| 1. |
- Bull, James N., et al.
(author)
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Ion mobility action spectroscopy of flavin dianions reveals deprotomer-dependent photochemistry
- 2018
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In: Physical Chemistry, Chemical Physics - PCCP. - : Royal Society of Chemistry (RSC). - 1463-9076 .- 1463-9084. ; 20:29, s. 19672-19681
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Journal article (peer-reviewed)abstract
- The intrinsic optical properties and photochemistry of flavin adenine dinucleotide (FAD) dianions are investigated using a combination of tandem ion mobility spectrometry and action spectroscopy. Two principal isomers are observed, the more stable form being deprotonated on the isoalloxazine group and a phosphate (N-3,PO4 deprotomer), and the other on the two phosphates (PO4,PO4 deprotomer). Ion mobility data and electronic action spectra suggest that photo-induced proton transfer occurs from the isoalloxazine group to a phosphate group, converting the PO4,PO4 deprotomer to the N-3,PO4 deprotomer. Comparisons of the isomer selective action spectra of FAD dianions and flavin monoanions with solution spectra and gas-phase photodissociation action spectra suggests that solvation shifts the electronic absorption of the deprotonated isoalloxazine group to higher energy. This is interpreted as evidence for significant charge transfer in the lowest optical transition of deprotonated isoalloxazine. Overall, this work demonstrates that the site of deprotonation of flavin anions strongly affects their electronic absorptions and photochemistry.
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| 2. |
- Bull, James N., et al.
(author)
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Photodetachment and photoreactions of substituted naphthalene anions in a tandem ion mobility spectrometer
- 2019
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In: Faraday discussions. - : Royal Society of Chemistry (RSC). - 1359-6640 .- 1364-5498. ; 217, s. 34-46
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Journal article (peer-reviewed)abstract
- Substituted naphthalene anions (deprotonated 2-naphthol and 6-hydroxy-2-naphthoic acid) are spectroscopically probed in a tandem drift tube ion mobility spectrometer (IMS). Target anions are selected according to their drift speed through nitrogen buffer gas in the first IMS stage before being exposed to a pulse of tunable light that induces either photodissociation or electron photodetachment, which is conveniently monitored by scavenging the detached electrons with trace SF6 in the buffer gas. The photodetachment action spectrum of the 2-naphtholate anion exhibits a band system spanning 380-460 nm with a prominent series of peaks spaced by 440 cm(-1), commencing at 458.5 nm, and a set of weaker peaks near the electron detachment threshold corresponding to transitions to dipole-bound states. The two deprotomers of 6-hydroxy-2-naphthoic acid are separated and spectroscopically probed independently. The molecular anion formed from deprotonation of the hydroxy group gives rise to a photodetachment action spectrum similar to that of the 2-naphtholate anion with an onset at 470 nm and a maximum at 420 nm. Near the threshold, the photoreaction with SF6 is observed with displacement of an OH group by an F atom. In contrast, the anion formed from deprotonation of the carboxylic acid group gives rise to a photodissociation action spectrum, recorded on the CO2 loss channel, lying at much shorter wavelengths with an onset at 360 nm and maximum photoresponse at 325 nm.
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| 3. |
- de Ruette, Nathalie, et al.
(author)
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DESIREE electrospray ion source test bench and setup for collision induced dissociation experiments
- 2018
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In: Review of Scientific Instruments. - : AIP Publishing. - 0034-6748 .- 1089-7623. ; 89:7
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Journal article (peer-reviewed)abstract
- In this paper, we give a detailed description of an electrospray ion source test bench and a single-pass setup for ion fragmentation studies at the Double ElectroStatic Ion Ring ExpEriment infrastructure at Stockholm University. This arrangement allows for collision-induced dissociation experiments at the center-of-mass energies between 10 eV and 1 keV. Charged fragments are analyzed with respect to their kinetic energies (masses) by means of an electrostatic energy analyzer with a wide angular acceptance and adjustable energy resolution.
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| 4. |
- Gatchell, Michael, et al.
(author)
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Failure of hydrogenation in protecting polycyclic aromatic hydrocarbons from fragmentation
- 2015
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In: Physical Review A. Atomic, Molecular, and Optical Physics. - 1050-2947 .- 1094-1622. ; 92:5
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Journal article (peer-reviewed)abstract
- A recent study of soft x-ray absorption in native and hydrogenated coronene cations, C24H12+m + m = 0-7, led to the conclusion that additional hydrogen atoms protect (interstellar) polycyclic aromatic hydrocarbon (PAH) molecules from fragmentation [Reitsma et al., Phys. Rev. Lett. 113, 053002 (2014)]. The present experiment with collisions between fast (30-200 eV) He atoms and pyrene (C16H10+m +, m = 0, 6, and 16) and simulations without reference to the excitation method suggests the opposite. We find that the absolute carbon-backbone fragmentation cross section does not decrease but increases with the degree of hydrogenation for pyrene molecules.
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| 5. |
- Giacomozzi, Linda, et al.
(author)
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Absorption and luminescence spectroscopy of mass-selected flavin adenine dinucleotide mono-anions
- 2018
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In: Journal of Chemical Physics. - : AIP Publishing. - 0021-9606 .- 1089-7690. ; 148:21
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Journal article (peer-reviewed)abstract
- We report the absorption profile of isolated Flavin Adenine Dinucleotide (FAD) mono-anions recorded using photo-induced dissociation action spectroscopy. In this charge state, one of the phosphoric acid groups is deprotonated and the chromophore itself is in its neutral oxidized state. These measurements cover the first four optical transitions of FAD with excitation energies from 2.3 to 6.0 eV (210-550 nm). The S-0 -> S-2 transition is strongly blue shifted relative to aqueous solution, supporting the view that this transition has a significant charge-transfer character. The remaining bands are close to their solution-phase positions. This confirms that the large discrepancy between quantum chemical calculations of vertical transition energies and solution-phase band maxima cannot be explained by solvent effects. We also report the luminescence spectrum of FAD mono-anions in vacuo. The gas-phase Stokes shift for S-1 is 3000 cm(-1), which is considerably larger than any previously reported for other molecular ions and consistent with a significant displacement of the ground and excited state potential energy surfaces. Consideration of the vibronic structure is thus essential for simulating the absorption and luminescence spectra of flavins.
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| 6. |
- Giacomozzi, Linda, 1986-
(author)
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Collision- and photon-induced dynamics of complex molecular ions in the gas phase
- 2019
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Doctoral thesis (other academic/artistic)abstract
- In this thesis, I report experiments probing collision- and photon-induced molecular dynamics in the gas phase. Excited molecules formed in such interactions may relax by emitting electrons or photons, isomerization or fragmentation. For complex molecular systems, these processes typically occur on timescales exceeding picoseconds following statistical redistribution of the excitation energy across the internal degrees of freedom. However, energy transfer to molecules through ion/atom impact may in some cases lead to prompt atom knockout in Rutherford-type scattering processes on much faster timescales. Another example of such a non-statistical process is photon-induced excited-state proton transfer, a structural rearrangement occurring on the femtosecond timescale.In this work, I investigate the competition between statistical and non-statistical fragmentation processes for a range of molecules colliding with He at center-of-mass energies in the sub-keV range. I show that heavy atom knockout is an important process for systems containing aromatic rings such as Polycyclic Aromatic Hydrocarbons (PAHs) or porphyrins, while statistical fragmentation processes dominate for less stable and/or smaller systems such as adenine or hydrogenated PAHs. Furthermore, I present the first measurements of the threshold energies for prompt single atom knockout from isolated molecules. The experimental results are interpreted with the aid of Molecular Dynamics (MD) simulations which allow us to extract the energy deposited into the system during a collision, knockout cross sections, fragmentation pathways and the structures of the fragments. The results presented in this work may be important for understanding the response of complex molecules to energetic processes in e.g. astrophysical environments.Furthermore, I present the results of photodissociation and luminescence experiments probing flavin mono-anions in the gas phase. These are compared against calculations and previously measured spectra in solution. The discrepancies between the present results and the theoretical values suggest that more consideration of the vibronic structure is needed to model the photoabsorption and emission in flavins. Finally, I present the results of photoisomerisation experiments of flavin di-anions where two different isomers have been found and I discuss the proton transfer mechanisms which govern the structural changes.
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| 7. |
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| 8. |
- Giacomozzi, Linda, et al.
(author)
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Decay pathways for protonated and deprotonated adenine molecules
- 2019
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In: Journal of Chemical Physics. - : AIP Publishing. - 0021-9606 .- 1089-7690. ; 151:4
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Journal article (peer-reviewed)abstract
- We have measured fragment mass spectra and total destruction cross sections for protonated and deprotonated adenine following collisions with He at center-of-mass energies in the 20-240 eV range. Classical and ab initio molecular dynamics simulations are used to provide detailed information on the fragmentation pathways and suggest a range of alternative routes compared to those reported in earlier studies. These new pathways involve, for instance, losses of HNC molecules from protonated adenine and losses of NH2 or C3H2N2 from deprotonated adenine. The present results may be important to advance the understanding of how biomolecules may be formed and processed in various astrophysical environments.
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| 9. |
- Giacomozzi, Linda, et al.
(author)
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Knockout driven fragmentation of porphyrins
- 2017
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In: Physical Chemistry, Chemical Physics - PCCP. - : Royal Society of Chemistry (RSC). - 1463-9076 .- 1463-9084. ; 19:30, s. 19750-19755
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Journal article (peer-reviewed)abstract
- We have studied collisions between tetraphenylporphyrin cations and He or Ne at center-of-mass energies in the range 50-110 eV. The experimental results were interpreted in view of density functional theory calculations of dissociation energies and classical molecular dynamics simulations of how the molecules respond to the He/Ne impact. We demonstrate that prompt atom knockout strongly contributes to the total destruction cross sections. Such impulse driven processes typically yield highly reactive fragments and are expected to be important for collisions with any molecular system in this collision energy range, but have earlier been very difficult to isolate for biomolecules.
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| 10. |
- Giacomozzi, Linda, 1986-, et al.
(author)
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Non-statistical fragmentation in photo-activated flavin mononucleotide anions
- 2021
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In: Journal of Chemical Physics. - : AIP Publishing. - 0021-9606 .- 1089-7690. ; 155:4
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Journal article (peer-reviewed)abstract
- The spectroscopy and photo-induced dissociation of flavin mononucleotide anions in vacuo are investigated over the 300-500 nm wavelength range. Comparison of the dependence of fragment ion yields as a function of deposited photon energy with calculated dissociation energies and collision-induced dissociation measurements performed under single-collision conditions suggests that a substantial fraction of photo-activated ions decompose through non-statistical fragmentation pathways. Among these pathways is the dominant photo-induced fragmentation channel, the loss of a fragment identified as formylmethylflavin. The fragment ion specific action spectra reveal electronic transition energies close to those for flavins in solution and previously published gas-phase measurements, although the photo-fragment yield upon excitation of the S-2 <- S-0 transition appears to be suppressed.
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