Mechanisms for the selective gas-phase fragmentation reactions of methionine side chain fixed charge sulfonium ion containing peptides

To enable the development of improved tandem mass spectrometry based methods for selective proteome analysis, the mechanisms, product ion structures, and other factors influencing the gas-phase fragmentation reactions of methionine side-chain derivatized "fixed-charge" phenacylsulfonium ion containing peptide ions have been examined. Dissociation of these peptide ions results in the exclusive characteristic loss of the derivatized side chain, thereby enabling their selective identification. The resultant product ion(s) are then subjected to further dissociation to obtain sequence information for subsequent protein identification. Molecular orbital calculations (at the B3LYP/6-31 + G (d,p) level of theory) performed on a simple peptide model, together with experimental evidence obtained by multistage dissociation of a regioselectively deuterated methionine derivatized sulfonium ion containing tryptic peptide, indicate that fragmentation of the fixed charge containing peptide ions occurs via SN2 reactions involving the N- and C-terminal amide bonds adjacent to the methionine side chain, resulting in the formation of stable cyclic five- and six-membered iminohydrofuran and oxazine product ions, respectively. These studies further indicate that the rings formed via these neighboring group reactions are stable to further dissociation by MS3. As a consequence, the formation of b- or y-type sequence ions are "skipped" at the site of cyclization. Despite this, complete sequence information is still obtained because of the presence of both cyclic products.     

Substituent effects on the gas‐phase fragmentation reactions of protonated peptides containing benzylamine‐derivatized lysyl residues

Motivated by the need for chemical strategies designed to tune peptide fragmentation to selective cleavage reactions, benzyl ring substituent influence on the relative formation of carbocation elimination (CCE) products from peptides with benzylamine‐derivatized lysyl residues has been examined using collision‐induced dissociation (CID) tandem mass spectrometry. Unsubstituted benzylamine‐derivatized peptides yield a mixture of products derived from amide backbone cleavage and CCE. The latter involves side‐chain cleavage of the derivatized lysyl residue to form a benzylic carbocation [C₇H₇]⁺ and an intact peptide product ion [(MH_n)ⁿ⁺ – (C₇H₇)⁺]^(n‐1)+. The CCE pathway is contingent upon protonation of the secondary ε‐amino group (N_ε) of the derivatized lysyl residue. Using the Hammett methodology to evaluate the electronic contributions of benzyl ring substituents on chemical reactivity, a direct correlation was observed between changes in the CCE product ion intensity ratios (relative to backbone fragmentation) and the Hammett substituent constants, σ, of the corresponding substituents. There was no correlation between the substituent‐influenced gas‐phase proton affinity of N_ε and the relative ratios of CCE product ions. However, a strong correlation was observed between the π orbital interaction energies (ΔE_int) of the eliminated benzylic carbocation and the logarithm of the relative ratios, indicating the predominant factor in the CCE pathway is the substituent effect on the level of hyperconjugation and resonance stability of the eliminated benzylic carbocation. This work effectively demonstrates the applicability of σ (and ΔE_int) as substituent selection parameters for the design of benzyl‐based peptide‐reactive reagents which tune CCE product formation as desired for specific applications. Copyright © 2012 John Wiley & Sons, Ltd.     

Substituent effects in the fragmentation reactions of acetanilides and phenyl acetates

The mass spectra of a group of m- and p-substituted acetanilides were measured to determine the effect of the substituents, if any, on the rate of C₂H₂O expulsion (rearrangement) vs. the rate of [CH₃CO]⁺ formation (simple cleavage). Our results agree with observations of others in that substituents which raise the ionization potential of the aromatic ring appear to localize, on the average, less charge density on this locus, and conversely. The atomic composition of the substituent, however, irrespective of its position, seems to determine the relative rates of the competing reaction. Although in several cases Z_m/Z_p values were close to unity, rearrangement of isomeric molecular ions to a common species is shown not to occur.     

Electron transfer versus proton transfer in gas-phase ion/ion reactions of polyprotonated peptides

The ion/ion reactions of several dozen reagent anions with triply protonated cations of the model peptide KGAILKGAILR have been examined to evaluate predictions of a Landau-Zener-based model for the likelihood for electron transfer. Evidence for electron transfer was provided by the appearance of fragment ions unique to electron transfer or electron capture dissociation. Proton transfer and electron transfer are competitive processes for any combination of anionic and cationic reactants. For reagent anions in reactions with protonated peptides, proton transfer is usually significantly more exothermic than electron transfer. If charge transfer occurs at relatively long distances, electron transfer should, therefore, be favored on kinetic grounds because the reactant and product channels cross at greater distances, provided conditions are favorable for electron transfer at the crossing point. The results are consistent with a model based on Landau-Zener theory that indicates both thermodynamic and geometric criteria apply for electron transfer involving polyatomic anions. Both the model and the data suggest that electron affinities associated with the anionic reagents greater than about 60-70 kcal/mol minimize the likelihood that electron transfer will be observed. Provided the electron affinity is not too high, the Franck-Condon factors associated with the anion and its corresponding neutral must not be too low. When one or the other of these criteria is not met, proton transfer tends to occur essentially exclusively. Experiments involving ion/ion attachment products also suggest that a significant barrier exists to the isomerization between chemical complexes that, if formed, lead to either proton transfer or electron transfer.     

Substituent effects on the stereochemistry of gas-phase intracomplex nucleophilic substitutions

The mechanism and stereochemistry of the intracomplex solvolysis of proton-bound complexes [Y...H...M]+ between M = CH3 (18)OH and Y = 1-arylethanol [(S)-1-(para-tolyl)ethanol (1S), (S)-1-(para-chlorophenyl)ethanol (2S), (S)-1-(meta-alpha,alpha,alpha-trifluoromethylphenyl)ethanol (3S), (S)-1-(para-alpha,alpha,alpha-trifluoromethylphenyl)ethanol (4S), (R)-1-(pentafluorophenyl)ethanol (5R), (R)-alpha-(trifluoromethyl)benzyl alcohol (6R), and (R)-1-phenylethanol (7R)] have been investigated in the gas phase (CH3F; 720 Torr) in the 25-140 degrees C temperature range. Gas-phase solvolysis of [Y...H...M]+ (Y=2S, 3S, 4S, and 7R) leads to extensive racemization above a characteristic temperature t(#) (e.g. at t(#)>60 degrees C for 7R), whereas below that temperature the reaction displays a preferential retention of configuration. Predominant retention of configuration is instead observed in the intracomplex solvolysis of [Y...H...M]+ (Y=1S, 4S, 5R, and 6R) with the temperature range investigated (25 相似文献   

Leaving group effects on the selectivity of the gas-phase fragmentation reactions of side chain fixed-charge-containing peptide ions

The effect of trialkylsulfonium versus quaternaryalkylammonium ions on the multistage gas-phase fragmentation reactions of side chain, fixed-charge, cysteine-containing peptides has been examined in a quadrupole linear ion trap. These tandem mass spectrometry experiments reveal that selective loss of dialkylsulfide from fixed-charge sulfonium ion derivatives is the dominant fragmentation pathway regardless of the degree of proton mobility, indicating that it is the most energetically favored fragmentation pathway. In contrast, the loss of trimethylamine from the side chain of fixed-charge ammonium-ion-containing cysteine derivatives appears to be less energetically favored, and as a result extensive charge-remote fragmentation is observed under low proton mobility conditions, while under conditions of high proton mobility, amide bond fragmentation reactions dominate. These findings are supported by molecular orbital calculations at the B3LYP/6-31 + G(d, p) level of theory, which showed that the neutral loss of dimethylsulfide is both thermodynamically and kinetically preferred over the loss of trimethylamine.     

The role of amino acid composition in the charge inversion of deprotonated peptides via gas-phase ion/ion reactions

Ion/ion charge inversion via multiple proton transfer reactions occurs via a long-lived intermediate. The intermediate can be observed if its lifetime is long relative to mechanisms for removal of excess energy (i.e., emission and collisional stabilization). The likelihood for formation of a stabilized intermediate is a function of characteristics of the reagent and analyte ions. This work is focused on the role acidic and basic sites of a deprotonated peptide play in the formation of a stabilized intermediate upon charge inversion with multiply protonated polypropyleniminediaminobutane dendrimers. A group of model peptides based on leucine enkephalin was used, which included YGGFL, YGGFLF, YGGFLK, YGGFLR and YGGFLH as well as methyl esterified and acetylated versions. Results showed that peptides containing basic amino acid residues charge inverted primarily by proton transfer from the DAB dendrimer to the peptide, whereas peptides without basic amino acids charge inverted primarily by complex formation with the DAB dendrimer. The modified versions of the peptides highlighted the importance of the presence of the C-terminus as well as the basicity of the peptide in the observation of a stabilized intermediate. These results provide new insights into the nature of the interactions that occur in the charge inversion of polypeptide anions via ion/ion reactions.     

Role of the sulfhydryl group on the gas phase fragmentation reactions of protonated cysteine and cysteine containing peptides

The gas phase fragmentation reactions of protonated cysteine and cysteine-containing peptides have been studied using a combination of collisional activation in a tandem mass spectrometer and ab initio calculations [at the MP2(FC)/6-31G*//HF/6-31G* level of theory]. There are two major competing dissociation pathways for protonated cysteine involving: (i) loss of ammonia, and (ii) loss of the elements of [CH₂O₂]. MS/MS, MS/MS of selected ions formed by collisional activation in the electrospray ionization source as well as ab initio calculations have been carried out to determine the mechanisms of these reactions. The ab initio results reveal that the most stable [M + H − NH₃]⁺ isomer is an episulfonium ion (A), whereas the most stable [M + H − CH₂O₂]⁺ isomer is an immonium ion (B). The effect of the position of the cysteine residue on the fragmentation reactions of the [M + H]⁺ ions of all the possible simple dipeptide and tripeptide methyl esters containing one cysteine (where all other residues are glycine) has also been investigated. When cysteine is at the N-terminal position, NH₃ loss is observed, although the relative abundance of the resultant [M + H − NH₃]⁺ ion decreases with increasing peptide size. In contrast, when cysteine is at any other position, water loss is observed. The proposed mechanism for loss of H₂O is in competition with those channels leading to the formation of structurally relevant sequence ions.     

Substituent effects in the mass spectral fragmentation of aryl esters

The mass spectra of m- and p-substituted phenyl acetates, phenyl propionates, phenyl chloroacetates and phenyl fluoroacetates have been determined. The fragmentation of aryl esters is affected by acyl substituents as well as by aryl substituents. Esters having acyl groups of low ionization potential show greater changes in fragmentation because of aryl substituents than those having acyl groups of high ionization potential. Each series has a fairly definite crossover point where fragmentation changes from predominant rearrangement to predominant cleavage.     

Substituent effects in eight-electron electrocyclic reactions

The main features of transition structures associated with eight-electron electrocyclic reactions have been studied with Density Functional Theory. It is found that conrotatory electrocyclization reaction of (3Z,5Z)-octa-1,3,5,7-tetraenes takes place via M?bius aromatic transition structures of helical conformation. The reaction is completely periselective. In general, transition structures having outward substituents are preferred with respect to the inward transition structures, irrespective of the pi-donor or pi-acceptor character of the substituent. In contrast with four-electron thermal conrotatory electrocyclic reactions, there is no satisfactory correlation between the difference in energy of activation between inward and outward substituents and the Taft resonance sigma(R) parameter.     

Substituent effects on the photocycloaddition reactions of phenol to benzonitriles

Methoxy-, methyl-, and chloro-substituted benzonitriles undergo photocycloaddition to phenol to give substituted 1,2-dihydroazocin-2-ones III , by initial attack of the cyano group on the aromatic ring of the phenol. The efficiency of the photocycloaddition reaction varied with the position of the substituents, with the para-substituted ones giving the largest amount of photoproduct.     

Substituent effects on the gas-phase ring-chain tautomerism of 3,4,5,6-tetrahydro-2H-1,3-oxazines

The electron ionization mass spectra of five series of seven 2-aryl,4-R-substituted (R = Me, Et, i-Pr, t-Bu or Ph) 3,4,5,6-tetrahydro-2H-1,3-oxazines were recorded at 14 and 70 eV in order to study the ring-chain tautomeric equilibria in the gas phase. Certain fragment ions were associated with the ring or with the open-chain forms of the compounds. As in chloroform solution, the electron-withdrawing effect of the aryl substituent (p-NO(2), m-Br, p-Cl, H, p-Me, p-OMe and p-NMe(2)) shifts the equilibrium towards the ring form. The correlation of ring-chain equilibria (log K = [ring]/[chain]) with the Hammett sigma+ constants of the aryl substituents was in general good or satisfactory although in some cases the p-NMe(2) did not fit these correlations.     

Solvent-equilibrated ion pairs from carbene fragmentation reactions

[R(+) OC Cl(-)] ion pairs were generated in methanol/dichloroethane solutions, with R(+) as the 1-bicyclo[2.2.2]octyl, 1-adamantyl, or 3-homoadamantyl cation. Ion pairs were produced either by the direct fragmentation of alkoxychlorocarbenes (ROCCl), with R = 1-bicyclo[2.2.2]octyl, 1-adamantyl, or 3-homoadamantyl, or by the ring expansion-fragmentation of R'CH(2)OCCl, with R' = 1-norbornyl, 3-noradamantyl, or 1-adamantyl. Correlations of the [ROMe]/[RCl] product ratios as a function of the mole fraction of MeOH in dichloroethane showed that the homoadamantyl chloride ion pairs, produced by either the direct or ring expansion-fragmentations, were identical, solvent- and anion-equilibrated, and precursor independent. Laser flash photolysis experiments gave 20-30 ps as the time required for solvent equilibration and precursor independence. Methanol/chloride selectivities of the (less-stable) 1-adamantyl chloride and 1-bicyclo[2.2.2]octyl chloride ion pairs were not independent of their ROCCl or R'CH(2)OCCl precursors. Computational studies provided transition states for the fragmentations and for the structures of the ion pairs.     

Mechanisms for the proton mobility-dependent gas-phase fragmentation reactions of S-alkyl cysteine sulfoxide-containing peptide ions

Mechanisms for the gas-phase fragmentation reactions of singly and multiply protonated precursor ions of the model S-alkyl cysteine sulfoxide-containing peptides GAILCGAILK, GAILCGAILR, and VTMGHFCNFGK prepared by reaction with iodomethane, iodoacetamide, iodoacetic acid, acrylamide, or 4-vinylpyridine, followed by oxidation with hydrogen peroxide, as well as peptides obtained from an S-carboxyamidomethylated and oxidized tryptic digest of bovine serum albumin, have been examined using multistage tandem mass spectrometry, hydrogen/deuterium exchange and molecular orbital calculations (at the B3LYP/6-31 + G(d,p) level of theory). Consistent with previous reports, CID-MS/MS of the S-alkyl cysteine sulfoxide-containing peptide ions resulted in the dominant "non-sequence" neutral loss of an alkyl sulfenic acid (XSOH) from the modified cysteine side chains under conditions of low proton mobility, irrespective of the alkylating reagent employed. Dissociation of uniformly deuterated precursor ions of these model peptides determined that the loss of alkyl sulfenic acid in each case occurred via a "charge-remote" five-centered cis-1,2 elimination reaction to yield a dehydroalanine-containing product ion. Similarly, the charge state dependence to the mechanisms and product ion structures for the losses of CO(2), CO(2) + H(2)O and CO(2) + CH(2)O from S-carboxymethyl cysteine sulfoxide-containing peptides, and for the losses of CH(2)CHCONH(2) and CH(2)CHC(5)H(4)N, respectively, from S-amidoethyl and S-pyridylethyl cysteine sulfoxide-containing peptide ions have also been determined. The results from these studies indicate that both the proton mobility of the peptide precursor ion and the nature of the S-alkyl substituent have a significant influence on the abundances and charge states of the product ions resulting from the various competing fragmentation pathways.     

Substituent effects on the electrophilic activity of nitroarenes in reactions with carbanions

The effect on electrophilic activity of substituents located para, ortho, and meta to the nitro group of nitrobenzenes was determined by using vicarious nucleophilic substitution of hydrogen (VNS) with the carbanion of chloromethyl phenyl sulfone (1) as the model process. Values for the relative activities of substituted nitroarenes are given relative to nitrobenzene, which was taken as the standard. This process was chosen as a model reaction because it meets key criteria, such as the wide range of substituents that can be present on the nitrobenzene ring, a low sensitivity to steric hindrance, and in particular the possibility of ensuring conditions in which the overall relative rates of reaction in competitive experiments are equal to the relative rates of nucleophilic addition. The values of relative rates of addition, which were taken to be a measure of electrophilic activity, were determined by competitive experiments in which pairs of nitroarenes competed for the VNS reaction with carbanion of 1. A comprehensive set of data for effects of substituents on the electrophilic activity of nitroarenes is presented for the first time.     

Substituent effects on ion abundances and energetics in substituted acetophenones

Based on the quasi-equilibrium theory of mass spectra it is shown that the intensity ratio [A]⁺/[M]⁺, where [A]⁺ is a fragment ion and [M]⁺ is the molecular ion, is given by [A]⁺/[M]⁺ = f′ (k₁/k_t) ((1/f) ? 1), where f is the fraction of molecular ions with insufficient energy to fragment, f′ is the fraction of [A]⁺ ions with insufficient energy to fragment, and k₁/k_t is the fraction of fragmenting molecular ions which form [A]⁺. For substituted acetophenones it is shown that f depends on the substituent present and that f′ k₁/k_t is also substituent dependent for formation of both [CH₃CO]⁺ and [YC₆H₄CO]⁺. It is also shown that no direct information concerning the effect of a substituent on the rate of a particular fragmentation reaction can be obtained from intensity studies. The ionization potentials of the parent molecules and the appearance potentials of the [YC₆H₄CO]⁺ fragment ions have been measured for fifteen substituted acetophenones and the correlations with substituent constants are discussed.     

Effect of the basic residue on the energetics, dynamics, and mechanisms of gas-phase fragmentation of protonated peptides

The effect of the basic residue on the energetics, dynamics, and mechanisms of backbone fragmentation of protonated peptides was investigated. Time-resolved and collision energy-resolved surface-induced dissociation (SID) of singly protonated peptides with the N-terminal arginine residue and their analogues, in which arginine is replaced with less basic lysine and histidine residues, was examined using a specially configured Fourier transform ion cyclotron resonance mass spectrometer (FTICR-MS). SID experiments demonstrated different kinetics of formation of several primary product ions of peptides with and without arginine residue. The energetics and dynamics of these pathways were determined from Rice-Ramsperger-Kassel-Marcus (RRKM) modeling of the experimental data. Comparison between the kinetics and energetics of fragmentation of arginine-containing peptides and the corresponding methyl ester derivatives provides important information on the effect of dissociation pathways involving salt bridge (SB) intermediates on the observed fragmentation behavior. Because pathways involving SB intermediates are characterized by low threshold energies, they efficiently compete with classical oxazolone and imine/enol pathways of arginine-containing peptides on a long time scale of the FTICR instrument. In contrast, fragmentation of histidine- and lysine-containing peptides is largely determined by canonical pathways. Because SB pathways are characterized by negative activation entropies, fragmentation of arginine-containing peptides is kinetically hindered and observed at higher collision energies as compared to their lysine- and histidine-containing analogues.     

Resonant laser ablation as a selective metal ion source for gas-phase ion molecule reactions

Resonant laser ablation (RLA) is used as a source to selectively generate multiple metal ion species from the same sample. The capability of rapidly changing metal ions for gas-phase ion chemistry studies is a significant advantage in ion-molecule chemistry. The simple experimental arrangement uses relatively modest laser pulse energies (≤ 25 µJ/pulse) from a tunable dye laser to desorb and selectively ionize different metal atoms from a multicomponent sample. In turn, this allows the chemistry of several components to be investigated without breaking vacuum or altering the experimental geometry. This work demonstrates the use of RLA as a selective source of several reagent metal ions for gas-phase ion chemistry investigations. In particular, the reactivity of acetone with Cr⁺, Fe⁺, Ni⁺, and Cu⁺ was examined for metal ions selectively created by RLA from a standard steel sample.