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Salén P, Yatsyna V, Schio L, Feifel R, Richter R, Alagia M, Stranges S, Zhaunerchyk V. NEXAFS spectroscopy and site-specific fragmentation of N-methylformamide, N,N-dimethylformamide, and N,N-dimethylacetamide. J Chem Phys 2016; 144:244310. [DOI: 10.1063/1.4954704] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Peter Salén
- Department of Physics, Stockholm University, 106 91 Stockholm, Sweden
| | - Vasyl Yatsyna
- Department of Physics, University of Gothenburg, 412 96 Gothenburg, Sweden
| | - Luca Schio
- IOM-CNR Tasc, SS-14, Km 163.5 Area Science Park, Basovizza, I-34149 Trieste, Italy
| | - Raimund Feifel
- Department of Physics, University of Gothenburg, 412 96 Gothenburg, Sweden
| | - Robert Richter
- Elettra - Sincrotrone Trieste, Area Science Park, 34149 Basovizza, Trieste, Italy
| | - Michele Alagia
- IOM-CNR Tasc, SS-14, Km 163.5 Area Science Park, Basovizza, I-34149 Trieste, Italy
| | - Stefano Stranges
- IOM-CNR Tasc, SS-14, Km 163.5 Area Science Park, Basovizza, I-34149 Trieste, Italy
- Dipartimento di Chimica e Tecnologie del Farmaco, Universitá Sapienza, Roma I-00185, Italy
| | - Vitali Zhaunerchyk
- Department of Physics, University of Gothenburg, 412 96 Gothenburg, Sweden
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2
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Hua W, Oesterling S, Biggs JD, Zhang Y, Ando H, de Vivie-Riedle R, Fingerhut BP, Mukamel S. Monitoring conical intersections in the ring opening of furan by attosecond stimulated X-ray Raman spectroscopy. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2016; 3:023601. [PMID: 26798832 PMCID: PMC4711522 DOI: 10.1063/1.4933007] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2015] [Revised: 10/14/2015] [Accepted: 08/31/2015] [Indexed: 05/06/2023]
Abstract
Attosecond X-ray pulses are short enough to capture snapshots of molecules undergoing nonadiabatic electron and nuclear dynamics at conical intersections (CoIns). We show that a stimulated Raman probe induced by a combination of an attosecond and a femtosecond pulse has a unique temporal and spectral resolution for probing the nonadiabatic dynamics and detecting the ultrafast (∼4.5 fs) passage through a CoIn. This is demonstrated by a multiconfigurational self-consistent-field study of the dynamics and spectroscopy of the furan ring-opening reaction. Trajectories generated by surface hopping simulations were used to predict Attosecond Stimulated X-ray Raman Spectroscopy signals at reactant and product structures as well as representative snapshots along the conical intersection seam. The signals are highly sensitive to the changes in nonadiabatically coupled electronic structure and geometry.
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Affiliation(s)
- Weijie Hua
- Department of Chemistry, University of California , Irvine, California 92697, USA
| | - Sven Oesterling
- Department of Chemistry, University of Munich , Butenandtstr. 5-13, D-81377 Munich, Germany
| | - Jason D Biggs
- Department of Chemistry, University of California , Irvine, California 92697, USA
| | - Yu Zhang
- Department of Chemistry, University of California , Irvine, California 92697, USA
| | - Hideo Ando
- Department of Chemistry, University of California , Irvine, California 92697, USA
| | - Regina de Vivie-Riedle
- Department of Chemistry, University of Munich , Butenandtstr. 5-13, D-81377 Munich, Germany
| | | | - Shaul Mukamel
- Department of Chemistry, University of California , Irvine, California 92697, USA
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3
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Li C, Salén P, Yatsyna V, Schio L, Feifel R, Squibb R, Kamińska M, Larsson M, Richter R, Alagia M, Stranges S, Monti S, Carravetta V, Zhaunerchyk V. Experimental and theoretical XPS and NEXAFS studies of N-methylacetamide and N-methyltrifluoroacetamide. Phys Chem Chem Phys 2016; 18:2210-8. [DOI: 10.1039/c5cp06441d] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Experimental and theoretical spectra of N-methylacetamide and N-methyltrifluoroacetamide at the K-edges are reported.
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Kimberg V, Sanchez-Gonzalez A, Mercadier L, Weninger C, Lutman A, Ratner D, Coffee R, Bucher M, Mucke M, Agåker M, Såthe C, Bostedt C, Nordgren J, Rubensson JE, Rohringer N. Stimulated X-ray Raman scattering – a critical assessment of the building block of nonlinear X-ray spectroscopy. Faraday Discuss 2016; 194:305-324. [DOI: 10.1039/c6fd00103c] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
With the invention of femtosecond X-ray free-electron lasers (XFELs), studies of light-induced chemical reaction dynamics and structural dynamics reach a new era, allowing for time-resolved X-ray diffraction and spectroscopy. To ultimately probe coherent electron and nuclear dynamics on their natural time and length scales, coherent nonlinear X-ray spectroscopy schemes have been proposed. In this contribution, we want to critically assess the experimental realisation of nonlinear X-ray spectroscopy at current-day XFEL sources, by presenting first experimental attempts to demonstrate stimulated resonant X-ray Raman scattering in molecular gas targets.
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5
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Rohringer N, Kimberg V, Weninger C, Sanchez-Gonzalez A, Lutman A, Maxwell T, Bostedt C, Carron Monterro S, Lindahl AO, Ilchen M, Coffee RN, Bozek JD, Krzywinski J, Kierspel T, Mullins T, Küpper J, Erk B, Rolles D, Mücke OD, London RA, Purvis M, Ryan D, Rocca JJ, Feifel R, Squibb R, Zhaunerchyk V, Såthe C, Agåker M, Mucke M, Nordgren J, Rubensson JE. Stimulated X-Ray Raman Scattering with Free-Electron Laser Sources. ACTA ACUST UNITED AC 2015. [DOI: 10.1007/978-3-319-19521-6_26] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/22/2023]
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6
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Zhang Y, Biggs JD, Mukamel S. Characterizing the Intermediates Compound I and II in the Cytochrome P450 Catalytic Cycle with Nonlinear X-ray Spectroscopy: A Simulation Study. Chemphyschem 2015; 16:2006-14. [PMID: 25873009 DOI: 10.1002/cphc.201500064] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2015] [Revised: 02/24/2015] [Indexed: 11/06/2022]
Abstract
Cytochrome P450 enzymes are an important family of biocatalysts that oxidize chemically inert CH bonds. There are many unresolved questions regarding the catalytic reaction intermediates, in particular P450 Compound I (Cpd-I) and II (Cpd-II). By using simple molecular models, we simulate various X-ray spectroscopy signals, including X-ray absorption near-edge structure (XANES), resonant inelastic X-ray scattering (RIXS), and stimulated X-ray Raman spectroscopy (SXRS) of the low- and high-spin states of Cpd-I and II. Characteristic peak patterns are presented and connected to the corresponding electronic structures. These X-ray spectroscopy techniques are complementary to more conventional infrared and optical spectroscopy and they help to elucidate the evolving electronic structures of transient species along the reaction path.
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Affiliation(s)
- Yu Zhang
- Dept. of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697 (USA).
| | - Jason D Biggs
- Dept. of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697 (USA)
| | - Shaul Mukamel
- Dept. of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697 (USA).
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7
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Zhang Y, Biggs JD, Hua W, Dorfman KE, Mukamel S. Three-dimensional attosecond resonant stimulated X-ray Raman spectroscopy of electronic excitations in core-ionized glycine. Phys Chem Chem Phys 2015; 16:24323-31. [PMID: 25297460 DOI: 10.1039/c4cp03361b] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We investigate computationally the valence electronic excitations of the amino acid glycine prepared by a sudden nitrogen core ionization induced by an attosecond X-ray pump pulse. The created superposition of cationic excited states is probed by two-dimensional transient X-ray absorption and by three dimensional attosecond stimulated X-ray Raman signals. The latter, generated by applying a second broadband X-ray pulse combined with a narrowband pulse tuned to the carbon K-edge, reveal the complex coupling between valence and core-excited manifolds of the cation.
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Affiliation(s)
- Yu Zhang
- Dept. of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA.
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8
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Biggs JD, Zhang Y, Healion D, Mukamel S. Multidimensional x-ray spectroscopy of valence and core excitations in cysteine. J Chem Phys 2015; 138:144303. [PMID: 24981531 DOI: 10.1063/1.4799266] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Several nonlinear spectroscopy experiments which employ broadband x-ray pulses to probe the coupling between localized core and delocalized valence excitation are simulated for the amino acid cysteine at the K-edges of oxygen and nitrogen and the K- and L-edges of sulfur. We focus on two-dimensional (2D) and 3D signals generated by two- and three-pulse stimulated x-ray Raman spectroscopy (SXRS) with frequency-dispersed probe. We show how the four-pulse x-ray signals [Formula: see text] and [Formula: see text] can give new 3D insight into the SXRS signals. The coupling between valence- and core-excited states can be visualized in three-dimensional plots, revealing the origin of the polarizability that controls the simpler pump-probe SXRS signals.
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Affiliation(s)
- Jason D Biggs
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
| | - Yu Zhang
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
| | - Daniel Healion
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
| | - Shaul Mukamel
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
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10
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Salén P, Kamińska M, Squibb RJ, Richter R, Alagia M, Stranges S, van der Meulen P, Eland JHD, Feifel R, Zhaunerchyk V. Selectivity in fragmentation of N-methylacetamide after resonant K-shell excitation. Phys Chem Chem Phys 2014; 16:15231-40. [DOI: 10.1039/c4cp01067a] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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11
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Zhang Y, Hua W, Bennett K, Mukamel S. Nonlinear Spectroscopy of Core and Valence Excitations Using Short X-Ray Pulses: Simulation Challenges. DENSITY-FUNCTIONAL METHODS FOR EXCITED STATES 2014; 368:273-345. [DOI: 10.1007/128_2014_618] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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12
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Weninger C, Purvis M, Ryan D, London RA, Bozek JD, Bostedt C, Graf A, Brown G, Rocca JJ, Rohringer N. Stimulated electronic x-ray Raman scattering. PHYSICAL REVIEW LETTERS 2013; 111:233902. [PMID: 24476271 DOI: 10.1103/physrevlett.111.233902] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2013] [Indexed: 05/07/2023]
Abstract
We demonstrate strong stimulated inelastic x-ray scattering by resonantly exciting a dense gas target of neon with femtosecond, high-intensity x-ray pulses from an x-ray free-electron laser (XFEL). A small number of lower energy XFEL seed photons drive an avalanche of stimulated resonant inelastic x-ray scattering processes that amplify the Raman scattering signal by several orders of magnitude until it reaches saturation. Despite the large overall spectral width, the internal spiky structure of the XFEL spectrum determines the energy resolution of the scattering process in a statistical sense. This is demonstrated by observing a stochastic line shift of the inelastically scattered x-ray radiation. In conjunction with statistical methods, XFELs can be used for stimulated resonant inelastic x-ray scattering, with spectral resolution smaller than the natural width of the core-excited, intermediate state.
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Affiliation(s)
- Clemens Weninger
- Max Planck Institute for the Physics of Complex Systems, 01187 Dresden, Germany and Center for Free-Electron Laser Science, 22761 Hamburg, Germany
| | - Michael Purvis
- Colorado Sate University, Fort Collins, Colorado 80523, USA
| | - Duncan Ryan
- Colorado Sate University, Fort Collins, Colorado 80523, USA
| | - Richard A London
- Lawrence Livermore National Laboratory, Livermore, California 94551, USA
| | - John D Bozek
- LCLS, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA
| | - Christoph Bostedt
- LCLS, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA
| | - Alexander Graf
- Lawrence Livermore National Laboratory, Livermore, California 94551, USA
| | - Gregory Brown
- Lawrence Livermore National Laboratory, Livermore, California 94551, USA
| | - Jorge J Rocca
- Colorado Sate University, Fort Collins, Colorado 80523, USA
| | - Nina Rohringer
- Max Planck Institute for the Physics of Complex Systems, 01187 Dresden, Germany and Center for Free-Electron Laser Science, 22761 Hamburg, Germany
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14
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Marinelli A, Lutman AA, Wu J, Ding Y, Krzywinski J, Nuhn HD, Feng Y, Coffee RN, Pellegrini C. Multicolor operation and spectral control in a gain-modulated x-ray free-electron laser. PHYSICAL REVIEW LETTERS 2013; 111:134801. [PMID: 24116783 DOI: 10.1103/physrevlett.111.134801] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2013] [Indexed: 05/23/2023]
Abstract
We show that the spectral properties of a self-amplified spontaneous emission x-ray free-electron laser can be controlled by modulating the gain in magnetic undulators, thus producing one or several spectral lines within a single few femtosecond pulse. By varying the magnetic field along the undulator and the electron beam transport line, the system we demonstrate can tailor the x-ray spectrum to optimally meet numerous experimental requirements for multicolor operation.
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Affiliation(s)
- A Marinelli
- SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA
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15
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Zhang Y, Healion D, Biggs JD, Mukamel S. Double-core excitations in formamide can be probed by X-ray double-quantum-coherence spectroscopy. J Chem Phys 2013; 138:144301. [PMID: 24981529 PMCID: PMC3637328 DOI: 10.1063/1.4798635] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2013] [Accepted: 03/12/2013] [Indexed: 11/14/2022] Open
Abstract
The attosecond, time-resolved X-ray double-quantum-coherence four-wave mixing signals of formamide at the nitrogen and oxygen K-edges are simulated using restricted excitation window time-dependent density functional theory and the excited core hole approximation. These signals, induced by core exciton coupling, are particularly sensitive to the level of treatment of electron correlation, thus providing direct experimental signatures of electron and core-hole many-body effects and a test of electronic structure theories.
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Affiliation(s)
- Yu Zhang
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
| | - Daniel Healion
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
| | - Jason D Biggs
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
| | - Shaul Mukamel
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
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16
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Zhang Y, Biggs JD, Healion D, Govind N, Mukamel S. Core and valence excitations in resonant X-ray spectroscopy using restricted excitation window time-dependent density functional theory. J Chem Phys 2013. [PMID: 23181305 DOI: 10.1063/1.4766356] [Citation(s) in RCA: 71] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
Abstract
We report simulations of X-ray absorption near edge structure (XANES), resonant inelastic X-ray scattering (RIXS) and 1D stimulated X-ray Raman spectroscopy (SXRS) signals of cysteine at the oxygen, nitrogen, and sulfur K and L(2,3) edges. Comparison of the simulated XANES signals with experiment shows that the restricted window time-dependent density functional theory is more accurate and computationally less expensive than the static exchange method. Simulated RIXS and 1D SXRS signals give some insights into the correlation of different excitations in the molecule.
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Affiliation(s)
- Yu Zhang
- Department of Chemistry, University of California, 450 Rowland Hall, Irvine, California 92697, USA
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17
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Kimberg V, Rohringer N. Amplified x-ray emission from core-ionized diatomic molecules. PHYSICAL REVIEW LETTERS 2013; 110:043901. [PMID: 25166164 DOI: 10.1103/physrevlett.110.043901] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2012] [Indexed: 05/24/2023]
Abstract
We predict high-gain x-ray lasing in molecular nitrogen by ultrafast core ionization with an x-ray free-electron laser source. To estimate the spectral and temporal output of this molecular x-ray laser, we solve generalized Maxwell-Bloch equations, keeping track of the electronic and nuclear degrees of freedom. The spectrum of the amplified x-ray emission shows a strong dependence on the gain-length product. Whereas the emission at small gain length is similar to the relatively broad x-ray fluorescence band, the spectrum is determined by a single frequency in the linear gain region. The vibrational wave packet dynamics during the x-ray emission process is examined. By preparation of the initial vibrational quantum state, the x-ray emission frequency can be tuned within the fluorescence band. The present scheme is applicable to other homo- and heteronuclear diatomic systems, thereby extending the spectral range of coherent x-ray radiation sources based on amplification on bound transitions.
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Affiliation(s)
- Victor Kimberg
- Max Planck Institute for the Physics of Complex Systems, 01187 Dresden, Germany and Max Planck Advanced Study Group, CFEL, Luruper Chaussee 149, 22761 Hamburg, Germany
| | - Nina Rohringer
- Max Planck Institute for the Physics of Complex Systems, 01187 Dresden, Germany and Max Planck Advanced Study Group, CFEL, Luruper Chaussee 149, 22761 Hamburg, Germany
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18
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Biggs JD, Zhang Y, Healion D, Mukamel S. Two-dimensional stimulated resonance Raman spectroscopy of molecules with broadband x-ray pulses. J Chem Phys 2012; 136:174117. [PMID: 22583220 PMCID: PMC3356307 DOI: 10.1063/1.4706899] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2011] [Accepted: 04/10/2012] [Indexed: 11/14/2022] Open
Abstract
Expressions for the two-dimensional stimulated x-ray Raman spectroscopy (2D-SXRS) signal obtained using attosecond x-ray pulses are derived. The 1D- and 2D-SXRS signals are calculated for trans-N-methyl acetamide (NMA) with broad bandwidth (181 as, 14.2 eV FWHM) pulses tuned to the oxygen and nitrogen K-edges. Crosspeaks in 2D signals reveal electronic Franck-Condon overlaps between valence orbitals and relaxed orbitals in the presence of the core-hole.
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Affiliation(s)
- Jason D Biggs
- Department of Chemistry, University of California, Irvine, California 92697-2025, USA
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