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Mudryk K, Lee C, Tomaník L, Malerz S, Trinter F, Hergenhahn U, Neumark DM, Slavíček P, Bradforth S, Winter B. How Does Mg 2+(aq) Interact with ATP (aq)? Biomolecular Structure through the Lens of Liquid-Jet Photoemission Spectroscopy. J Am Chem Soc 2024; 146:16062-16075. [PMID: 38802319 PMCID: PMC11177255 DOI: 10.1021/jacs.4c03174] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Revised: 04/26/2024] [Accepted: 04/29/2024] [Indexed: 05/29/2024]
Abstract
Liquid-jet photoemission spectroscopy (LJ-PES) allows for a direct probing of electronic structure in aqueous solutions. We show the applicability of the approach to biomolecules in a complex environment, exploring site-specific information on the interaction of adenosine triphosphate in the aqueous phase (ATP(aq)) with magnesium (Mg2+(aq)), highlighting the synergy brought about by the simultaneous analysis of different regions in the photoelectron spectrum. In particular, we demonstrate intermolecular Coulombic decay (ICD) spectroscopy as a new and powerful addition to the arsenal of techniques for biomolecular structure investigation. We apply LJ-PES assisted by electronic-structure calculations to study ATP(aq) solutions with and without dissolved Mg2+. Valence photoelectron data reveal spectral changes in the phosphate and adenine features of ATP(aq) due to interactions with the divalent cation. Chemical shifts in Mg 2p, Mg 2s, P 2p, and P 2s core-level spectra as a function of the Mg2+/ATP concentration ratio are correlated to the formation of [Mg(ATP) 2]6-(aq), [MgATP]2-(aq), and [Mg2ATP](aq) complexes, demonstrating the element sensitivity of the technique to Mg2+-phosphate interactions. The most direct probe of the intermolecular interactions between ATP(aq) and Mg2+(aq) is delivered by the emerging ICD electrons following ionization of Mg 1s electrons. ICD spectra are shown to sensitively probe ligand exchange in the Mg2+-ATP(aq) coordination environment. In addition, we report and compare P 2s data from ATP(aq) and adenosine mono- and diphosphate (AMP(aq) and ADP(aq), respectively) solutions, probing the electronic structure of the phosphate chain and the local environment of individual phosphate units in ATP(aq). Our results provide a comprehensive view of the electronic structure of ATP(aq) and Mg2+-ATP(aq) complexes relevant to phosphorylation and dephosphorylation reactions that are central to bioenergetics in living organisms.
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Affiliation(s)
- Karen Mudryk
- Fritz-Haber-Institut
der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany
| | - Chin Lee
- Fritz-Haber-Institut
der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany
- Department
of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical
Sciences Division, Lawrence Berkeley National
Laboratory, Berkeley, California 94720, United States
| | - Lukáš Tomaník
- Department
of Physical Chemistry, University of Chemistry
and Technology, Prague, Technická 5, Prague 6 16628, Czech Republic
| | - Sebastian Malerz
- Fritz-Haber-Institut
der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany
| | - Florian Trinter
- Fritz-Haber-Institut
der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany
- Institut
für Kernphysik, Goethe-Universität
Frankfurt, Max-von-Laue-Straße
1, 60438 Frankfurt
am Main, Germany
| | - Uwe Hergenhahn
- Fritz-Haber-Institut
der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany
| | - Daniel M. Neumark
- Department
of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical
Sciences Division, Lawrence Berkeley National
Laboratory, Berkeley, California 94720, United States
| | - Petr Slavíček
- Department
of Physical Chemistry, University of Chemistry
and Technology, Prague, Technická 5, Prague 6 16628, Czech Republic
| | - Stephen Bradforth
- Department
of Chemistry, University of Southern California, Los Angeles, California 90089, United States
| | - Bernd Winter
- Fritz-Haber-Institut
der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany
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Hilal S, Melnik M, Ismagilov A, Tsypkin A, Kozlov S. Determination of plasma properties in liquid jets through time-resolved experiments on third harmonic reflection dynamics. OPTICS LETTERS 2024; 49:2990-2993. [PMID: 38824310 DOI: 10.1364/ol.524582] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2024] [Accepted: 05/02/2024] [Indexed: 06/03/2024]
Abstract
The study of plasma in liquid jets represents a significant area of research encompassing plasma science, dynamics, and properties. This paper presents experimental studies on plasma formation processes in liquid jets of water, ethanol, and isopropyl based on the dynamics of the third harmonic (TH) reflection from the induced plasma. Through time-resolved experiments, and theoretical estimations using the Keldysh theory, plasma properties including density and frequency for all three media are evaluated. Isopropyl demonstrates the highest values of the characteristics mentioned. These findings hold significant potential for advancing our understanding of plasma-based radiation sources, e.g., terahertz generation.
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Mosaferi M, Céolin D, Rueff JP, Selles P, Odelius M, Björneholm O, Öhrwall G, Carniato S. Fingerprint of Dipole Moment Orientation of Water Molecules in Cu 2+ Aqueous Solution Probed by X-ray Photoelectron Spectroscopy. J Am Chem Soc 2024; 146:9836-9850. [PMID: 38545903 DOI: 10.1021/jacs.3c14570] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/11/2024]
Abstract
The electronic structure and geometrical organization of aqueous Cu2+ have been investigated by using X-ray photoelectron spectroscopy (XPS) at the Cu L-edge combined with state-of-the-art ab initio molecular dynamics and a quantum molecular approach designed to simulate the Cu 2p X-ray photoelectron spectrum. The calculations offer a comprehensive insight into the origin of the main peak and satellite features. It is illustrated how the energy drop of the Cu 3d levels (≈7 eV) following the creation of the Cu 2p core hole switches the nature of the highest singly occupied molecular orbitals (MOs) from the dominant metal to the dominant MO nature of water. It is particularly revealed how the repositioning of the Cu 3d levels induces the formation of new bonding (B) and antibonding (AB) orbitals, from which shakeup mechanisms toward the relaxed H-SOMO operate. As highlighted in this study, the appearance of the shoulder near the main peak corresponds to the characteristic signature of shakeup intraligand (1a1 → H-SOMO(1b1)) excitations in water, providing insights into the average dipole moment distribution (≈36°) of the first-shell water molecules surrounding the metal ion and its direct impact on the broadening of the satellite. It is also revealed that the main satellite at 8 eV from the main peak corresponds to (metal/1b2 → H-SOMO(1b1) of water) excitations due to a bonding/antibonding (B/AB) interaction of Cu 3d levels with the deepest valence O2p/H1s 1b2 orbitals of water. This finding underscores the sensitivity of XPS to the electronic structure and orientation of the nearest water molecules around the central ion.
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Affiliation(s)
- Mohammadreza Mosaferi
- Laboratoire de Chimie Physique, Matière et Rayonnement, UMR 7614, Sorbonne Université, 4 Place Jussieu, 75231 Paris Cedex 05, France
| | - Denis Céolin
- Synchrotron SOLEIL, L'Orme des Merisiers, BP 48, St Aubin, 91192 Gif sur Yvette, France
| | - Jean-Pascal Rueff
- Synchrotron SOLEIL, L'Orme des Merisiers, BP 48, St Aubin, 91192 Gif sur Yvette, France
| | - Patricia Selles
- Laboratoire de Chimie Physique, Matière et Rayonnement, UMR 7614, Sorbonne Université, 4 Place Jussieu, 75231 Paris Cedex 05, France
| | - Michael Odelius
- Department of Physics, Stockholm University, AlbaNova University Center, 106 91 Stockholm, Sweden
| | - Olle Björneholm
- Department of Physics and Astronomy, Uppsala University, Box 516, SE-75120 Uppsala, Sweden
| | - Gunnar Öhrwall
- MAX IV Laboratory, Lund University, Box 118, SE-22100 Lund, Sweden
| | - Stéphane Carniato
- Laboratoire de Chimie Physique, Matière et Rayonnement, UMR 7614, Sorbonne Université, 4 Place Jussieu, 75231 Paris Cedex 05, France
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Mao S, Shen T, Zhao Q, Zhu S, Han T, Jin X, Ding F, Wang H, Gao M. A range of bifunctional vermiculite-based adsorbents for simultaneous removal of Congo red and permanganate. Colloids Surf A Physicochem Eng Asp 2023. [DOI: 10.1016/j.colsurfa.2023.131280] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/14/2023]
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Abstract
Knowledge of the electronic structure of an aqueous solution is a prerequisite to understanding its chemical and biological reactivity and its response to light. One of the most direct ways of determining electronic structure is to use photoelectron spectroscopy to measure electron binding energies. Initially, photoelectron spectroscopy was restricted to the gas or solid phases due to the requirement for high vacuum to minimize inelastic scattering of the emitted electrons. The introduction of liquid-jets and their combination with intense X-ray sources at synchrotrons in the late 1990s expanded the scope of photoelectron spectroscopy to include liquids. Liquid-jet photoelectron spectroscopy is now an active research field involving a growing number of research groups. A limitation of X-ray photoelectron spectroscopy of aqueous solutions is the requirement to use solutes with reasonably high concentrations in order to obtain photoelectron spectra with adequate signal-to-noise after subtracting the spectrum of water. This has excluded most studies of organic molecules, which tend to be only weakly soluble. A solution to this problem is to use resonance-enhanced photoelectron spectroscopy with ultraviolet (UV) light pulses (hν ≲ 6 eV). However, the development of UV liquid-jet photoelectron spectroscopy has been hampered by a lack of quantitative understanding of inelastic scattering of low kinetic energy electrons (≲5 eV) and the impact on spectral lineshapes and positions.In this Account, we describe the key steps involved in the measurement of UV photoelectron spectra of aqueous solutions: photoionization/detachment, electron transport of low kinetic energy electrons through the conduction band, transmission through the water-vacuum interface, and transport through the spectrometer. We also explain the steps we take to record accurate UV photoelectron spectra of liquids with excellent signal-to-noise. We then describe how we have combined Monte Carlo simulations of electron scattering and spectral inversion with molecular dynamics simulations of depth profiles of organic solutes in aqueous solution to develop an efficient and widely applicable method for retrieving true UV photoelectron spectra of aqueous solutions. The huge potential of our experimental and spectral retrieval methods is illustrated using three examples. The first is a measurement of the vertical detachment energy of the green fluorescent protein chromophore, a sparingly soluble organic anion whose electronic structure underpins its fluorescence and photooxidation properties. The second is a measurement of the vertical ionization energy of liquid water, which has been the subject of discussion since the first X-ray photoelectron spectroscopy measurement in 1997. The third is a UV photoelectron spectroscopy study of the vertical ionization energy of aqueous phenol which demonstrates the possibility of retrieving true photoelectron spectra from measurements with contributions from components with different concentration profiles.
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Hassan HM, Betiha MA, Alhumaimess MS, Alraddadi TS, Mohamed SK, Younis SA, Alqadami AA, Alsohaimi IH. Phosphotungestic acid and manganese containing periodic mesoporous organosilica with imidazolium ionic liquid framework: A robust and durable nanocomposite for desulfurization of aromatic sulfur in diesel fraction. Sep Purif Technol 2022. [DOI: 10.1016/j.seppur.2022.121624] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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Ahsan MS, Kochetov V, Hein D, Bokarev SI, Wilkinson I. Probing the molecular structure of aqueous triiodide via X-ray photoelectron spectroscopy and correlated electron phenomena. Phys Chem Chem Phys 2022; 24:15540-15555. [PMID: 35713286 DOI: 10.1039/d1cp05840a] [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
Liquid-microjet-based X-ray photoelectron spectroscopy was applied to aqueous triiodide solutions, I3-(aq.), to investigate the anion's valence- and core-level electronic structure, ionization dynamics, associated electron-correlation effects, and nuclear geometric structure. The roles of multi-active-electron (shake-up) ionization processes - with noted sensitivity to the solute geometric structure - were investigated through I3-(aq.) solution valence, I 4d, and I 3d core-level measurements. The experimental spectra were interpreted with the aid of simulated photoelectron spectra, built upon multi-reference ab initio electronic structure calculations associated with different I3-(aq.) molecular geometries. A comparison of the single-to-multi-active-electron ionization signal ratios extracted from the experimental and theoretical core-level photoemission spectra suggests that the ground state of the solute adopts a near-linear average geometry in aqueous solutions. This contrasts with the interpretation of time-resolved X-ray solution scattering studies, but is found to be fully consistent with the rest of the solution-phase I3-(aq.) literature. Comparing the results of low- and high-photon-energy photoemission measurements, we further suggest that the aqueous anion adopts a more asymmetric geometry at the aqueous-solution-gas interface than in the aqueous bulk.
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Affiliation(s)
- Md Sabbir Ahsan
- Department of Locally-Sensitive and Time-Resolved Spectroscopy, Helmholtz-Zentrum Berlin für Materialien und Energie, Hahn-Meitner-Platz 1, D-14109 Berlin, Germany. .,Department of Physics, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany
| | - Vladislav Kochetov
- Institut für Physik, Universität Rostock, Albert Einstein Str. 23-24, D-18059 Rostock, Germany
| | - Dennis Hein
- Operando Interfacial Photochemistry, Helmholtz-Zentrum Berlin für Materialien und Energie, Hahn-Meitner-platz. 1, D-14109 Berlin, Germany.,Department of Physics, Humboldt-Universität zu Berlin, Newtonstrasse 15, D-12489 Berlin, Germany
| | - Sergey I Bokarev
- Institut für Physik, Universität Rostock, Albert Einstein Str. 23-24, D-18059 Rostock, Germany
| | - Iain Wilkinson
- Department of Locally-Sensitive and Time-Resolved Spectroscopy, Helmholtz-Zentrum Berlin für Materialien und Energie, Hahn-Meitner-Platz 1, D-14109 Berlin, Germany.
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Muccignat DL, Stokes PW, Cocks DG, Gascooke JR, Jones DB, Brunger MJ, White RD. Simulating the Feasibility of Using Liquid Micro-Jets for Determining Electron–Liquid Scattering Cross-Sections. Int J Mol Sci 2022; 23:ijms23063354. [PMID: 35328775 PMCID: PMC8954820 DOI: 10.3390/ijms23063354] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2022] [Accepted: 03/17/2022] [Indexed: 02/04/2023] Open
Abstract
The extraction of electron–liquid phase cross-sections (surface and bulk) is proposed through the measurement of (differential) energy loss spectra for electrons scattered from a liquid micro-jet. The signature physical elements of the scattering processes on the energy loss spectra are highlighted using a Monte Carlo simulation technique, originally developed for simulating electron transport in liquids. Machine learning techniques are applied to the simulated electron energy loss spectra, to invert the data and extract the cross-sections. The extraction of the elastic cross-section for neon was determined within 9% accuracy over the energy range 1–100 eV. The extension toward the simultaneous determination of elastic and ionisation cross-sections resulted in a decrease in accuracy, now to within 18% accuracy for elastic scattering and 1% for ionisation. Additional methods are explored to enhance the accuracy of the simultaneous extraction of liquid phase cross-sections.
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Affiliation(s)
- Dale L. Muccignat
- College of Science & Engineering, James Cook University, Townsville, QLD 4811, Australia; (P.W.S.); (R.D.W.)
- Correspondence:
| | - Peter W. Stokes
- College of Science & Engineering, James Cook University, Townsville, QLD 4811, Australia; (P.W.S.); (R.D.W.)
- Department of Medical Physics, Townsville University Hospital, Townsville, QLD 4814, Australia
| | - Daniel G. Cocks
- Research School of Physics and Engineering, Australian National University, Canberra, ACT 0200, Australia;
- Synchronous Technologies PTE LTD, 6 Raffles Quay, #11-07, Singapore 048580, Singapore
| | - Jason R. Gascooke
- College of Science & Engineering, Flinders University, Bedford Park, SA 5042, Australia; (J.R.G.); (D.B.J.); (M.J.B.)
| | - Darryl B. Jones
- College of Science & Engineering, Flinders University, Bedford Park, SA 5042, Australia; (J.R.G.); (D.B.J.); (M.J.B.)
| | - Michael J. Brunger
- College of Science & Engineering, Flinders University, Bedford Park, SA 5042, Australia; (J.R.G.); (D.B.J.); (M.J.B.)
- Institute of Actuarial Science and Data Analytics, Faculty of Business and Management, UCSI University, Kuala Lumpur 56000, Malaysia
| | - Ronald D. White
- College of Science & Engineering, James Cook University, Townsville, QLD 4811, Australia; (P.W.S.); (R.D.W.)
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Seymour J, Gousseva E, Large A, Held G, Hein D, Wartner G, Quevedo W, Seidel R, Kolbeck C, Clarke CJ, Fogarty R, Bourne R, Bennett R, Palgrave R, Hunt PA, Lovelock KRJ. Resonant Electron Spectroscopy: Identification of Atomic Contributions to Valence States. Faraday Discuss 2022; 236:389-411. [DOI: 10.1039/d1fd00117e] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Valence electronic structure is crucial for understanding and predicting reactivity. Valence non-resonant X-ray photoelectron spectroscopy (NRXPS) provides a direct method for probing the overall valence electronic structure. However, it is...
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Langkabel F, Bande A. Three-electron dynamics of the interparticle Coulombic decay with two-dimensional continuum confinement. J Chem Phys 2021; 154:054111. [PMID: 33557571 DOI: 10.1063/5.0037806] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In a pair of self-assembled or gated laterally arranged quantum dots, an electronically excited state can undergo interparticle Coulombic decay. Then, an electron from a neighbor quantum dot is emitted into the electronic continuum along the two available dimensions. This study proves that the process is not only operative among two but also among three quantum dots, where a second electron-emitting dot causes a rate increase by a factor of two according to the predictions from the analytical Wigner-Weisskopf rate equation. The predictions hold over the complete range of conformation angles among the quantum dots and over a large range of distances. Electron dynamics was calculated by multiconfiguration time-dependent Hartree and is, irrespective of the large number of discrete variable representation grid points, feasible after having developed an OpenACC graphic card compilation of the program.
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Affiliation(s)
- Fabian Langkabel
- Helmholtz-Zentrum Berlin für Materialien und Energie GmbH, Hahn-Meitner-Platz 1, 14109 Berlin, Germany
| | - Annika Bande
- Helmholtz-Zentrum Berlin für Materialien und Energie GmbH, Hahn-Meitner-Platz 1, 14109 Berlin, Germany
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