1
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Schlathölter T, Poully JC. Radiation-Induced Molecular Processes in DNA: A Perspective on Gas-Phase Interaction Studies. Chemistry 2024:e202400633. [PMID: 38888393 DOI: 10.1002/chem.202400633] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2024] [Indexed: 06/20/2024]
Abstract
Studying the direct effects of DNA irradiation is essential for understanding the impact of radiation on biological systems. Gas-phase interactions are especially well suited to uncover the molecular mechanisms underlying these direct effects. Only relatively recently, isolated DNA oligonucleotides were irradiated by ionizing particles such as VUV or X-ray photons or ion beams, and ionic products were analyzed by mass spectrometry. This article provides a comprehensive review of primarily experimental investigations in this field over the past decade, emphasizing the description of processes such as ionization, fragmentation, charge and hydrogen transfer triggered by photoabsorption or ion collision, and the recent progress made thanks to specific atomic photoabsorption. Then, we outline ongoing experimental developments notably involving ion-mobility spectrometry, crossed beams or time-resolved measurements. The discussion extends to potential research directions for the future.
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Affiliation(s)
- Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747, AG Groningen, The Netherlands
- University College Groningen, University of Groningen, Hoendiepskade 23/24, 9718, BG Groningen, The Netherlands
| | - Jean-Christophe Poully
- CIMAP UMR 6252, CEA, CNRS, ENSICAEN, Université de Caen Normandie, Bd Becquerel, 14070, Caen, France
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2
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Chiang YJ, Huang WC, Han CH, Liu CL, Tsai CC, Hu WP. Near-edge x-ray absorption fine structure spectra and specific dissociation of small peptoid molecules. J Chem Phys 2024; 160:074305. [PMID: 38380751 DOI: 10.1063/5.0188660] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Accepted: 01/31/2024] [Indexed: 02/22/2024] Open
Abstract
In this study, the total ion yield near-edge x-ray absorption fine structure spectra of four similar peptoid molecules, which differ in the numbers and positions of methyl groups, were investigated experimentally and theoretically. At each excitation energy, the intensity and branching ratio of each ionic product were measured. At a few resonant excitation energies, a specific dissociation of the C-CO bond at the nitrogen and oxygen K-edges and of the N-CO bond at the carbon K-edge was dominant, which correlated well with the predicted destination antibonding orbitals of the core electron excitation. These specific dissociation mechanisms of small peptoid molecules could provide insights into similar phenomena that occur in peptide molecules.
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Affiliation(s)
- Yu-Ju Chiang
- Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan
| | - Wan-Chou Huang
- Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan
| | - Chou-Hsun Han
- Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan
| | - Chen-Lin Liu
- Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan
| | - Cheng-Cheng Tsai
- Department of Chemistry and Biochemistry, National Chung Cheng University, Chia-Yi 62102, Taiwan
| | - Wei-Ping Hu
- Department of Chemistry and Biochemistry, National Chung Cheng University, Chia-Yi 62102, Taiwan
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3
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Haitjema J, Castellanos S, Lugier O, Bespalov I, Lindblad R, Timm M, Bülow C, Zamudio-Bayer V, Lau JT, von Issendorff B, Hoekstra R, Witte K, Watts B, Schlathölter T, Brouwer AM. Soft X-ray absorption and fragmentation of tin-oxo cage photoresists. Phys Chem Chem Phys 2024; 26:5986-5998. [PMID: 38293812 DOI: 10.1039/d3cp05428d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2024]
Abstract
"Tin-oxo cage" organometallic compounds are considered as photoresists for extreme ultraviolet (EUV) photolithography. To gain insight into their electronic structure and reactivity to ionizing radiation, we trapped bare gas-phase n-butyltin-oxo cage dications [(BuSn)12O14(OH)6]2+ in an ion trap and investigated their fragmentation upon soft X-ray photoabsorption by means of mass spectrometry. In complementary experiments, the tin-oxo cages with hydroxide and trifluoroacetate counter-anions were cast in thin films and studied using X-ray transmission spectroscopy. Quantum-chemical calculations were used to interpret the observed spectra. At the carbon K-edge, a distinct pre-edge absorption band can be attributed to transitions in which electrons are promoted from C1s orbitals to the lowest unoccupied molecular orbitals, which are delocalized orbitals with strong antibonding (Sn-C σ*) character. At higher energies, the most prominent resonant transitions involve C-C and C-H σ* valence states and Rydberg (3s and 3p) states. In the solid state, the onset of continuum ionization is shifted by ∼5 eV to lower energy with respect to the gas phase, due to the electrostatic effect of the counterions. The O K-edge also shows a pre-edge absorption, but it is devoid of any specific features, because there are many transitions from the different O1s orbitals to a large number of vacant orbitals. In the gas phase, formation of the parent [(BuSn)12O14(OH)6]3+ radical ion is not observed at the C K-edge nor at the O K-edge, because the loss of a butyl group from this species is very efficient. We do observe a number of triply charged photofragment ions, some of which have lost up to 5 butyl groups. Structures of these species are proposed based on quantum-chemical calculations, and pathways of formation are discussed. Our results provide insight into the electronic structure of alkyltin-oxo cages, which is a prerequisite for understanding their response to EUV photons and their performance as EUV photoresists.
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Affiliation(s)
- Jarich Haitjema
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Sonia Castellanos
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Olivier Lugier
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Ivan Bespalov
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Rebecka Lindblad
- Department of Physics, Lund University, 22100 Lund, Sweden
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Straße 3, 79104 Freiburg, Germany
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Straße 3, 79104 Freiburg, Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Straße 3, 79104 Freiburg, Germany
| | - Ronnie Hoekstra
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
- Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.
| | | | | | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.
- University College Groningen, University of Groningen, Hoendiepskade 23/24, 9718 BG Groningen, The Netherlands
| | - Albert M Brouwer
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
- University of Amsterdam, van't Hoff Institute for Molecular Sciences, P.O. Box 94157, 1090 GD Amsterdam, The Netherlands
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4
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Carlini L, Montorsi F, Wu Y, Bolognesi P, Borrego-Varillas R, Casavola AR, Castrovilli MC, Chiarinelli J, Mocci D, Vismarra F, Lucchini M, Nisoli M, Mukamel S, Garavelli M, Richter R, Nenov A, Avaldi L. Electron and ion spectroscopy of azobenzene in the valence and core shells. J Chem Phys 2023; 158:054201. [PMID: 36754795 DOI: 10.1063/5.0133824] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
Azobenzene is a prototype and a building block of a class of molecules of extreme technological interest as molecular photo-switches. We present a joint experimental and theoretical study of its response to irradiation with light across the UV to x-ray spectrum. The study of valence and inner shell photo-ionization and excitation processes combined with measurement of valence photoelectron-photoion coincidence and mass spectra across the core thresholds provides a detailed insight into the site- and state-selected photo-induced processes. Photo-ionization and excitation measurements are interpreted via the multi-configurational restricted active space self-consistent field method corrected by second order perturbation theory. Using static modeling, we demonstrate that the carbon and nitrogen K edges of azobenzene are suitable candidates for exploring its photoinduced dynamics thanks to the transient signals appearing in background-free regions of the NEXAFS and XPS.
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Affiliation(s)
- L Carlini
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - F Montorsi
- Dipartimento di Chimica Industriale, Università Degli Studi di Bologna, Bologna, Italy
| | - Y Wu
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - P Bolognesi
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - R Borrego-Varillas
- CNR-Istituto di Fotonica e Nanotecnologie, CNR-IFN, Piazza Leonardo da Vinci 32, Milano, Italy
| | - A R Casavola
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - M C Castrovilli
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - J Chiarinelli
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - D Mocci
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - F Vismarra
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - M Lucchini
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - M Nisoli
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - S Mukamel
- Department of Chemistry and Department of Physics and Astronomy, University of California, Irvine, California 92697, USA
| | - M Garavelli
- Dipartimento di Chimica Industriale, Università Degli Studi di Bologna, Bologna, Italy
| | - R Richter
- Elettra Sincrotrone Trieste, Area Science Park, Basovizza, Italy
| | - A Nenov
- Dipartimento di Chimica Industriale, Università Degli Studi di Bologna, Bologna, Italy
| | - L Avaldi
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
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5
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Liu M, Abdelmouleh M, Giuliani A, Nahon L, Poully JC. UV-VUV Photofragmentation Spectroscopy of Isolated Neutral Fragile Macromolecules: A Proof-of-Principle Based on a Deprotonated Vancomycin-Peptide Noncovalent Complex. J Phys Chem A 2022; 126:9042-9050. [PMID: 36442079 DOI: 10.1021/acs.jpca.2c07744] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The gas phase offers the possibility to analyze organic molecules by ultraviolet-vacuum ultraviolet (UV-VUV) spectroscopy without any solvent effect or limitation in terms of spectral range due to absorption by the solvent. Up to now, the size and chemical composition of neutral molecular systems under study have been limited by the use of vaporization methods based on thermal heating. Soft sources of gas-phase thermolabile molecular systems such as electrospray or matrix-assisted laser desorption ionization are appealing alternatives to heating-based techniques, but they lead to the production of ions. In such cases, UV-VUV action spectroscopy is then the method of choice to study the electronic structure and corresponding photodynamics of these gas-phase molecular ions. However, previous investigations have shown that the UV-VUV action spectrum of a given molecular ion depends on the charge state, which in many cases might be a caveat. Here, by means of synchrotron radiation coupled to mass spectrometry and through the test case of the glycopeptide antibiotic vancomycin noncovalently bound to a deprotonated small peptide, we show that the UV-VUV photofragmentation spectrum of neutral thermally fragile organic molecules can be obtained via charge-tagging action spectroscopy.
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Affiliation(s)
- Min Liu
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070Caen, France
| | - Marwa Abdelmouleh
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070Caen, France
| | - Alexandre Giuliani
- SOLEIL, l'Orme des Merisiers, St. Aubin, BP48, 91192Gif sur Yvette, Cedex, France.,INRAE, UAR1008, Transform Department, Rue de la Géraudière, BP 71627, 44316Nantes, France
| | - Laurent Nahon
- SOLEIL, l'Orme des Merisiers, St. Aubin, BP48, 91192Gif sur Yvette, Cedex, France
| | - Jean-Christophe Poully
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070Caen, France
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6
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Bolognesi P, Avaldi L. Photoelectron-photoion(s) coincidence studies of molecules of biological interest. Phys Chem Chem Phys 2022; 24:22356-22370. [PMID: 36124990 DOI: 10.1039/d2cp03079a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Photoelectron-photoion(s) coincidence, PEPICO, experiments with synchrotron radiation have become one of the most powerful tools to investigate dissociative photoionization thanks to their selectivity. In this paper their application to the study of molecular species of biological interest in the gas phase is reviewed. Some applications of PEPICO to the study of potential radiosensitizers, amino acids and small peptides and opportunities offered by the advent of novel methods for the production of beams of these molecules are discussed.
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Affiliation(s)
- P Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 00015 Monterotondo Scalo, Italy.
| | - L Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 00015 Monterotondo Scalo, Italy.
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7
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Wang X, Rathnachalam S, Zamudio-Bayer V, Bijlsma K, Li W, Hoekstra R, Kubin M, Timm M, von Issendorff B, Lau JT, Faraji S, Schlathölter T. Intramolecular hydrogen transfer in DNA induced by site-selective resonant core excitation. Phys Chem Chem Phys 2022; 24:7815-7825. [PMID: 35297440 PMCID: PMC8966622 DOI: 10.1039/d1cp05741c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present experimental evidence for soft X-ray induced intramolecular hydrogen transfer in the protonated synthetic tri-oligonucleotide d($^{\mbox{\footnotesize{F}}}$UAG) in the gas-phase. The trinucleotide cations were stored in a cryogenic ion trap...
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Affiliation(s)
- Xin Wang
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Sivasudhan Rathnachalam
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
| | - Klaas Bijlsma
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Wen Li
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Markus Kubin
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
| | | | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
- Physikalisches Institut, Universität Freiburg, Freiburg, Germany
| | - Shirin Faraji
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
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8
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Li W, Kavatsyuk O, Douma W, Wang X, Hoekstra R, Mayer D, Robinson MS, Gühr M, Lalande M, Abdelmouleh M, Ryszka M, Poully JC, Schlathölter T. Multiple valence electron detachment following Auger decay of inner-shell vacancies in gas-phase DNA. Chem Sci 2021; 12:13177-13186. [PMID: 34745549 PMCID: PMC8513815 DOI: 10.1039/d1sc02885e] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Accepted: 09/10/2021] [Indexed: 01/05/2023] Open
Abstract
We have studied soft X-ray photoabsorption in the doubly deprotonated gas-phase oligonucleotide [dTGGGGT–2H]2−. The dominating decay mechanism of the X-ray induced inner shell vacancy was found to be Auger decay with detachment of at least three electrons, leading to charge reversal of the anionic precursor and the formation of positively charged photofragment ions. The same process is observed in heavy ion (12 MeV C4+) collisions with [dTGGGGT–2H]2− where inner shell vacancies are generated as well, but with smaller probability. Auger decay of a single K-vacancy in DNA, followed by detachment of three or more low energy electrons instead of a single high energy electron has profound implications for DNA damage and damage modelling. The production of three low kinetic energy electrons with short mean free path instead of one high kinetic energy electron with long mean free path implies that electron-induced DNA damage will be much more localized around the initial K-shell vacancy. The fragmentation channels, triggered by triple electron detachment Auger decay are predominantly related to protonated guanine base loss and even loss of protonated guanine dimers is tentatively observed. The fragmentation is not a consequence of the initial K-shell vacancy but purely due to multiple detachment of valence electrons, as a very similar positive ion fragmentation pattern is observed in femtosecond laser-induced dissociation experiments. A K-shell vacancy in DNA that is induced by a (therapeutically relevant) soft X-ray of MeV carbon ion, decays by Auger processes accompanied by emission of at least 3 low energy electrons.![]()
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Affiliation(s)
- Wen Li
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Oksana Kavatsyuk
- University College Groningen Hoendiep 23/24 9718BG Groningen Netherlands
| | - Wessel Douma
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Xin Wang
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Ronnie Hoekstra
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Dennis Mayer
- Universität Potsdam, Institut für Physik und Astronomie 14476 Potsdam Germany
| | - Matthew S Robinson
- Universität Potsdam, Institut für Physik und Astronomie 14476 Potsdam Germany.,Centre for Free Electron Lasers (CFEL), DESY Notkestraße 85 22607 Hamburg Germany
| | - Markus Gühr
- Universität Potsdam, Institut für Physik und Astronomie 14476 Potsdam Germany
| | - Mathieu Lalande
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Marwa Abdelmouleh
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Michal Ryszka
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Jean Christophe Poully
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Thomas Schlathölter
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
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9
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Dörner S, Schwob L, Atak K, Schubert K, Boll R, Schlathölter T, Timm M, Bülow C, Zamudio-Bayer V, von Issendorff B, Lau JT, Techert S, Bari S. Probing Structural Information of Gas-Phase Peptides by Near-Edge X-ray Absorption Mass Spectrometry. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2021; 32:670-684. [PMID: 33573373 DOI: 10.1021/jasms.0c00390] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Near-edge X-ray absorption mass spectrometry (NEXAMS) is an action-spectroscopy technique of growing interest for investigations into the spatial and electronic structure of biomolecules. It has been used successfully to give insights into different aspects of the photodissociation of peptides and to probe the conformation of proteins. It is a current question whether the fragmentation pathways are sensitive toward effects of conformational isomerism, tautomerism, and intramolecular interactions in gas-phase peptides. To address this issue, we studied the cationic fragments of cryogenically cooled gas-phase leucine enkephalin ([LeuEnk+H]+) and methionine enkephalin ([MetEnk+H]+) produced upon soft X-ray photon absorption at the carbon, nitrogen, and oxygen K-edges. The interpretation of the experimental ion yield spectra was supported by density-functional theory and restricted-open-shell configuration interaction with singles (DFT/ROCIS) calculations. The analysis revealed several effects that could not be rationalized based on the peptide's amino acid sequences alone. Clear differences between the partial ion yields measured for both peptides upon C 1s → π*(C═C) excitations in the aromatic amino acid side chains give evidence for a sulfur-aromatic interaction between the methionine and phenylalanine side chain of [MetEnk+H]+. Furthermore, a peak associated with N 1s → π*(C═N) transitions, linked to a tautomeric keto-to-enol conversion of peptide bonds, was only present in the photon energy resolved ion yield spectra of [MetEnk+H]+.
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Affiliation(s)
- Simon Dörner
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Rebecca Boll
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
- European XFEL, Holzkoppel 4, 22869 Schenefeld, Germany
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Martin Timm
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Christine Bülow
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Vicente Zamudio-Bayer
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Strasse 3, 79104 Freiburg, Germany
| | - J Tobias Lau
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Strasse 3, 79104 Freiburg, Germany
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
- Institut für Röntgenphysik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
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10
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Schubert K, Guo M, Atak K, Dörner S, Bülow C, von Issendorff B, Klumpp S, Lau JT, Miedema PS, Schlathölter T, Techert S, Timm M, Wang X, Zamudio-Bayer V, Schwob L, Bari S. The electronic structure and deexcitation pathways of an isolated metalloporphyrin ion resolved by metal L-edge spectroscopy. Chem Sci 2021; 12:3966-3976. [PMID: 34163667 PMCID: PMC8179464 DOI: 10.1039/d0sc06591a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Accepted: 01/23/2021] [Indexed: 11/21/2022] Open
Abstract
The local electronic structure of the metal-active site and the deexcitation pathways of metalloporphyrins are crucial for numerous applications but difficult to access by commonly employed techniques. Here, we applied near-edge X-ray absorption mass spectrometry and quantum-mechanical restricted active space calculations to investigate the electronic structure of the metal-active site of the isolated cobalt(iii) protoporphyrin IX cation (CoPPIX+) and its deexcitation pathways upon resonant absorption at the cobalt L-edge. The experiments were carried out in the gas phase, thus allowing for control over the chemical state and molecular environment of the metalloporphyrin. The obtained mass spectra reveal that resonant excitations of CoPPIX+ at the cobalt L3-edge lead predominantly to the formation of the intact radical dication and doubly charged fragments through losses of charged and neutral side chains from the macrocycle. The comparison between experiment and theory shows that CoPPIX+ is in a 3A2g triplet ground state and that competing excitations to metal-centred non-bonding and antibonding σ* molecular orbitals lead to distinct deexcitation pathways.
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Affiliation(s)
- Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Meiyuan Guo
- Division of Chemical Physics, Chemical Center, Lund University SE-221 00 Lund Sweden
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg 79104 Freiburg Germany
| | - Stephan Klumpp
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg 79104 Freiburg Germany
| | | | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen 9747 AG Groningen The Netherlands
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
- Institut für Röntgenphysik, Georg-August-Universität Göttingen 37077 Göttingen Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Xin Wang
- Zernike Institute for Advanced Materials, University of Groningen 9747 AG Groningen The Netherlands
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
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11
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Schwob L, Dörner S, Atak K, Schubert K, Timm M, Bülow C, Zamudio-Bayer V, von Issendorff B, Lau JT, Techert S, Bari S. Site-Selective Dissociation upon Sulfur L-Edge X-ray Absorption in a Gas-Phase Protonated Peptide. J Phys Chem Lett 2020; 11:1215-1221. [PMID: 31978303 DOI: 10.1021/acs.jpclett.0c00041] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Site-selective dissociation induced by core photoexcitation of biomolecules is of key importance for the understanding of radiation damage processes and dynamics and for its promising use as "chemical scissors" in various applications. However, identifying products of site-selective dissociation in large molecules is challenging at the carbon, nitrogen, and oxygen edges because of the high recurrence of these atoms and related chemical groups. In this paper, we present the observation of site-selective dissociation at the sulfur L-edge in the gas-phase peptide methionine enkephalin, which contains only a single sulfur atom. Near-edge X-ray absorption mass spectrometry has revealed that the resonant S 2p → σ*C-S excitation of the sulfur contained in the methionine side chain leads to site-selective dissociation, which is not the case after core ionization above the sulfur L-edge. The prospects of such results for the study of charge dynamics in biomolecular systems are discussed.
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Affiliation(s)
- Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Bernd von Issendorff
- Physikalisches Institut , Universität Freiburg , Hermann-Herder-Straße 3 , 79104 Freiburg , Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
- Physikalisches Institut , Universität Freiburg , Hermann-Herder-Straße 3 , 79104 Freiburg , Germany
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
- Institute of X-ray Physics , University of Göttingen , Friedrich-Hund-Platz 1 , 37077 Göttingen , Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
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12
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Milosavljević AR, Jänkälä K, Ranković ML, Canon F, Bozek J, Nicolas C, Giuliani A. Oxygen K-shell spectroscopy of isolated progressively solvated peptide. Phys Chem Chem Phys 2020; 22:12909-12917. [DOI: 10.1039/d0cp00994f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
X-ray spectroscopy of an isolated controllably hydrated peptide: core excitation of the first solvation shell enhances peptide backbone fragmentation.
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Affiliation(s)
| | - Kari Jänkälä
- Nano and Molecular Systems Research Unit
- University of Oulu
- 90014 Oulu
- Finland
| | | | - Francis Canon
- Centre des Sciences du Goût et de l’Alimentation
- CNRS
- INRAE
- Université de Bourgogne Franche-Comté
- France
| | - John Bozek
- SOLEIL, l’Orme des Merisiers
- 91192 Gif sur Yvette Cedex
- France
| | | | - Alexandre Giuliani
- SOLEIL, l’Orme des Merisiers
- 91192 Gif sur Yvette Cedex
- France
- INRAE
- UAR1008
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13
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Lalande M, Schwob L, Vizcaino V, Chirot F, Dugourd P, Schlathölter T, Poully J. Direct Radiation Effects on the Structure and Stability of Collagen and Other Proteins. Chembiochem 2019; 20:2972-2980. [DOI: 10.1002/cbic.201900202] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2019] [Revised: 05/28/2019] [Indexed: 12/11/2022]
Affiliation(s)
- Mathieu Lalande
- CIMAP LaboratoryUMR 6252CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen France
| | - Lucas Schwob
- Helmholtz AssociationDeutsches Elektronen-Synchrotron (DESY) Notkestrasse 85 22607 Hamburg Germany
| | - Violaine Vizcaino
- CIMAP LaboratoryUMR 6252CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen France
| | - Fabien Chirot
- Université Claude Bernard Lyon 1ENS de LyonUMR 5280 Institut des Sciences Analytiques 5, rue de la Doua 69100 Villeurbanne France
| | - Philippe Dugourd
- Université Claude Bernard Lyon 1CNRSUMR 5306 Institut Lumière Matière 10 rue Ada Byron 69622 Villeurbanne Cedex France
| | - Thomas Schlathölter
- Zernike Institute for Advanced MaterialsUniversity of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
| | - Jean‐Christophe Poully
- CIMAP LaboratoryUMR 6252CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen France
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14
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Tenorio BNC, Moitra T, Nascimento MAC, Rocha AB, Coriani S. Molecular inner-shell photoabsorption/photoionization cross sections at core-valence-separated coupled cluster level: Theory and examples. J Chem Phys 2019; 150:224104. [PMID: 31202254 DOI: 10.1063/1.5096777] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Oxygen, nitrogen, and carbon K-shell photoabsorption and photoionization cross sections have been calculated within core-valence-separated coupled cluster (CC) linear response theory for a number of molecular systems, namely, water, ammonia, ethylene, carbon dioxide, acetaldehyde, furan, and pyrrole. The cross sections below and above the K-edge core ionization thresholds were obtained, on the same footing, from L2 basis set calculations of the discrete electronic pseudospectrum yielded by an asymmetric-Lanczos-based formulation of CC linear response theory at the CC singles and doubles (CCSD) and CC singles and approximate doubles (CC2) levels. An analytic continuation procedure for both discrete and continuum cross sections as well as a Stieltjes imaging procedure for the photoionization cross section were applied and the results critically compared.
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Affiliation(s)
- Bruno Nunes Cabral Tenorio
- Instituto de Química, Universidade Federal do Rio de Janeiro, UFRJ, Av. Athos da Silveira Ramos, 149, Rio de Janeiro, RJ 21941-909, Brazil
| | - Torsha Moitra
- DTU Chemistry, Technical University of Denmark, Kemitorvet, Building 207, DK-2800 Kongens Lyngby, Denmark
| | - Marco Antonio Chaer Nascimento
- Instituto de Química, Universidade Federal do Rio de Janeiro, UFRJ, Av. Athos da Silveira Ramos, 149, Rio de Janeiro, RJ 21941-909, Brazil
| | - Alexandre Braga Rocha
- Instituto de Química, Universidade Federal do Rio de Janeiro, UFRJ, Av. Athos da Silveira Ramos, 149, Rio de Janeiro, RJ 21941-909, Brazil
| | - Sonia Coriani
- DTU Chemistry, Technical University of Denmark, Kemitorvet, Building 207, DK-2800 Kongens Lyngby, Denmark
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15
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Weinhardt L, Benkert A, Meyer F, Blum M, Hauschild D, Wilks RG, Bär M, Yang W, Zharnikov M, Reinert F, Heske C. Local electronic structure of the peptide bond probed by resonant inelastic soft X-ray scattering. Phys Chem Chem Phys 2019; 21:13207-13214. [PMID: 31179459 DOI: 10.1039/c9cp02481f] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Soft X-ray emission spectroscopy and RIXS are used to determine the local electronic structure of the peptide bond.
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16
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Egorov D, Bari S, Boll R, Dörner S, Deinert S, Techert S, Hoekstra R, Zamudio-Bayer V, Lindblad R, Bülow C, Timm M, von Issendorff B, Lau JT, Schlathölter T. Near-Edge Soft X-ray Absorption Mass Spectrometry of Protonated Melittin. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2018; 29:2138-2151. [PMID: 30047073 DOI: 10.1007/s13361-018-2035-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2018] [Revised: 07/10/2018] [Accepted: 07/10/2018] [Indexed: 06/08/2023]
Abstract
We have investigated the photoionization and photofragmentation yields of gas-phase multiply protonated melittin cations for photon energies at the K-shell absorption edges of carbon, nitrogen, and oxygen. Two similar experimental approaches were employed. In both experiments, mass selected [melittin+qH]q+ (q=2-4) ions were accumulated in radiofrequency ion traps. The trap content was exposed to intense beams of monochromatic soft X-ray photons from synchrotron beamlines and photoproducts were analyzed by means of time-of-flight mass spectrometry. Mass spectra were recorded for fixed photon energies, and partial ion yield spectra were recorded as a function of photon energy. The combination of mass spectrometry and soft X-ray spectroscopy allows for a direct correlation of protein electronic structure with various photoionization channels. Non-dissociative single and double ionization are used as a reference. The contribution of both channels to various backbone scission channels is quantified and related to activation energies and protonation sites. Soft X-ray absorption mass spectrometry combines fast energy deposition with single and double ionization and could complement established activation techniques. Graphical Abstract ᅟ.
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Affiliation(s)
- Dmitrii Egorov
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG, Groningen, Netherlands
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Rebecca Boll
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Sascha Deinert
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
- Institute of X-ray Physics, University of Göttingen, Friedrich-Hund-Platz 1, 37077, Göttingen, Germany
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG, Groningen, Netherlands
| | - Vicente Zamudio-Bayer
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Physikalisches Institut, Universität Freiburg, Hermann-Herder-Str. 3, 79104, Freiburg, Germany
| | - Rebecka Lindblad
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Synkrotronljusfysik, Lunds Universitet, 22100, Lund, Sweden
| | - Christine Bülow
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623, Berlin, Germany
| | - Martin Timm
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623, Berlin, Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Universität Freiburg, Hermann-Herder-Str. 3, 79104, Freiburg, Germany
| | - J Tobias Lau
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG, Groningen, Netherlands.
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17
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Tenorio BNC, Oliveira RR, Nascimento MAC, Rocha AB. Coupled Cluster and Time-Dependent Density Functional Theory Description of Inner Shell Photoabsorption Cross Sections of Molecules. J Chem Theory Comput 2018; 14:5324-5338. [DOI: 10.1021/acs.jctc.8b00375] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Bruno Nunes Cabral Tenorio
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
| | - Ricardo Rodrigues Oliveira
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
| | - Marco Antonio Chaer Nascimento
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
| | - Alexandre Braga Rocha
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
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18
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Bari S, Egorov D, Jansen TLC, Boll R, Hoekstra R, Techert S, Zamudio‐Bayer V, Bülow C, Lindblad R, Leistner G, Ławicki A, Hirsch K, Miedema PS, von Issendorff B, Lau JT, Schlathölter T. Soft X-ray Spectroscopy as a Probe for Gas-Phase Protein Structure: Electron Impact Ionization from Within. Chemistry 2018; 24:7631-7636. [PMID: 29637635 PMCID: PMC6001477 DOI: 10.1002/chem.201801440] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2018] [Revised: 04/03/2018] [Indexed: 11/10/2022]
Abstract
Preservation of protein conformation upon transfer into the gas phase is key for structure determination of free single molecules, for example using X-ray free-electron lasers. In the gas phase, the helicity of melittin decreases strongly as the protein's protonation state increases. We demonstrate the sensitivity of soft X-ray spectroscopy to the gas-phase structure of melittin cations ([melittin+qH]q+ , q=2-4) in a cryogenic linear radiofrequency ion trap. With increasing helicity, we observe a decrease of the dominating carbon 1 s-π* transition in the amide C=O bonds for non-dissociative single ionization and an increase for non-dissociative double ionization. As the underlying mechanism we identify inelastic electron scattering. Using an independent atom model, we show that the more compact nature of the helical protein conformation substantially increases the probability for off-site intramolecular ionization by inelastic Auger electron scattering.
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Affiliation(s)
| | - Dmitrii Egorov
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | - Thomas L. C. Jansen
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | | | - Ronnie Hoekstra
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | - Simone Techert
- DESYNotkestr. 8522607HamburgGermany
- Institute of X-ray PhysicsUniversity of Göttingen37077GöttingenGermany
| | - Vicente Zamudio‐Bayer
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Physikalisches InstitutUniversität FreiburgHermann-Herder-Straße 379104FreiburgGermany
| | - Christine Bülow
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Institut für Optik und Atomare PhysikTechnische Universität Berlin10623BerlinGermany
| | - Rebecka Lindblad
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Department of PhysicsLund University22100LundSweden
| | - Georg Leistner
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Institut für Optik und Atomare PhysikTechnische Universität Berlin10623BerlinGermany
| | - Arkadiusz Ławicki
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
| | - Konstantin Hirsch
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
| | - Piter S. Miedema
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
| | - Bernd von Issendorff
- Physikalisches InstitutUniversität FreiburgHermann-Herder-Straße 379104FreiburgGermany
| | - J. Tobias Lau
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Physikalisches InstitutUniversität FreiburgHermann-Herder-Straße 379104FreiburgGermany
| | - Thomas Schlathölter
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
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19
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Schwob L, Lalande M, Chesnel JY, Domaracka A, Huber BA, Maclot S, Poully JC, Rangama J, Rousseau P, Vizcaino V, Adoui L, Méry A. A tandem mass spectrometer for crossed-beam irradiation of mass-selected molecular systems by keV atomic ions. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2018; 89:043104. [PMID: 29716322 DOI: 10.1063/1.5023182] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
In the present paper, we describe a new home-built crossed-beam apparatus devoted to ion-induced ionization and fragmentation of isolated biologically relevant molecular systems. The biomolecular ions are produced by an electrospray ionization source, mass-over-charge selected, accumulated in a 3D ion trap, and then guided to the extraction region of an orthogonal time-of-flight mass spectrometer. Here, the target molecular ions interact with a keV atomic ion beam produced by an electron cyclotron resonance ion source. Cationic products from the collision are detected on a position sensitive detector and analyzed by time-of-flight mass spectrometry. A detailed description of the operation of the setup is given, and early results from irradiation of a protonated pentapeptide (leucine-enkephalin) by a 7 keV He+ ion beam are presented as a proof-of-principle.
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Affiliation(s)
- Lucas Schwob
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Mathieu Lalande
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Jean-Yves Chesnel
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Alicja Domaracka
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Bernd A Huber
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Sylvain Maclot
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | | | - Jimmy Rangama
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Patrick Rousseau
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Violaine Vizcaino
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Lamri Adoui
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Alain Méry
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
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20
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Schwob L, Lalande M, Rangama J, Egorov D, Hoekstra R, Pandey R, Eden S, Schlathölter T, Vizcaino V, Poully JC. Single-photon absorption of isolated collagen mimetic peptides and triple-helix models in the VUV-X energy range. Phys Chem Chem Phys 2017; 19:18321-18329. [DOI: 10.1039/c7cp02527k] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
By monitoring ionization and fragmentation after single-photon absorption, we show that an isolated collagen triple helix model is stabilized by proline hydroxylation.
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Affiliation(s)
- Lucas Schwob
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Mathieu Lalande
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Jimmy Rangama
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Dmitrii Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- Nijenborgh 4
- 9747AG Groningen
- The Netherlands
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- Nijenborgh 4
- 9747AG Groningen
- The Netherlands
| | - Rahul Pandey
- Dept. of Physical Sciences
- The Open University
- Walton Hall
- Milton Keynes
- UK
| | - Samuel Eden
- Dept. of Physical Sciences
- The Open University
- Walton Hall
- Milton Keynes
- UK
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- Nijenborgh 4
- 9747AG Groningen
- The Netherlands
| | - Violaine Vizcaino
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
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21
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Schwob L, Lalande M, Egorov D, Rangama J, Hoekstra R, Vizcaino V, Schlathölter T, Poully JC. Radical-driven processes within a peptidic sequence of type I collagen upon single-photon ionisation in the gas phase. Phys Chem Chem Phys 2017; 19:22895-22904. [DOI: 10.1039/c7cp03376a] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Radical creation after single-photon ionisation of collagen peptides induces the loss of molecules from amino-acid residue side-chains.
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Affiliation(s)
- Lucas Schwob
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Mathieu Lalande
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Dmitrii Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - Jimmy Rangama
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - Violaine Vizcaino
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
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22
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Egorov D, Hoekstra R, Schlathölter T. A comparative VUV absorption mass-spectroscopy study on protonated peptides of different size. Phys Chem Chem Phys 2017; 19:20608-20618. [DOI: 10.1039/c7cp03203j] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
The response of gas-phase peptides upon vacuum ultraviolet absorption depends strongly on the peptide size.
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Affiliation(s)
- D. Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - R. Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - T. Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
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23
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Schlathölter T, Reitsma G, Egorov D, Gonzalez-Magaña O, Bari S, Boschman L, Bodewits E, Schnorr K, Schmid G, Schröter CD, Moshammer R, Hoekstra R. Multiple Ionization of Free Ubiquitin Molecular Ions in Extreme Ultraviolet Free-Electron Laser Pulses. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201605335] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Thomas Schlathölter
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Geert Reitsma
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
- Max-Born-Institute; Max Born Strasse 2A 12489 Berlin Germany
| | - Dmitrii Egorov
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Olmo Gonzalez-Magaña
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Sadia Bari
- European XFEL GmbH; Holzkoppel 4 22869 Schenefeld Germany
- DESY; Notkestraße 85 22607 Hamburg Germany
| | - Leon Boschman
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
- Kapteyn Institute; Landleven 12 9747 AD Groningen The Netherlands
| | - Erwin Bodewits
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Kirsten Schnorr
- Max-Planck-Institut für Kernphysik; Saupfercheckweg 1 69117 Heidelberg Germany
| | - Georg Schmid
- Max-Planck-Institut für Kernphysik; Saupfercheckweg 1 69117 Heidelberg Germany
| | | | - Robert Moshammer
- Max-Planck-Institut für Kernphysik; Saupfercheckweg 1 69117 Heidelberg Germany
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
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24
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Schlathölter T, Reitsma G, Egorov D, Gonzalez-Magaña O, Bari S, Boschman L, Bodewits E, Schnorr K, Schmid G, Schröter CD, Moshammer R, Hoekstra R. Multiple Ionization of Free Ubiquitin Molecular Ions in Extreme Ultraviolet Free-Electron Laser Pulses. Angew Chem Int Ed Engl 2016; 55:10741-5. [DOI: 10.1002/anie.201605335] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Thomas Schlathölter
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Geert Reitsma
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
- Max-Born-Institute; Max Born Strasse 2A 12489 Berlin Germany
| | - Dmitrii Egorov
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Olmo Gonzalez-Magaña
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Sadia Bari
- European XFEL GmbH; Holzkoppel 4 22869 Schenefeld Germany
- DESY; Notkestraße 85 22607 Hamburg Germany
| | - Leon Boschman
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
- Kapteyn Institute; Landleven 12 9747 AD Groningen The Netherlands
| | - Erwin Bodewits
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Kirsten Schnorr
- Max-Planck-Institut für Kernphysik; Saupfercheckweg 1 69117 Heidelberg Germany
| | - Georg Schmid
- Max-Planck-Institut für Kernphysik; Saupfercheckweg 1 69117 Heidelberg Germany
| | | | - Robert Moshammer
- Max-Planck-Institut für Kernphysik; Saupfercheckweg 1 69117 Heidelberg Germany
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials; University of Groningen; Nijenborgh 4 9747 AG Groningen The Netherlands
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25
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Egorov D, Schwob L, Lalande M, Hoekstra R, Schlathölter T. Near edge X-ray absorption mass spectrometry of gas phase proteins: the influence of protein size. Phys Chem Chem Phys 2016; 18:26213-26223. [DOI: 10.1039/c6cp05254a] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The response of gas-phase proteins upon soft X-ray absorption depends strongly on the proteins size.
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Affiliation(s)
- D. Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- Netherlands
| | - L. Schwob
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - M. Lalande
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - R. Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- Netherlands
| | - T. Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- Netherlands
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26
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Lin YS, Tsai CC, Lin HR, Hsieh TL, Chen JL, Hu WP, Ni CK, Liu CL. Highly Selective Dissociation of a Peptide Bond Following Excitation of Core Electrons. J Phys Chem A 2015; 119:6195-202. [PMID: 25988354 DOI: 10.1021/acs.jpca.5b04415] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The controlled breaking of a specific chemical bond with photons in complex molecules remains a major challenge in chemistry. In principle, using the K-edge absorption of a particular atomic element, one might excite selectively a specific atomic entity in a molecule. We report here highly selective dissociation of the peptide bonds in N-methylformamide and N-methylacetamide on tuning the X-ray wavelength to the K-edge absorption of the atoms connected to (or near) the peptide bond. The high selectivity (56-71%) of this cleavage arises from the large energy shift of X-ray absorption, a large overlap of the 1s orbital and the valence π* orbital that is highly localized on a peptide bond with antibonding character, and the relatively low bond energy of the peptide bonds. These characteristics indicate that the high selectivity on bond dissociation following core excitation could be a general feature for molecules containing peptide bonds.
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Affiliation(s)
- Yi-Shiue Lin
- †Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan.,‡Institute of Atomic and Molecular Sciences, Academia Sinica, P.O. Box 23-166, Taipei 10617, Taiwan
| | - Cheng-Cheng Tsai
- ⊥Department of Chemistry and Biochemistry, National Chung Cheng University, Chia-Yi 62102, Taiwan
| | - Huei-Ru Lin
- †Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan.,‡Institute of Atomic and Molecular Sciences, Academia Sinica, P.O. Box 23-166, Taipei 10617, Taiwan.,§Department of Applied Chemistry, National Chiao Tung University, Hsinchu 30010, Taiwan
| | - Tsung-Lin Hsieh
- †Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan.,‡Institute of Atomic and Molecular Sciences, Academia Sinica, P.O. Box 23-166, Taipei 10617, Taiwan
| | - Jien-Lian Chen
- ‡Institute of Atomic and Molecular Sciences, Academia Sinica, P.O. Box 23-166, Taipei 10617, Taiwan.,⊥Department of Chemistry and Biochemistry, National Chung Cheng University, Chia-Yi 62102, Taiwan
| | - Wei-Ping Hu
- ⊥Department of Chemistry and Biochemistry, National Chung Cheng University, Chia-Yi 62102, Taiwan
| | - Chi-Kung Ni
- ‡Institute of Atomic and Molecular Sciences, Academia Sinica, P.O. Box 23-166, Taipei 10617, Taiwan.,∥Department of Chemistry, National Tsing Hua University, Hsinchu 30013, Taiwan
| | - Chen-Lin Liu
- †Scientific Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan
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27
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Daly S, Krstić M, Giuliani A, Antoine R, Nahon L, Zavras A, Khairallah GN, Bonačić-Koutecký V, Dugourd P, O'Hair RAJ. Gas-phase VUV photoionisation and photofragmentation of the silver deuteride nanocluster [Ag10D8L6]2+ (L = bis(diphenylphosphino)methane). A joint experimental and theoretical study. Phys Chem Chem Phys 2015; 17:25772-7. [DOI: 10.1039/c5cp01160d] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The VUV photoionisation and photofragmentation of a mass-selected, ligated silver deuteride nanocluster was studied.
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Affiliation(s)
- Steven Daly
- Institut Lumière Matière
- Université Claude Bernard Lyon 1
- Lyon
- France
| | - Marjan Krstić
- Center of Excellence for Science and Technology – Integration of Mediterranean region (STIM) at Interdisciplinary Center for Advanced Science and Technology (ICAST)
- University of Split
- Split
- Croatia
| | | | - Rodolphe Antoine
- Institut Lumière Matière
- Université Claude Bernard Lyon 1
- Lyon
- France
| | - Laurent Nahon
- SOLEIL
- l'Orme des Merisiers
- F-91192 Gif sur Yvette
- France
| | - Athanasios Zavras
- School of Chemistry and Bio21 Molecular Science and Biotechnology Institute
- University of Melbourne
- Parkville
- Australia
- ARC Centre of Excellence for Free Radical Chemistry and Biotechnology
| | - George N. Khairallah
- School of Chemistry and Bio21 Molecular Science and Biotechnology Institute
- University of Melbourne
- Parkville
- Australia
- ARC Centre of Excellence for Free Radical Chemistry and Biotechnology
| | - Vlasta Bonačić-Koutecký
- Center of Excellence for Science and Technology – Integration of Mediterranean region (STIM) at Interdisciplinary Center for Advanced Science and Technology (ICAST)
- University of Split
- Split
- Croatia
- Humboldt-Universität Berlin
| | - Philippe Dugourd
- Institut Lumière Matière
- Université Claude Bernard Lyon 1
- Lyon
- France
| | - Richard A. J. O'Hair
- School of Chemistry and Bio21 Molecular Science and Biotechnology Institute
- University of Melbourne
- Parkville
- Australia
- ARC Centre of Excellence for Free Radical Chemistry and Biotechnology
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28
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Giuliani A, Milosavljević AR, Canon F, Nahon L. Contribution of synchrotron radiation to photoactivation studies of biomolecular ions in the gas phase. MASS SPECTROMETRY REVIEWS 2014; 33:424-441. [PMID: 24375654 DOI: 10.1002/mas.21398] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Photon activation of ions in the visible and ultraviolet range attracts a growing interest, partly for its promising applications in tandem mass spectrometry. However, this task is not trivial, as it requires notably high brilliance photon sources. Hence, most of the work in that field has been performed using lasers. Synchrotron radiation is a source continuously tunable over a wide photon energy range and which possesses the necessary characteristics for ion activation. This review focuses on the array of applications of synchrotron radiation in photon activation of ions ranging from near UV to soft X-rays.
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Affiliation(s)
- Alexandre Giuliani
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, 91192, Gif-sur-Yvette, France; UAR1008 CEPIA, INRA, 44316, Nantes, France
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29
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Reitsma G, Boschman L, Deuzeman MJ, González-Magaña O, Hoekstra S, Cazaux S, Hoekstra R, Schlathölter T. Deexcitation dynamics of superhydrogenated polycyclic aromatic hydrocarbon cations after soft-x-ray absorption. PHYSICAL REVIEW LETTERS 2014; 113:053002. [PMID: 25126915 DOI: 10.1103/physrevlett.113.053002] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2014] [Indexed: 06/03/2023]
Abstract
We have investigated the response of superhydrogenated gas-phase coronene cations upon soft x-ray absorption. Carbon (1s)⟶π^{⋆} transitions were resonantly excited at hν=285 eV. The resulting core hole is then filled in an Auger decay process, with the excess energy being released in the form of an Auger electron. Predominantly highly excited dications are thus formed, which cool down by hydrogen emission. In superhydrogenated systems, the additional H atoms act as a buffer, quenching loss of native H atoms and molecular fragmentation. Dissociation and transition state energies for several H loss channels were computed by means of density functional theory. Using these energies as input into an Arrhenius-type cascade model, very good agreement with the experimental data is found. The results have important implications for the survival of polyaromatic hydrocarbons in the interstellar medium and reflect key aspects of graphene hydrogenation.
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Affiliation(s)
- G Reitsma
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - L Boschman
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands and Kapteyn Astronomical Institute, University of Groningen, P.O. Box 800, 9700AV Groningen, The Netherlands
| | - M J Deuzeman
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - O González-Magaña
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - S Hoekstra
- Van Swinderen Institute, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - S Cazaux
- Kapteyn Astronomical Institute, University of Groningen, P.O. Box 800, 9700AV Groningen, The Netherlands
| | - R Hoekstra
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - T Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
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30
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