High-resolution mass-selective UV spectroscopy of pseudoephedrine: evidence for conformer-specific fragmentation

Using resonance-enhanced two-photon ionization spectroscopy with mass resolution of jet-cooled molecules, a low-resolution S(1) ← S(0) vibronic spectrum of pseudoephedrine was recorded at the mass channels of three distinct fragments with m/z = 58, 71, and 85. Two of the fragments, with m/z = 71 and 85, are observed for the first time for this molecule. The vibronic spectra recorded at different mass channels feature different patterns, implying that they originate from different conformers in the cold molecular beam, following conformer-specific fragmentation pathways. Highly resolved spectra of all prominent vibronic features were measured, and from their analysis based on genetic algorithms, the molecular parameters of the conformers giving rise to the respective bands have been determined. Comparing the experimental results with those obtained from high-level ab initio quantum chemistry calculations, the observed prominent vibronic bands have been assigned to originate from four distinct conformers. The conformers are separated into two groups that have different fragmentation pathways determined by the different intramolecular interactions.     

Two distinct conformers of the cyclic heptapeptide phakellistatin 2 isolated from the fijian marine sponge stylotellaaurantium

The isolation, structure determination, and solution conformation of two conformers of the cyclic heptapeptide phakellistatin 2 (cyclo-[Phe1-cis-Pro2-Ile3-Ile4-cis-Pro5-Tyr6-cis-Pro7]) isolated from the Fijian marine sponge Stylotella aurantium are reported. The conformers can be isolated separately by HPLC and are stable in methanol solution over a period of weeks as determined by NMR. Their NMR spectra and mass spectral fragmentation patterns differ significantly. Their solution conformations were determined by NOE-restrained molecular dynamics calculations and indicated that the two conformers had different folds, hydrogen bonding patterns, and solvent accessible surfaces. These factors may contribute to the independent stability of the two conformers, and may explain the variable biological activity previously reported for phakellistatin 2.     

Fragmentation and conformation study of ephedrine by low- and high-resolution mass selective UV spectroscopy

The neurotransmitter molecule, ephedrine, has been studied by mass-selective low- and high-resolution UV resonance enhanced two-photon ionization spectroscopy. Under all experimental conditions we observed an efficient fragmentation upon ionization. The detected vibronic peaks in the spectrum are classified according to the efficiency of the fragmentation, which leads to the conclusion that there exist three different species in the molecular beam: ephedrine-water cluster and two distinct conformers. The two-color two-photon ionization experiment with a decreased energy of the second photon leads to an upper limit of 8.3 eV for the ionization energy of ephedrine. The high-resolution (70 MHz) spectrum of the strongest vibronic peak in the spectrum measured at the fragment (m/z=58) mass channel displays a pronounced and rich rotational structure. Its analysis by the use of a specially designed computer-aided rotational fit process yields accurate rotational constants for the S(0) and S(1) states and the transition moment ratio, providing information on the respective conformational structure.     

Elucidating collision induced dissociation products and reaction mechanisms of protonated uracil by coupling chemical dynamics simulations with tandem mass spectrometry experiments

In this study we have coupled mixed quantum‐classical (quantum mechanics/molecular mechanics) direct chemical dynamics simulations with electrospray ionization/tandem mass spectrometry experiments in order to achieve a deeper understanding of the fragmentation mechanisms occurring during the collision induced dissociation of gaseous protonated uracil. Using this approach, we were able to successfully characterize the fragmentation pathways corresponding to ammonia loss (m/z 96), water loss (m/z 95) and cyanic or isocyanic acid loss (m/z 70). Furthermore, we also performed experiments with isotopic labeling completing the fragmentation picture. Remarkably, fragmentation mechanisms obtained from chemical dynamics simulations are consistent with those deduced from isotopic labeling. Copyright © 2015 John Wiley & Sons, Ltd.     

Konstitutionelle Effekte bei der Chemischen Ionisationsmassenspektrometrie di- und Trifunktioneller Diterpene

Investigation of the chemical ionization spectra of six diterpenes with two or three oxygen functions shows that the relative position of the functional groups is important for the fragmentation pattern of the protonated molecular ions. Use of the ‘Direct Analysis of Daughter Ions’ and variation of the accelerating voltage scan in the chemical ionization mode reveals further details of the fragmentation reactions. Probably these results are also useful in other cases for the location of functional groups by means of chemical ionization.     

Theoretical modeling of postionization fragmentation of rare-gas trimer cations

The dynamics of ionic rare-gas trimers (Ar(3) (+), Kr(3) (+), and Xe(3) (+)) produced by a sudden ionization of neutral precursors is investigated theoretically with a hybrid classical-quantum method for solving the equations of motion governed by a Hamiltonian obtained from a previously tested diatomics-in-molecules model. Initial conditions are selected with Monte Carlo sampling. Two possibilities for generating the initial electronic state are considered: diabatic (local) and adiabatic (delocalized). The dynamics generally leads to fragmentation, producing either monomer ions or dimer ions in a relatively short time; however, a large number of long-lived metastable trimer ions are also seen in some cases. We have analyzed the dynamics with respect to the fraction of monomer ions produced, the distribution of the kinetic energy of the products, and the distribution of fragmentation times of the trimers. Initial diabatic ionization is associated with much faster fragmentation than adiabatic ionization. Spin-orbit coupling plays an important role in the fragmentation dynamics.     

Computational protocols for prediction of solute NMR relative chemical shifts. a case study of L-tryptophan in aqueous solution

In this study, we have applied two different spanning protocols for obtaining the molecular conformations of L-tryptophan in aqueous solution, namely a molecular dynamics simulation and a molecular mechanics conformational search with subsequent geometry re-optimization of the stable conformers using a quantum mechanically based method. These spanning protocols represent standard ways of obtaining a set of conformations on which NMR calculations may be performed. The results stemming from the solute-solvent configurations extracted from the MD simulation at 300 K are found to be inferior to the results stemming from the conformations extracted from the MM conformational search in terms of replicating an experimental reference as well as in achieving the correct sequence of the NMR relative chemical shifts of L-tryptophan in aqueous solution. We find this to be due to missing conformations visited during the molecular dynamics run as well as inaccuracies in geometrical parameters generated from the classical molecular dynamics simulations.     

Classical trajectory simulations of photoionization dynamics of tryptophan: intramolecular energy flow, hydrogen-transfer processes and conformational transitions

One-photon and two-photon ionization dynamics of tryptophan is studied by classical trajectory simulations using the semiempirical parametric method number 3 (PM3) potential surface in "on the fly" calculations. The tryptophan conformer is assumed to be in the vibrational ground state prior to ionization. Initial conditions for the trajectories are weighted according to the Wigner distribution function computed for that state. Vertical ionization in the spirit of the classical Franck-Condon principle is assumed. For the two-photon ionization process the ionization is assumed to go resonantively through the first excited state. Most trajectories are computed, and the analysis is carried out for the first 10 ps. A range of interesting effects are observed. The main findings are as follows: (1) Multiple conformational transitions are observed in most of the trajectories within the ultrafast duration of 10 ps. (2) Hydrogen transfer from the carboxyl group to the amino group and back has been observed. A zwitterion is formed as a transient state. (3) Two new isomers are formed during the dynamics, which have apparently not been previously observed. (4) Fast energy flow between the ring modes and the amino acid backbone is observed for both one- and two-photon ionization. However, the effective vibrational temperatures only approach the same value after 90 ps. The conformation transition dynamics, the proton-transfer processes and the vibrational energy flow are discussed and analyzed.     

Pump-Probe Fragmentation Action Spectroscopy: A Powerful Tool to Unravel Light-Induced Processes in Molecular Photocatalysts

We present a proof of concept that ultrafast dynamics combined with photochemical stability information of molecular photocatalysts can be acquired by electrospray ionization mass spectrometry combined with time-resolved femtosecond laser spectroscopy in an ion trap. This pump-probe “fragmentation action spectroscopy” gives straightforward access to information that usually requires high purity compounds and great experimental efforts. Results of gas-phase studies on the electronic dynamics of two supramolecular photocatalysts compare well to previous findings in solution and give further evidence for a directed electron transfer, a key process for photocatalytic hydrogen generation.     

Pump‐Probe Fragmentation Action Spectroscopy: A Powerful Tool to Unravel Light‐Induced Processes in Molecular Photocatalysts

We present a proof of concept that ultrafast dynamics combined with photochemical stability information of molecular photocatalysts can be acquired by electrospray ionization mass spectrometry combined with time‐resolved femtosecond laser spectroscopy in an ion trap. This pump‐probe “fragmentation action spectroscopy” gives straightforward access to information that usually requires high purity compounds and great experimental efforts. Results of gas‐phase studies on the electronic dynamics of two supramolecular photocatalysts compare well to previous findings in solution and give further evidence for a directed electron transfer, a key process for photocatalytic hydrogen generation.     

A density functional theory for studying ionization processes in water clusters

A generalized Kohn-Sham (GKS) approach to density functional theory (DFT), based on the Baer-Neuhauser-Livshits range-separated hybrid, combined with ab initio motivated range-parameter tuning is used to study properties of water dimer and pentamer cations. The water dimer is first used as a benchmark system to check the approach. The present brand of DFT localizes the positive charge (hole), stabilizing the proton transferred geometry in agreement with recent coupled-cluster calculations. Relative energies of various conformers of the water dimer cation compare well with previously published coupled cluster results. The GKS orbital energies are good approximations to the experimental ionization potentials of the system. Low-lying excitation energies calculated from time-dependent DFT based on the present method compare well with recently published high-level "equation of motion-coupled-cluster" calculations. The harmonic frequencies of the water dimer cation are in good agreement with experimental and wave function calculations where available. The method is applied to study the water pentamer cation. Three conformers are identified: two are Eigen type and one is a Zundel type. The structure and harmonic vibrational structure are analyzed. The ionization dynamics of a pentamer water cluster at 0 K shows a fast <50 fs transient for transferring a proton from one of the water molecules, releasing a hydroxyl radical and creating a protonated tetramer carrying the excess hole.     

The behaviour of stereoisomeric ions in the gas phase: 3—The case of homosubstituted bicyclooctenes

In the electron impact mass spectroscopy of four 2,3,5,6-bicyclo(2.2.2)–7-octenetetramethoxycarbonyl stereoisomers differences in relative abaundances of product ions and also different fragmentation pathways are observed. The stereospecificity is retained also under positive ion chemical ionization (CI(methane), CI(isobutane)) and negative ion chemical ionization (NICI) (OH^?) conditions. Interesting correlations between fragmentation and molecular symmetry are suggested.     

Mass spectral fragmentation reactions of a therapeutic 4-azasteroid and related compounds

Mass spectra were acquired for a therapeutic 4-azasteroid (dutasteride), and some related compounds, using various ionization conditions (EI, CI, APCI and ESI) in both positive and negative ion modes. The ionization and fragmentation behavior of the compound dutasteride, its precursors and several analogs is reported. Positive atmospheric pressure chemical ionization (APCI+) and positive electrospray ionization (ESI+) produced distinctive collision-induced dissociation (CID) spectra for the respective [MH]+ ions of dutasteride. The spectral differences are attributed to ion populations having either different structures or different internal energy distributions (as a consequence of the method of ionization). Irrespective of their origin, the protonated molecules undergo interesting fragmentation reactions when collisionally activated. The identity of the major fragmentation products was confirmed by accurate mass measurement. The negative APCI mass spectrum of dutasteride displays extensive dehydrohalogenation, apparently due to the thermal component of the APCI process. Some of the resulting radical anions display remarkable stability toward collisional decomposition. Details of the fragmentation behavior for the negative ion species and their relationship to the positive ion results are discussed.     

Mass spectrometric behavior of levoglucosan under different ionization conditions and implications for studies of cellulose pyrolysis

Pyrolysis-mass spectrometric studies of cellulose indicate low abundances of levoglucosan in the product spectrum compared to the yield values determined in more conventional types of pyrolysis studies. To examine the reason for these conflicting observation, levoglucosan was examined under different ion source conditions and ionization modes to ascertain the relative contributions of thermal degradation and ionization fragmention to the low abundances of the levoglucosan molecular ion. Low-energy electron ionization using conventional sample volatilization and molecular-beam sampling is compared to chemical ionization using methane, isobutane, and ammonia as reagent gases, and to field ionization and desorption. The mass spectrometric fragmentation patterns under the various systems indicate that studies of cellulose pyrolysis underestimate the amount of levoglucosan formed due to ionization fragmentation and thermal rearrangement reactions in the ion source. Several peaks, including m/z 126 and 144, are dominated by the contribution from the fragmentation of levoglucosan.     

Conformation-specific spectroscopy and photodissociation of cold, protonated tyrosine and phenylalanine

We present here ultraviolet and infrared spectra of protonated aromatic amino acids in a cold, 22-pole ion trap. Ultraviolet photofragmentation spectra of protonated tyrosine and phenylalanine show vibronically resolved bands corresponding to different stable conformers: two for PheH+ and four in the case of TyrH+. We subsequently use the resolved UV spectra to perform conformer-specific infrared depletion spectroscopy. Comparison of the measured infrared spectra to density functional theory calculations helps assign the geometry of the various conformers, all of which exhibit NH...pi hydrogen bonds and NH...O=C interactions, with the COOH group oriented either anti or gauche to the aromatic ring. In both molecules the majority of the observed fragments result from dissociation on an excited electronic state. In TyrH+, different conformers excited with practically the same energy exhibit different fragmentation patterns, suggesting that the excited-state dynamics depend upon conformation.     

Photoinduced dynamics of hydrated adenine clusters

We studied the photoinduced dynamics of hydrated adenine clusters by multiphoton ionization techniques. The majority of the hydrated adenine monomers are found to experience dissociative ionization, where the adenine monomer ions are produced due to the fragmentation of the water solvents by three-photon process. Due to fast internal conversion from the electronic states reached by the first photon, the fragmentation takes place in the vibrationally excited electronic ground state and in the vibrationally excited ionic states. Thus, the abundance of the hydrated adenine monomer ion depends on the excitation photon energy, possibly because the lifetime of the intermediate states is different and an internal conversion competes with direct ionization. In addition, a significant amount of protonated adenine monomer is observed. This indicates that the proton transfer is followed by the fragmentation in the hydrated adenine clusters. The abundance of the protonated adenine monomer also depends on the excitation photon energy mainly due to the ionization efficiency of the parent species.     

An investigation of the energetics of peptide ion dissociation by laser desorption chemical ionization fourier transform mass spectrometry

The energy dependence of competing fragmentation pathways of protonated peptide molecules is studied via laser desorption—chemical ionization in a Fourier transform ion cyclotron resonance spectrometer. Neutral peptide molecules are desorbed by the technique of substrate-assisted laser desorption, followed by post-ionization with a proton transfer reagent ion species. The chemical ionization reaction activates the protonated peptide molecules, which then fragment in accordance with the amount of excess energy that is deposited. Chemical ionization forms a protonated molecule with a narrower distribution of activation energy than can be formed by activation methods such as collision activated dissociation. Furthermore, the upper limit of the activation energy is well defined and is approximately given by the enthalpy of the chemical ionization reaction. Control over the fragmentation of peptide ions is demonstrated through reactions between desorbed peptide molecules with different reagent ion species. The fragmentation behavior of peptide ions with different internal energies is established by generation of a breakdown curve for the peptide under investigation. Breakdown curves are reported for the peptides Val-Pro, Val-Pro-Leu, Phe-Phe-Gly-Leu-Met NH₂, and Arg-Lys-Asp-Val-Tyr. The derived breakdown curve of Val-Pro has been fitted by using quasi-equilibrium Rice-Ramsperger-Kassel-Marcus theory to model the unimolecular dissociation of the protonated peptide to provide a better understanding of the mechanisms for the formation of fragment ions that originate from protonated peptides.     

Resonantly enhanced multiphoton ionization and zero kinetic energy photoelectron spectroscopy of 2-indanol conformers

We report studies of a supersonically cooled 2-indanol using two-color resonantly enhanced multiphoton ionization (REMPI) and two-color zero kinetic energy (ZEKE) photoelectron spectroscopy. In the REMPI experiment, we have identified three conformers of 2-indanol and assigned the vibrational structures of the first electronically excited state for the two major conformers. Conformer Ia contains an intramolecular hydrogen bond between the -OH group and the phenyl ring, while conformer IIb has the -OH group in the equatorial position. We have further investigated the vibrational spectroscopy of the cation for the two major conformers using the ZEKE spectroscopy. The two conformers display dramatically different vibrational distributions. The ZEKE spectrum of conformer Ia shows an extensive progression in the puckering mode of the five member ring, indicating a significant geometry change upon ionization. The ZEKE spectra of conformer IIb are dominated by single vibronic transitions, and the intensity of the ZEKE signal is much stronger than that of conformer Ia. These results indicate an invariance of the molecular frame during ionization for conformer IIb. We have performed ab initio and density functional theory calculations to obtain potential energy surfaces along the dihedral angle involving the -OH group for all three electronic states. In addition, we have also calculated the vibrational distribution of the ZEKE spectrum for the puckering mode of the five member ring. Not only the vibrational frequencies but also the intensity distributions for both conformers have been reproduced satisfactorily. The adiabatic ionization energies have been determined to be 68 593+/-5 cm(-1) for conformer Ia and 68 981+/-5 cm(-1) for conformer IIb.     

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.     

Stacking effect of polyfluorene on the chemical shift and electron transport

We investigate the structures, NMR chemical shifts, absorption spectra, frontier molecular orbitals, and transition density matrices of pi-stacked polyfluorenes by ab initio calculations. For F1-F4, we consider two different conformations, syn and anti. The simulated 1H NMR chemical shifts are in good agreement with the previous experiment, and the significantly upfielded chemical shifts explain that the fluorene moieties are stacked on each other. It is found that the relative stability for syn and anti conformers is almost equivalent in B3LYP calculations; however, the syn conformer becomes much more stable than the anti conformer in MP2 calculations, which is consistent with the experimental finding that only the syn conformers are relevant. The vertical detachment energy, which is linearly proportional to the ionization potential, shows the same size dependence as the previous experiment. The electron attachment energy decreases exponentially as the size increases, which implies that the electron transport would be possible even for long chains such as F3 and F4. This was evident from the frontier molecular orbitals (HOMO and LUMO). Also, it is found that the syn conformers are very favorable for electron transport through the pi-stacked fluorene moieties.