Jos Oomens

Free electron laser-Fourier transform ion cyclotron resonance mass spectrometry facility for obtaining infrared multiphoton dissociation spectra of gaseous ions

A Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometer has been installed at a free electron laser (FEL) facility to obtain infrared absorption spectra of gas phase ions by infrared multiple photon dissociation (IRMPD). The FEL provides continuously tunable infrared radiation over a broad range of the infrared spectrum, and the FT-ICR mass spectrometer, utilizing a 4.7Tesla superconducting magnet, permits facile formation, isolation, trapping, and high-mass resolution detection of a wide range of ion classes. A description of the instrumentation and experimental parameters for these experiments is presented along with preliminary IRMPD spectra of the singly-charged chromium-bound dimer of diethyl ether (Cr(C4H10O)2+) and the fluorene molecular ion (C13H10+). Also presented is a brief comparison of the fluorene cation spectrum obtained by the FT-ICR-FEL with an earlier spectrum recorded using a quadrupole ion trap (QIT).

Laboratory Infrared Spectroscopy of Cationic Polycyclic Aromatic Hydrocarbon Molecules

Infrared spectroscopy of a variety of interstellar sources shows strong mid-IR emission bands, which are generally attributed to emission from highly vibrationally excited polycyclic aromatic hydrocarbon molecules (PAHs) in the neutral and, particularly, cationic states. Over the past decade, various experimental methods have been developed to record the infrared spectra of cationic PAHs in the laboratory. In this paper, we discuss available experimental spectra obtained with matrix isolation spectroscopy (MIS), infrared multiple-photon dissociation of trapped ions (MPD), dissociation spectroscopy of ionic PAH van der Waals clusters (VDW), and infrared emission (IRE). Moreover, we compare these experimental spectra to density functional theory (DFT) calculations. The main body of experimental data relies on MIS and MPD spectra, and we present a detailed comparison of results from these methods, providing linear and multiple-photon absorption data, respectively. The effects of multiple-photon absorption, as encountered in MPD, and multiple-photon emission, occurring in interstellar spectra, are carefully assessed with the use of mathematical models, which include the effects of vibrational anharmonicity. We show that an analysis of the multiple-photon and linear data can provide important information on the anharmonicity parameters, which is otherwise difficult to attain. This is illustrated with a detailed comparison of the linear and multiple-photon absorption spectra of the naphthalene cation, yielding experimental anharmonicity parameters for the IR-active modes in the 500-1700 cm-1 range.

Photoacoustic spectroscopy using quantum-cascade lasers

Photoacoustic spectra of ammonia and water vapor were recorded by use of a continuous-wave quantum-cascade distributed-feedback (QC-DFB) laser at 8.5 mum with a 16-mW power output. The gases were flowed through a cell that was resonant at 1.6 kHz, and the QC-DFB source was temperature tuned over 35 nm for generation of spectra or was temperature stabilized on an absorption feature peak to permit real-time concentration measurements. A detection limit of 100 parts in 10(9) by volume ammonia at standard temperature and pressure was obtained for a 1-Hz bandwidth in a measurement time of 10 min.

Effects of Alkaline Earth Metal Ion Complexation on Amino Acid Zwitterion Stability: Results from Infrared Action Spectroscopy

The structures of isolated alkaline earth metal cationized amino acids are investigated using infrared multiple photon dissociation (IRMPD) spectroscopy and theory. These results indicate that arginine, glutamine, proline, serine, and valine all adopt zwitterionic structures when complexed with divalent barium. The IRMPD spectra for these ions exhibit bands assigned to carboxylate stretching modes, spectral signatures for zwitterionic amino acids, and lack bands attributable to the carbonyl stretch of a carboxylic acid functional group. Structural and spectral assignments are strengthened through comparisons with absorbance spectra calculated for low-energy structures and the IRMPD spectra of analogous ions containing monovalent alkali metals. Many bands are significantly red-shifted from the corresponding bands for amino acids complexed with monovalent metal ions, owing to increased charge transfer to divalent metal ions. The IRMPD spectra of arginine complexed with divalent strontium and barium are very similar and indicate that arginine adopts a zwitterionic form in both ions. Calculations indicate that nonzwitterionic forms of arginine are lowest in free energy in complexes with smaller alkaline earth metal cations and that zwitterionic forms are preferentially stabilized with increasing metal ion size. B3LYP and MP2 calculations indicate that zwitterionic forms of arginine are lowest in free energy for M = Ca, Sr, and Ba.

Gas-Phase IR Spectroscopy of Deprotonated Amino Acids

Gas-phase infrared multiple photon dissociation (IRMPD) spectra have been recorded for the conjugate bases of a series of amino acids (Asp, Cys, Glu, Phe, Ser, Trp, Tyr). The spectra are dominated by strong symmetric and antisymmetric carboxylate stretching modes around 1300 and 1600 cm(-1), respectively. Comparison of the experimental spectra with spectra calculated at the DFT level suggests a carboxylate structure for all species investigated, which is in contrast with what has recently been suggested in this journal for deprotonated cysteine [J. Am. Chem. Soc. 2007, 129, 5403-5407]. In addition, the IR spectrum of the conjugate base of tyrosine is also unambiguously that of a carboxylate ion and not that of a phenoxide ion. In sharp contrast with the conjugate bases of other amino acids investigated here, the aspartate and glutamate anions show very broad, hardly resolved spectral features. We present qualitative experimental evidence indicating that this can be attributed to the formation of a proton bridge between the backbone and side chain carboxylate groups. The large amplitude motion of this shared proton, coupling to virtually all other vibrational modes, causes extensive spectral broadening.

Gas-phase infrared photodissociation spectroscopy of cationic polyaromatic hydrocarbons

Infrared spectra of gas-phase cationic naphthalene, phenanthrene, anthracene, and pyrene are recorded in the 500-1600 cm-1 range using multiphoton dissociation in an ion trap. Gas-phase polyaromatic hydrocarbons are photoionized by an excimer laser and stored in a quadrupole ion trap. Subsequent interaction with the intense infrared radiation of a free electron laser that is tuned in resonance with an infrared-allowed transition of the ion leads to sequential multiphoton absorption facilitated by rapid intramolecular vibrational redistribution. Absorption of more than 50-100 infrared photons raises the internal energy to above the dissociation threshold, leading eventually to fragmentation of the ion. Mass selective detection of the cationic species stored in the trap yields the infrared absorption spectrum of the parent ion.

IRMPD spectroscopy of metal-ion/tryptophan complexes

Infrared multiple-photon dissociation (IRMPD) spectroscopy is employed to obtain detailed binding information on singly charged silver and alkali metal-ion/tryptophan complexes in the gas phase. For these complexes the presence of the salt bridge (i.e. zwitterionic) tautomer can be virtually excluded, except for perhaps a few percent in the case of Li+. Two low-energy structures having the charge solvation form are shown to be likely, where the metal cation is either in a tridentate N/O/Ring conformation or in a bidentate O/Ring conformation. These two structures can be conveniently discriminated and their relative quantities can be approximated by IR spectroscopy, based principally on diagnostic modes near approximately 1150 (N/O/Ring) and 1400 (O/Ring) cm(-1). Interestingly, the smaller cation complexes (i.e. Ag+ and Li+) display exclusively the N/O/Ring conformation, whereas the O/Ring conformer becomes progressively more abundant with increasing alkali metal size, eventually representing the majority of the ion population for Rb+ and Cs+. These spectroscopic findings are in excellent agreement with thermochemical density functional theory (DFT) calculations, giving support to the utility of high-level quantum-chemical calculations for such systems. Moreover, in contrast to other mass spectrometry-based techniques, IRMPD spectroscopy allows clear differentiation and semi-quantitative approximation of these metal-ligand binding motifs, thereby underlining its importance in thermochemical model benchmarking.

Infrared Multiphoton Dissociation Spectroscopy of Cationized Threonine : Effects of Alkali-Metal Cation Size on Gas-Phase Conformation

The gas-phase structures of alkali-metal cation complexes of threonine (Thr) are examined using infrared multiple photon dissociation (IRMPD) spectroscopy utilizing light generated by a free electron laser in conjunction with quantum chemical calculations. Spectra of Li+(Thr) and Na+(Thr) are similar and relatively simple, whereas K+(Thr), Rb+(Thr), and Cs+(Thr) include distinctive new IR bands. Measured IRMPD spectra are compared to spectra calculated at a B3LYP/6-311+G(d,p) level to identify the structures present in the experimental studies. For the smaller metal cations, the spectra match those predicted for charge-solvated structures in which the ligand exhibits tridentate coordination, M1[N,CO,OH], binding to the amide and carbonyl groups of the amino acid backbone and to the hydroxyl group of the side chain. K+(Thr), Rb+(Thr), and Cs+(Thr) exhibit evidence of the charge-solvated complex, M3[COOH], in which the metal cation binds to the carboxylic acid group. Evidence for a small population of the zwitterionic analogue of this structure, ZW[CO2-], is also present, particularly for the Cs+ complex. Calculations indicate that the relative stability of the M3[COOH] structure is very strongly dependent on the size of the metal cation, consistent with the range of conformations observed experimentally. The present results are similar to those obtained previously for the analogous M+(Ser) complexes, although there are subtle distinctions that are discussed.

Spectroscopic Evidence for an Oxazolone Structure of the b2 Fragment Ion from Protonated Tri-Alanine

Infrared multiple photon dissociation (IRMPD) spectroscopy is used to identify the structure of the b2+ ion generated from protonated tri-alanine by collision induced dissociation (CID). The IRMPD spectrum of b2+ differs markedly from that of protonated cyclo-alanine-alanine, demonstrating that the product is not a diketopiperazine. Instead, comparison of the IRMPD spectrum of b2+ to spectra predicted by density functional theory provides compelling evidence for an oxazolone structure protonated at the oxazolone N-atom.

Alkali Metal Complexes of the Dipeptides PheAla and AlaPhe: IRMPD Spectroscopy†

Complexes of PheAla and AlaPhe with alkali metal ions Na(+) and K(+) are generated by electrospray ionization, isolated in the Fourier-transform ion cyclotron resonance (FT-ICR) ion trapping mass spectrometer, and investigated by infrared multiple-photon dissociation (IRMPD) using light from the FELIX free electron laser over the mid-infrared range from 500 to 1900 cm(-1). Insight into structural features of the complexes is gained by comparing the obtained spectra with predicted spectra and relative free energies obtained from DFT calculations for candidate conformers. Combining spectroscopic and energetic results establishes that the metal ion is always chelated by the amide carbonyl oxygen, whilst the C-terminal hydroxyl does not complex the metal ion and is in the endo conformation. It is also likely that the aromatic ring of Phe always chelates the metal ion in a cation-pi binding configuration. Along with the amide CO and ring chelation sites, a third Lewis-basic group almost certainly chelates the metal ion, giving a threefold chelation geometry. This third site may be either the C-terminal carbonyl oxygen, or the N-terminal amino nitrogen. From the spectroscopic and computational evidence, a slight preference is given to the carbonyl group, in an RO(a)O(t) chelation pattern, but coordination by the amino group is almost equally likely (particularly for K(+)PheAla) in an RO(a)N(t) chelation pattern, and either of these conformations, or a mixture of them, would be consistent with the present evidence. (R represents the pi ring site, O(a) the amide oxygen, O(t) the terminal carbonyl oxygen, and N(t) the terminal nitrogen.) The spectroscopic findings are in better agreement with the MPW1PW91 DFT functional calculations of the thermochemistry compared with the B3LYP functional, which seems to underestimate the importance of the cation-pi interaction.