 in the ion source corresponds to an α-cleavage at the imino group; however, fragment ions are also formed by loss of the α-halo substituent. These fragment ions correspond at least formally to α-imidoyl carbenium ions. Their further reactions in dependence on the type of substituents at the imino group and at the α-C atom, were studied by mass-analysed ion kinetic energy and collisional activation mass spectrometry. The results agree with the initial formation of destabilized α-imidoyl carbenium ions but indicate an easy rearrangement of these ions in the presence of suitable alkyl substituents by 1,2- and 1,4-hydrogen shifts to more stable isomers.     

Naturally occuring lactones and lactames—V: Halogenated β-keto esters as starting materials for the synthesis of tetronic acids

In an effort to improve and simplify the synthetic route to tetronic acids 15 differently substituted β-keto esters were investigated as potential starting materials. The β-keto esters were brominated and cyclised with 2·5 N KOH as cyclising agent. Tetronic acid and seven derivatives including the naturally occuring carolinic acid were obtained. In a number of cases products arising from a Favorskii rearrangment were isolated. The NMR spectroscopic data are discussed.     

Summary of ISO/TC 201 standard: XXXIII,ISO 18115:2001/Amd. 2:2007—Surface Chemical Analysis—Vocabulary—Amendment 2

This International Standard adds a further 87 terms to this Vocabulary series, many for secondary ion mass spectrometry, elastic peak electron spectroscopy and reflected electron energy loss spectroscopy, together with 76 acronyms for scanned probes, 33 definitions of scanned probe techniques, 6 terms for contact mechanics and 147 terms for concepts in scanned probe analysis. This brings the total number of terms and acronyms to over 750 in these documents. The terms cover words or phrases used in describing the samples, instruments and theoretical concepts involved in surface chemical analysis. Copyright © 2008 John Wiley & Sons, Ltd.