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Weatherup RS, Wu CH, Escudero C, Pérez-Dieste V, Salmeron MB. Environment-Dependent Radiation Damage in Atmospheric Pressure X-ray Spectroscopy. J Phys Chem B 2017; 122:737-744. [DOI: 10.1021/acs.jpcb.7b06397] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Robert S. Weatherup
- Materials
Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron
Road, Berkeley, California 94720, United States
- Department
of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
| | - Cheng Hao Wu
- Materials
Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron
Road, Berkeley, California 94720, United States
| | - Carlos Escudero
- ALBA Synchrotron Light Source, Carrer de la Llum 2-26, 08290 Cerdanyola del Vallès, Barcelona, Spain
| | - Virginia Pérez-Dieste
- ALBA Synchrotron Light Source, Carrer de la Llum 2-26, 08290 Cerdanyola del Vallès, Barcelona, Spain
| | - Miquel B. Salmeron
- Materials
Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron
Road, Berkeley, California 94720, United States
- Department
of Materials Science and Engineering, University of California, Berkeley, California 94720, United States
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Joly L, Otero E, Choueikani F, Marteau F, Chapuis L, Ohresser P. Fast continuous energy scan with dynamic coupling of the monochromator and undulator at the DEIMOS beamline. JOURNAL OF SYNCHROTRON RADIATION 2014; 21:502-506. [PMID: 24763639 DOI: 10.1107/s1600577514003671] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2013] [Accepted: 02/18/2014] [Indexed: 06/03/2023]
Abstract
In order to improve the efficiency of X-ray absorption data recording, a fast scan method, the Turboscan, has been developed on the DEIMOS beamline at Synchrotron SOLEIL, consisting of a software-synchronized continuous motion of the monochromator and undulator motors. This process suppresses the time loss when waiting for the motors to reach their target positions, as well as software dead-time, while preserving excellent beam characteristics.
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Affiliation(s)
- L Joly
- Institut de Physique et de Chimie des Materiaux de Strasbourg, Université de Strasbourg, UMR 7504, 23 Rue du Loess, BP 43, 67034 Strasbourg Cedex 2, France
| | - E Otero
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint-Aubin, BP 48, 91192 Gif-sur-Yvette, France
| | - F Choueikani
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint-Aubin, BP 48, 91192 Gif-sur-Yvette, France
| | - F Marteau
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint-Aubin, BP 48, 91192 Gif-sur-Yvette, France
| | - L Chapuis
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint-Aubin, BP 48, 91192 Gif-sur-Yvette, France
| | - P Ohresser
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint-Aubin, BP 48, 91192 Gif-sur-Yvette, France
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Hübner M, Koziej D, Bauer M, Barsan N, Kvashnina K, Rossell MD, Weimar U, Grunwaldt J. The Structure and Behavior of Platinum in SnO
2
‐Based Sensors under Working Conditions. Angew Chem Int Ed Engl 2011; 50:2841-4. [DOI: 10.1002/anie.201004499] [Citation(s) in RCA: 88] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2010] [Revised: 09/22/2010] [Indexed: 11/12/2022]
Affiliation(s)
- Michael Hübner
- Faculty of Mathematics and Natural Sciences, Department of Chemistry, Tübingen University, 72076 Tübingen (Germany)
| | - Dorota Koziej
- Department of Materials, ETH Zurich, Wolfgang Pauli Strasse 10, 8093 Zurich (Switzerland)
- Present address: Harvard University, School of Engineering and Applied Science, 29 Oxford St., Cambridge, MA 02138 (USA)
| | - Matthias Bauer
- Institute for Chemical Technology and Polymer Chemistry, Karlsruhe Institute of Technology (KIT), Kaiserstrasse 12, 76128 Karlsruhe (Germany)
| | - Nicolae Barsan
- Faculty of Mathematics and Natural Sciences, Department of Chemistry, Tübingen University, 72076 Tübingen (Germany)
| | | | - Marta D. Rossell
- Department of Materials, ETH Zurich, Wolfgang Pauli Strasse 10, 8093 Zurich (Switzerland)
| | - Udo Weimar
- Faculty of Mathematics and Natural Sciences, Department of Chemistry, Tübingen University, 72076 Tübingen (Germany)
| | - Jan‐Dierk Grunwaldt
- Institute for Chemical Technology and Polymer Chemistry, Karlsruhe Institute of Technology (KIT), Kaiserstrasse 12, 76128 Karlsruhe (Germany)
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Hübner M, Koziej D, Bauer M, Barsan N, Kvashnina K, Rossell MD, Weimar U, Grunwaldt J. Struktur und Verhalten von Platin in SnO
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‐basierten Gassensoren unter realistischen Arbeitsbedingungen. Angew Chem Int Ed Engl 2011. [DOI: 10.1002/ange.201004499] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Michael Hübner
- Mathematisch‐Naturwissenschaftliche Fakultät, Fachbereich Chemie, Universität Tübingen, 72076 Tübingen (Deutschland)
| | - Dorota Koziej
- Department of Materials, ETH Zürich, Wolfgang‐Pauli‐Strasse 10, 8093 Zürich (Schweiz)
- Aktuelle Adresse: Harvard University, School of Engineering and Applied Science, 29 Oxford Str., Cambridge, MA 02138 (USA)
| | - Matthias Bauer
- Institut für Technische Chemie und Polymerchemie, Karlsruher Institut für Technologie (KIT), Kaiserstraße 12, 76128 Karlsruhe (Deutschland)
| | - Nicolae Barsan
- Mathematisch‐Naturwissenschaftliche Fakultät, Fachbereich Chemie, Universität Tübingen, 72076 Tübingen (Deutschland)
| | | | - Marta D. Rossell
- Department of Materials, ETH Zürich, Wolfgang‐Pauli‐Strasse 10, 8093 Zürich (Schweiz)
| | - Udo Weimar
- Mathematisch‐Naturwissenschaftliche Fakultät, Fachbereich Chemie, Universität Tübingen, 72076 Tübingen (Deutschland)
| | - Jan‐Dierk Grunwaldt
- Institut für Technische Chemie und Polymerchemie, Karlsruher Institut für Technologie (KIT), Kaiserstraße 12, 76128 Karlsruhe (Deutschland)
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5
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Khalid S, Caliebe W, Siddons P, So I, Clay B, Lenhard T, Hanson J, Wang Q, Frenkel AI, Marinkovic N, Hould N, Ginder-Vogel M, Landrot GL, Sparks DL, Ganjoo A. Quick extended x-ray absorption fine structure instrument with millisecond time scale, optimized for in situ applications. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2010; 81:015105. [PMID: 20113127 DOI: 10.1063/1.3276679] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
In order to learn about in situ structural changes in materials at subseconds time scale, we have further refined the techniques of quick extended x-ray absorption fine structure (QEXAFS) and quick x-ray absorption near edge structure (XANES) spectroscopies at beamline X18B at the National Synchrotron Light Source. The channel cut Si (111) monochromator oscillation is driven through a tangential arm at 5 Hz, using a cam, dc motor, pulley, and belt system. The rubber belt between the motor and the cam damps the mechanical noise. EXAFS scan taken in 100 ms is comparable to standard data. The angle and the angular range of the monochromator can be changed to collect a full EXAFS or XANES spectrum in the energy range 4.7-40.0 KeV. The data are recorded in ascending and descending order of energy, on the fly, without any loss of beam time. The QEXAFS mechanical system is outside the vacuum system, and therefore changing the mode of operation from conventional to QEXAFS takes only a few minutes. This instrument allows the acquisition of time resolved data in a variety of systems relevant to electrochemical, photochemical, catalytic, materials, and environmental sciences.
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Affiliation(s)
- S Khalid
- National Synchrotron Light Source (NSLS), Brookhaven National Laboratory, Upton, New York 11973, USA
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Sepulcre F, Cordomí A, Proietti MG, Perez JJ, García J, Querol E, Padrós E. X-ray absorption and molecular dynamics study of cation binding sites in the purple membrane. Proteins 2007; 67:360-74. [PMID: 17266122 DOI: 10.1002/prot.21273] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
The present work describes the results of a study aimed at identifying candidate cation binding sites on the extracellular region of bacteriorhodopsin, including a site near the retinal pocket. The approach used is a combined effort involving computational chemistry methods (computation of cation affinity maps and molecular dynamics) together with the Extended X-Ray Absorption Fine Structure (EXAFS) technique to obtain relevant information about the local structure of the protein in the neighborhood of Mn(2+) ions in different affinity binding sites. The results permit the identification of a high-affinity binding site where the ion is coordinated simultaneously to Asp212(-) and Asp85(-). Comparison of EXAFS data of the wild type protein with the quadruple mutant E9Q/E74Q/E194Q/E204Q at pH 7.0 and 10.0 demonstrate that extracellular glutamic acid residues are involved in cation binding.
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Affiliation(s)
- Francesc Sepulcre
- Departament d'Enginyeria Agroalimentària i Biotecnologia, Escola Superior d'Agricultura de Barcelona, Universitat Politècnica de Catalunya, Barcelona, Spain.
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Grabolle M, Haumann M, Müller C, Liebisch P, Dau H. Rapid Loss of Structural Motifs in the Manganese Complex of Oxygenic Photosynthesis by X-ray Irradiation at 10–300 K. J Biol Chem 2006; 281:4580-8. [PMID: 16352605 DOI: 10.1074/jbc.m509724200] [Citation(s) in RCA: 164] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Structural changes upon photoreduction caused by x-ray irradiation of the water-oxidizing tetramanganese complex of photosystem II were investigated by x-ray absorption spectroscopy at the manganese K-edge. Photoreduction was directly proportional to the x-ray dose. It was faster in the higher oxidized S2 state than in S1; seemingly the oxidizing potential of the metal site governs the rate. X-ray irradiation of the S1 state at 15 K initially caused single-electron reduction to S0* accompanied by the conversion of one di-mu-oxo bridge between manganese atoms, previously separated by approximately 2.7 A, to a mono-mu-oxo motif. Thereafter, manganese photoreduction was 100 times slower, and the biphasic increase in its rate between 10 and 300 K with a breakpoint at approximately 200 K suggests that protein dynamics is rate-limiting the radical chemistry. For photoreduction at similar x-ray doses as applied in protein crystallography, halfway to the final Mn(II)4 state the complete loss of inter-manganese distances <3 A was observed, even at 10 K, because of the destruction of mu-oxo bridges between manganese ions. These results put into question some structural attributions from recent protein crystallography data on photosystem II. It is proposed to employ controlled x-ray photoreduction in metalloprotein research for: (i) population of distinct reduced states, (ii) estimating the redox potential of buried metal centers, and (iii) research on protein dynamics.
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Affiliation(s)
- Markus Grabolle
- Freie Universität Berlin, FB Physik, Arnimallee 14, D-14195 Berlin, Germany
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D'Angelo P, Petit PE, Pavel NV. Double-Electron Excitation Channels at the Ca2+ K-Edge of Hydrated Calcium Ion. J Phys Chem B 2004. [DOI: 10.1021/jp048511l] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Paola D'Angelo
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P.O. Box 34 - Roma 62, Pzz.le A. Moro 5, I-00185 Roma, Italy, INFM UdF Camerino, Italy, and ESRF, BP 220, F-38043 Grenoble Cedex, France
| | - Pierre-Emmanuel Petit
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P.O. Box 34 - Roma 62, Pzz.le A. Moro 5, I-00185 Roma, Italy, INFM UdF Camerino, Italy, and ESRF, BP 220, F-38043 Grenoble Cedex, France
| | - Nicolae Viorel Pavel
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P.O. Box 34 - Roma 62, Pzz.le A. Moro 5, I-00185 Roma, Italy, INFM UdF Camerino, Italy, and ESRF, BP 220, F-38043 Grenoble Cedex, France
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9
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Haumann M, Grabolle M, Neisius T, Dau H. The first room-temperature X-ray absorption spectra of higher oxidation states of the tetra-manganese complex of photosystem II. FEBS Lett 2002; 512:116-20. [PMID: 11852063 DOI: 10.1016/s0014-5793(02)02237-8] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
The manganese (Mn) complex of photosystem II catalyzes water oxidation. For the first time, its advancement through the reaction cycle was monitored by time-resolved X-ray absorption measurements at the Mn K-edge at room temperature. The complex was stepped through its four oxidation states by nano-second-laser flashes applied to samples exposed to the X-ray beam. Time courses of the X-ray fluorescence intensity were recorded during a flash sequence. Extended X-ray absorption fine-structure spectra were recorded with the S(1), S(2), and S(3) oxidation states highly populated. The room temperature data is compatible with the formation of a third di-mu-oxo bridge between two Mn atoms upon the S(2)-->S(3) transition.
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Affiliation(s)
- Michael Haumann
- Fachbereich Physik, Freie Universität Berlin, Arnimallee 14, D-14195, Berlin, Germany.
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Rogalev A, Goulon J, Goulon-Ginet C, Malgrange C. Instrumentation Developments for Polarization Dependent X-ray Spectroscopies. MAGNETISM AND SYNCHROTRON RADIATION 2001. [DOI: 10.1007/3-540-44954-x_3] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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Lloyd JR, Sole VA, Van Praagh CV, Lovley DR. Direct and Fe(II)-mediated reduction of technetium by Fe(III)-reducing bacteria. Appl Environ Microbiol 2000; 66:3743-9. [PMID: 10966385 PMCID: PMC92215 DOI: 10.1128/aem.66.9.3743-3749.2000] [Citation(s) in RCA: 210] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The dissimilatory Fe(III)-reducing bacterium Geobacter sulfurreducens reduced and precipitated Tc(VII) by two mechanisms. Washed cell suspensions coupled the oxidation of hydrogen to enzymatic reduction of Tc(VII) to Tc(IV), leading to the precipitation of TcO(2) at the periphery of the cell. An indirect, Fe(II)-mediated mechanism was also identified. Acetate, although not utilized efficiently as an electron donor for direct cell-mediated reduction of technetium, supported the reduction of Fe(III), and the Fe(II) formed was able to transfer electrons abiotically to Tc(VII). Tc(VII) reduction was comparatively inefficient via this indirect mechanism when soluble Fe(III) citrate was supplied to the cultures but was enhanced in the presence of solid Fe(III) oxide. The rate of Tc(VII) reduction was optimal, however, when Fe(III) oxide reduction was stimulated by the addition of the humic analog and electron shuttle anthaquinone-2,6-disulfonate, leading to the rapid formation of the Fe(II)-bearing mineral magnetite. Under these conditions, Tc(VII) was reduced and precipitated abiotically on the nanocrystals of biogenic magnetite as TcO(2) and was removed from solution to concentrations below the limit of detection by scintillation counting. Cultures of Fe(III)-reducing bacteria enriched from radionuclide-contaminated sediment using Fe(III) oxide as an electron acceptor in the presence of 25 microM Tc(VII) contained a single Geobacter sp. detected by 16S ribosomal DNA analysis and were also able to reduce and precipitate the radionuclide via biogenic magnetite. Fe(III) reduction was stimulated in aquifer material, resulting in the formation of Fe(II)-containing minerals that were able to reduce and precipitate Tc(VII). These results suggest that Fe(III)-reducing bacteria may play an important role in immobilizing technetium in sediments via direct and indirect mechanisms.
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Affiliation(s)
- J R Lloyd
- Department of Microbiology, University of Massachusetts, Amherst, Massachusetts 01003, USA.
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