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Nascimento DR, Govind N. Computational approaches for XANES, VtC-XES, and RIXS using linear-response time-dependent density functional theory based methods. Phys Chem Chem Phys 2022; 24:14680-14691. [PMID: 35699090 DOI: 10.1039/d2cp01132h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
The emergence of state-of-the-art X-ray light sources has paved the way for novel spectroscopies that take advantage of their atomic specificity to shed light on fundamental physical, chemical, and biological processes both in the static and time domains. The success of these experiments hinges on the ability to interpret and predict core-level spectra, which has opened avenues for theory to play a key role. Over the last two decades, linear-response time-dependent density functional theory (LR-TDDFT), despite various theoretical challenges, has become a computationally attractive and versatile framework to study excited-state spectra including X-ray spectroscopies. In this context, we focus our discussion on LR-TDDFT approaches for the computation of X-ray Near-Edge Structure (XANES), Valence-to-Core X-ray Emission (VtC-XES), and Resonant Inelastic X-ray Scattering (RIXS) spectroscopies in molecular systems with an emphasis on Gaussian basis set implementations. We illustrate these approaches with applications and provide a brief outlook of possible new directions.
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Affiliation(s)
- Daniel R Nascimento
- Department of Chemistry, The University of Memphis, Memphis, TN, 38152, USA.
| | - Niranjan Govind
- Physical and Computational Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, USA.
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2
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Yang M, Sissay A, Chen M, Lopata K. Intruder Peak-Free Transient Inner-Shell Spectra Using Real-Time Simulations. J Chem Theory Comput 2022; 18:992-1002. [PMID: 35025498 DOI: 10.1021/acs.jctc.1c00079] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Real-time methods are convenient for simulating core-level absorption spectra but suffer from nonphysical intruder peaks when using atom-centered basis sets. In transient absorption spectra, these peaks exhibit highly nonphysical time-dependent modulations in their energies and oscillator strengths. In this paper, we address the origins of these intruder peaks and propose a straightforward and effective solution based on a filtered dipole operator. In combination with real-time time-dependent density functional theory (RT-TDDFT), we demonstrate how to compute intruder-free attosecond transient X-ray absorption spectra for the aminophenol (C6H7NO) oxygen and nitrogen K-edges and the α-quartz (SiO2) silicon L-edge. Without filtering, the computed spectra are qualitatively wrong. This procedure is suitable for both static and transient inner-shell spectroscopy studies and can easily be implemented in a range of real-time methodologies.
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Affiliation(s)
- Mengqi Yang
- Department of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
| | - Adonay Sissay
- Department of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
| | - Min Chen
- Department of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
| | - Kenneth Lopata
- Department of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States.,Center for Computation and Technology, Louisiana State University, Baton Rouge, Louisiana 70803, United States
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3
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Besley NA. Modeling of the spectroscopy of core electrons with density functional theory. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2021. [DOI: 10.1002/wcms.1527] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Nicholas A. Besley
- School of Chemistry, University of Nottingham University Park Nottingham UK
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4
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Hirao K, Nakajima T, Chan B, Song JW, Bae HS. Core-Level Excitation Energies of Nucleic Acid Bases Expressed as Orbital Energies of the Kohn–Sham Density Functional Theory with Long-Range Corrected Functionals. J Phys Chem A 2020; 124:10482-10494. [DOI: 10.1021/acs.jpca.0c07087] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kimihiko Hirao
- RIKEN Center for Computational Science, 7-1-26, Minatojima-minami-machi, Chuo-ku, Kobe 650-0047, Japan
- Fukui Institute for Fundamental Chemistry, Kyoto University, Takano, Nishihiraki-cho 34-4, Sakyo-ku, Kyoto 606-8103, Japan
| | - Takahito Nakajima
- RIKEN Center for Computational Science, 7-1-26, Minatojima-minami-machi, Chuo-ku, Kobe 650-0047, Japan
| | - Bun Chan
- Graduate School of Engineering, Nagasaki University, Bunkyo 1-14, Nagasaki 852-8521, Japan
| | - Jong-Won Song
- Department of Chemistry Education, Daegu University, Gyeongsan 113-8656, Korea
| | - Han-Seok Bae
- Department of Chemistry Education, Daegu University, Gyeongsan 113-8656, Korea
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Fouda AEA, Purnell GI, Besley NA. Simulation of Ultra-Fast Dynamics Effects in Resonant Inelastic X-ray Scattering of Gas-Phase Water. J Chem Theory Comput 2018; 14:2586-2595. [DOI: 10.1021/acs.jctc.8b00211] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Adam E. A. Fouda
- School of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
| | - Gregory I. Purnell
- School of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
| | - Nicholas A. Besley
- School of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
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Nakata A, Futamura Y, Sakurai T, Bowler DR, Miyazaki T. Efficient Calculation of Electronic Structure Using O(N) Density Functional Theory. J Chem Theory Comput 2017; 13:4146-4153. [DOI: 10.1021/acs.jctc.7b00385] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Ayako Nakata
- First-Principles
Simulation Group, Nano-Theory Field, International Center for Materials
Nanoarchitectonics (WPI-MANA), National Institute for Materials Science
(NIMS), 1-1 Namiki, Tsukuba, Ibaraki 305-0044, Japan
| | - Yasunori Futamura
- Department
of Computer Science, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8573, Japan
| | - Tetsuya Sakurai
- Department
of Computer Science, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8573, Japan
- CREST, Japan Science
and Technology Agency, 4-1-8 Hon-cho, Kawaguchi, Saitama 332-0012, Japan
| | - David R Bowler
- Department of Physics & Astronomy, University College London, Gower Street, London WC1E 6BT, U.K
- WPI-MANA, National
Institute for Materials Science (NIMS), 1-1 Namiki, Tsukuba, Ibaraki 305-0044, Japan
- London Centre for Nanotechnology, University College London, 17-19 Gordon Street, London WC1H 0AH, U.K
| | - Tsuyoshi Miyazaki
- First-Principles
Simulation Group, Nano-Theory Field, International Center for Materials
Nanoarchitectonics (WPI-MANA), National Institute for Materials Science
(NIMS), 1-1 Namiki, Tsukuba, Ibaraki 305-0044, Japan
- Department of Physics & Astronomy, University College London, Gower Street, London WC1E 6BT, U.K
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Hanson-Heine MWD, George MW, Besley NA. Kohn-Sham density functional theory calculations of non-resonant and resonant x-ray emission spectroscopy. J Chem Phys 2017. [DOI: 10.1063/1.4977178] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Affiliation(s)
| | - Michael W. George
- School of Chemistry, University of Nottingham, Nottingham NG7 2RD, United Kingdom
- Department of Chemical and Environmental Engineering, University of Nottingham Ningbo China, 199 Taiking East Rd., Ningbo 315100, Zhejiang, China
| | - Nicholas A. Besley
- School of Chemistry, University of Nottingham, Nottingham NG7 2RD, United Kingdom
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Besley NA. Fast Time-Dependent Density Functional Theory Calculations of the X-ray Absorption Spectroscopy of Large Systems. J Chem Theory Comput 2016; 12:5018-5025. [DOI: 10.1021/acs.jctc.6b00656] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Nicholas A. Besley
- School of Chemistry, University of Nottingham, University
Park, Nottingham, NG7 2RD, U.K
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Wadey JD, Besley NA. Quantum Chemical Calculations of X-ray Emission Spectroscopy. J Chem Theory Comput 2015; 10:4557-64. [PMID: 26588149 DOI: 10.1021/ct500566k] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The calculation of X-ray emission spectroscopy with equation of motion coupled cluster theory (EOM-CCSD), time-dependent density functional theory (TDDFT), and resolution of the identity single excitation configuration interaction with second-order perturbation theory (RI-CIS(D)) is studied. These methods can be applied to calculate X-ray emission transitions by using a reference determinant with a core-hole, and they provide a convenient approach to compute the X-ray emission spectroscopy of large systems since all of the required states can be obtained within a single calculation, removing the need to perform a separate calculation for each state. For all of the methods, basis sets with the inclusion of additional basis functions to describe core orbitals are necessary, particularly when studying transitions involving the 1s orbitals of heavier nuclei. EOM-CCSD predicts accurate transition energies when compared with experiment; however, its application to larger systems is restricted by its computational cost and difficulty in converging the CCSD equations for a core-hole reference determinant, which become increasing problematic as the size of the system studied increases. While RI-CIS(D) gives accurate transition energies for small molecules containing first row nuclei, its application to larger systems is limited by the CIS states providing a poor zeroth-order reference for perturbation theory which leads to very large errors in the computed transition energies for some states. TDDFT with standard exchange-correlation functionals predicts transition energies that are much larger than experiment. Optimization of a hybrid and short-range corrected functional to predict the X-ray emission transitions results in much closer agreement with EOM-CCSD. The most accurate exchange-correlation functional identified is a modified B3LYP hybrid functional with 66% Hartree-Fock exchange, denoted B(66)LYP, which predicts X-ray emission spectra for a range of molecules including fluorobenzene, nitrobenzene, acetone, dimethyl sulfoxide, and CF3Cl in good agreement with experiment.
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Affiliation(s)
- Jack D Wadey
- School of Chemistry, University of Nottingham , University Park, Nottingham, NG7 2RD, U.K
| | - Nicholas A Besley
- School of Chemistry, University of Nottingham , University Park, Nottingham, NG7 2RD, U.K
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Cabral do Couto P, Hollas D, Slavíček P. On the Performance of Optimally Tuned Range-Separated Hybrid Functionals for X-ray Absorption Modeling. J Chem Theory Comput 2015; 11:3234-44. [DOI: 10.1021/acs.jctc.5b00066] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Paulo Cabral do Couto
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická
5, Prague 6, 16628, Czech Republic
| | - Daniel Hollas
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická
5, Prague 6, 16628, Czech Republic
| | - Petr Slavíček
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická
5, Prague 6, 16628, Czech Republic
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Bernadotte S, Atkins AJ, Jacob CR. Origin-independent calculation of quadrupole intensities in X-ray spectroscopy. J Chem Phys 2013. [PMID: 23205980 DOI: 10.1063/1.4766359] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
For electronic excitations in the ultraviolet and visible range of the electromagnetic spectrum, the intensities are usually calculated within the dipole approximation, which assumes that the oscillating electric field is constant over the length scale of the transition. For the short wavelengths used in hard X-ray spectroscopy, the dipole approximation may not be adequate. In particular, for metal K-edge X-ray absorption spectroscopy (XAS), it becomes necessary to include higher-order contributions. In quantum-chemical approaches to X-ray spectroscopy, these so-called quadrupole intensities have so far been calculated by including contributions depending on the square of the electric-quadrupole and magnetic-dipole transition moments. However, the resulting quadrupole intensities depend on the choice of the origin of the coordinate system. Here, we show that for obtaining an origin-independent theory, one has to include all contributions that are of the same order in the wave vector consistently. This leads to two additional contributions depending on products of the electric-dipole and electric-octupole and of the electric-dipole and magnetic-quadrupole transition moments, respectively. We have implemented such an origin-independent calculation of quadrupole intensities in XAS within time-dependent density-functional theory, and demonstrate its usefulness for the calculation of metal and ligand K-edge XAS spectra of transition metal complexes.
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Affiliation(s)
- Stephan Bernadotte
- Karlsruhe Institute of Technology (KIT), Center for Functional Nanostructures, Wolfgang-Gaede-Str. 1a, 76131 Karlsruhe, Germany
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12
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Accurate time-dependent density functional theory calculations of the near edge X-ray absorption fine structure of large systems. Theor Chem Acc 2012. [DOI: 10.1007/s00214-012-1267-y] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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13
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Lasinski ME, Romero NA, Brown ST, Blaudeau JP. Recent performance improvements to the DFT and TDDFT in GAMESS. J Comput Chem 2012; 33:723-31. [DOI: 10.1002/jcc.22890] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2011] [Revised: 09/28/2011] [Accepted: 10/18/2011] [Indexed: 11/11/2022]
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Besley NA, Asmuruf FA. Time-dependent density functional theory calculations of the spectroscopy of core electrons. Phys Chem Chem Phys 2010; 12:12024-39. [PMID: 20714478 DOI: 10.1039/c002207a] [Citation(s) in RCA: 170] [Impact Index Per Article: 12.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Recent advances in X-ray sources have led to a renaissance in spectroscopic techniques in the X-ray region. These techniques that involve the excitation of core electrons can provide an atom specific probe of electronic structure and provide powerful analytical tools that are used in many fields of research. Theoretical calculations can often play an important role in the analysis and interpretation of experimental spectra. In this perspective, we review recent developments in quantum chemical calculations of X-ray absorption spectra, focusing on the use of time-dependent density functional theory to study core excitations. The practical application of these calculations is illustrated with examples drawn from surface science and bioinorganic chemistry, and the application of these methods to study X-ray emission spectroscopy is explored.
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Affiliation(s)
- Nicholas A Besley
- School of Chemistry, University of Nottingham, University Park, Nottingham NG7 2RD, UK.
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15
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Schmidt N, Fink R, Hieringer W. Assignment of near-edge x-ray absorption fine structure spectra of metalloporphyrins by means of time-dependent density-functional calculations. J Chem Phys 2010; 133:054703. [DOI: 10.1063/1.3435349] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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16
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Akama T, Imamura Y, Nakai H. Application of Real-time Time-dependent Density Functional Theory with the CVB3LYP Functional to Core Excitations. CHEM LETT 2010. [DOI: 10.1246/cl.2010.407] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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17
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Thompson A, Saha S, Wang F, Tsuchimochi T, Nakata A, Imamura Y, Nakai H. Density Functional Study on Core Ionization Spectra of Cytidine and Its Fragments. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2009. [DOI: 10.1246/bcsj.82.187] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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