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Bodo F, Erba A, Kraka E, Moura RT. Chemical bonding in Uranium-based materials: A local vibrational mode case study of Cs 2 UO 2 Cl 4 and UCl 4 crystals. J Comput Chem 2024; 45:1130-1142. [PMID: 38279637 DOI: 10.1002/jcc.27311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2023] [Revised: 12/10/2023] [Accepted: 01/08/2024] [Indexed: 01/28/2024]
Abstract
The Local Vibrational Mode Analysis, initially applied to diverse molecular systems, was extended to periodic systems in 2019. This work introduces an enhanced version of the LModeA software, specifically designed for the comprehensive analysis of two and three-dimensional periodic structures. Notably, a novel interface with the Crystal package was established, enabling a seamless transition from molecules to periodic systems using a unified methodology. Two distinct sets of uranium-based systems were investigated: (i) the evolution of the Uranyl ion (UO 2 2 + ) traced from its molecular configurations to the solid state, exemplified by Cs 2 UO 2 Cl 4 and (ii) Uranium tetrachloride (UCl 4 ) in both its molecular and crystalline forms. The primary focus was on exploring the impact of crystal packing on key properties, including IR and Raman spectra, structural parameters, and an in-depth assessment of bond strength utilizing local mode perspectives. This work not only demonstrates the adaptability and versatility of LModeA for periodic systems but also highlights its potential for gaining insights into complex materials and aiding in the design of new materials through fine-tuning.
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Affiliation(s)
- Filippo Bodo
- Computational and Theoretical Chemistry Group (CATCO), Department of Chemistry, Southern Methodist University, Dallas, Texas, USA
- Dipartimento di Chimica, Università di Torino, Torino, Italy
| | - Alessandro Erba
- Dipartimento di Chimica, Università di Torino, Torino, Italy
| | - Elfi Kraka
- Computational and Theoretical Chemistry Group (CATCO), Department of Chemistry, Southern Methodist University, Dallas, Texas, USA
| | - Renaldo T Moura
- Computational and Theoretical Chemistry Group (CATCO), Department of Chemistry, Southern Methodist University, Dallas, Texas, USA
- Department of Chemistry and Physics, Center of Agrarian Sciences, Federal University of Paraiba, Areia, Brazil
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2
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Erba A, Desmarais JK, Casassa S, Civalleri B, Donà L, Bush IJ, Searle B, Maschio L, Edith-Daga L, Cossard A, Ribaldone C, Ascrizzi E, Marana NL, Flament JP, Kirtman B. CRYSTAL23: A Program for Computational Solid State Physics and Chemistry. J Chem Theory Comput 2023; 19:6891-6932. [PMID: 36502394 PMCID: PMC10601489 DOI: 10.1021/acs.jctc.2c00958] [Citation(s) in RCA: 20] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Indexed: 12/14/2022]
Abstract
The Crystal program for quantum-mechanical simulations of materials has been bridging the realm of molecular quantum chemistry to the realm of solid state physics for many years, since its first public version released back in 1988. This peculiarity stems from the use of atom-centered basis functions within a linear combination of atomic orbitals (LCAO) approach and from the corresponding efficiency in the evaluation of the exact Fock exchange series. In particular, this has led to the implementation of a rich variety of hybrid density functional approximations since 1998. Nowadays, it is acknowledged by a broad community of solid state chemists and physicists that the inclusion of a fraction of Fock exchange in the exchange-correlation potential of the density functional theory is key to a better description of many properties of materials (electronic, magnetic, mechanical, spintronic, lattice-dynamical, etc.). Here, the main developments made to the program in the last five years (i.e., since the previous release, Crystal17) are presented and some of their most noteworthy applications reviewed.
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Affiliation(s)
- Alessandro Erba
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Jacques K. Desmarais
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Silvia Casassa
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Bartolomeo Civalleri
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Lorenzo Donà
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Ian J. Bush
- STFC
Rutherford Appleton Laboratory, Chilton Didcot, Oxfordshire OX11 0QX, United Kingdom
| | - Barry Searle
- SFTC
Daresbury Laboratory, Daresbury, Cheshire WA4 4AD, United Kingdom
| | - Lorenzo Maschio
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Loredana Edith-Daga
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Alessandro Cossard
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Chiara Ribaldone
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Eleonora Ascrizzi
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Naiara L. Marana
- Dipartimento
di Chimica, Università di Torino, via Giuria 5, 10125 Torino, Italy
| | - Jean-Pierre Flament
- Université
de Lille, CNRS, UMR 8523 — PhLAM — Physique des Lasers, Atomes et Molécules, 59000 Lille, France
| | - Bernard Kirtman
- Department
of Chemistry and Biochemistry, University
of California, Santa
Barbara, California 93106, United States
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Birdeanu M, Fratilescu I, Epuran C, Mocanu L, Ianasi C, Lascu A, Fagadar-Cosma E. Nanomaterials Based on Collaboration with Multiple Partners: Zn 3Nb 2O 8 Doped with Eu 3+ and/or Amino Substituted Porphyrin Incorporated in Silica Matrices for the Discoloration of Methyl Red. Int J Mol Sci 2023; 24:ijms24108920. [PMID: 37240266 DOI: 10.3390/ijms24108920] [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: 04/07/2023] [Revised: 05/09/2023] [Accepted: 05/16/2023] [Indexed: 05/28/2023] Open
Abstract
Designing appropriate materials destined for the removal of dyes from waste waters represents a great challenge for achieving a sustainable society. Three partnerships were set up to obtain novel adsorbents with tailored optoelectronic properties using silica matrices, Zn3Nb2O8 oxide doped with Eu3+, and a symmetrical amino-substituted porphyrin. The pseudo-binary oxide with the formula Zn3Nb2O8 was obtained by the solid-state method. The doping of Zn3Nb2O8 with Eu3+ ions was intended in order to amplify the optical properties of the mixed oxide that are highly influenced by the coordination environment of Eu3+ ions, as confirmed by density functional theory (DFT) calculations. The first proposed silica material, based solely on tetraethyl orthosilicate (TEOS) with high specific surface areas of 518-726 m2/g, offered better performance as an adsorbent than the second one, which also contained 3-aminopropyltrimethoxysilane (APTMOS). The contribution of amino-substituted porphyrin incorporated into silica matrices resides both in providing anchoring groups for the methyl red dye and in increasing the optical properties of the whole nanomaterial. Two different types of methyl red adsorption mechanisms can be reported: one based on surface absorbance and one based on the dye entering the pores of the adsorbents due to their open groove shape network.
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Affiliation(s)
- Mihaela Birdeanu
- National Institute for Research and Development in Electrochemistry and Condensed Matter, Plautius Andronescu Street 1, 300224 Timisoara, Romania
| | - Ion Fratilescu
- Institute of Chemistry "Coriolan Dragulescu", Mihai Viteazu Ave. 24, 300223 Timisoara, Romania
| | - Camelia Epuran
- Institute of Chemistry "Coriolan Dragulescu", Mihai Viteazu Ave. 24, 300223 Timisoara, Romania
| | - Liviu Mocanu
- National Institute for Research and Development in Electrochemistry and Condensed Matter, Plautius Andronescu Street 1, 300224 Timisoara, Romania
| | - Catalin Ianasi
- Institute of Chemistry "Coriolan Dragulescu", Mihai Viteazu Ave. 24, 300223 Timisoara, Romania
| | - Anca Lascu
- Institute of Chemistry "Coriolan Dragulescu", Mihai Viteazu Ave. 24, 300223 Timisoara, Romania
| | - Eugenia Fagadar-Cosma
- Institute of Chemistry "Coriolan Dragulescu", Mihai Viteazu Ave. 24, 300223 Timisoara, Romania
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Vallejo KD, Kabir F, Poudel N, Marianetti CA, Hurley DH, Simmonds PJ, Dennett CA, Gofryk K. Advances in actinide thin films: synthesis, properties, and future directions. REPORTS ON PROGRESS IN PHYSICS. PHYSICAL SOCIETY (GREAT BRITAIN) 2022; 85:123101. [PMID: 36179676 DOI: 10.1088/1361-6633/ac968e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Accepted: 09/30/2022] [Indexed: 06/16/2023]
Abstract
Actinide-based compounds exhibit unique physics due to the presence of 5f electrons, and serve in many cases as important technological materials. Targeted thin film synthesis of actinide materials has been successful in generating high-purity specimens in which to study individual physical phenomena. These films have enabled the study of the unique electron configuration, strong mass renormalization, and nuclear decay in actinide metals and compounds. The growth of these films, as well as their thermophysical, magnetic, and topological properties, have been studied in a range of chemistries, albeit far fewer than most classes of thin film systems. This relative scarcity is the result of limited source material availability and safety constraints associated with the handling of radioactive materials. Here, we review recent work on the synthesis and characterization of actinide-based thin films in detail, describing both synthesis methods and modeling techniques for these materials. We review reports on pyrometallurgical, solution-based, and vapor deposition methods. We highlight the current state-of-the-art in order to construct a path forward to higher quality actinide thin films and heterostructure devices.
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Affiliation(s)
- Kevin D Vallejo
- Condensed Matter and Materials Physics, Idaho National Laboratory, Idaho Falls, ID 83415,United States of America
| | - Firoza Kabir
- Condensed Matter and Materials Physics, Idaho National Laboratory, Idaho Falls, ID 83415,United States of America
- Glenn T Seaborg Institute, Idaho National Laboratory, Idaho Falls, ID 83415, United States of America
| | - Narayan Poudel
- Condensed Matter and Materials Physics, Idaho National Laboratory, Idaho Falls, ID 83415,United States of America
| | - Chris A Marianetti
- Department of Applied Physics and Applied Mathematics, Columbia University, New York, NY 10027, United States of America
| | - David H Hurley
- Condensed Matter and Materials Physics, Idaho National Laboratory, Idaho Falls, ID 83415,United States of America
| | - Paul J Simmonds
- Department of Physics, Boise State University, Boise, ID 83725, United States of America
- Micron School of Materials Science and Engineering, Boise State University, Boise, ID 83725,United States of America
| | - Cody A Dennett
- Condensed Matter and Materials Physics, Idaho National Laboratory, Idaho Falls, ID 83415,United States of America
| | - Krzysztof Gofryk
- Condensed Matter and Materials Physics, Idaho National Laboratory, Idaho Falls, ID 83415,United States of America
- Glenn T Seaborg Institute, Idaho National Laboratory, Idaho Falls, ID 83415, United States of America
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Chalcogen Bonding in the Molecular Dimers of WCh 2 (Ch = S, Se, Te): On the Basic Understanding of the Local Interfacial and Interlayer Bonding Environment in 2D Layered Tungsten Dichalcogenides. Int J Mol Sci 2022; 23:ijms23031263. [PMID: 35163185 PMCID: PMC8835845 DOI: 10.3390/ijms23031263] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2021] [Revised: 01/14/2022] [Accepted: 01/17/2022] [Indexed: 01/28/2023] Open
Abstract
Layered two-dimensional transition metal dichalcogenides and their heterostructures are of current interest, owing to the diversity of their applications in many areas of materials nanoscience and technologies. With this in mind, we have examined the three molecular dimers of the tungsten dichalcogenide series, (WCh2)2 (Ch = S, Se, Te), using density functional theory to provide insight into which interactions, and their specific characteristics, are responsible for the interfacial/interlayer region in the room temperature 2H phase of WCh2 crystals. Our calculations at various levels of theory suggested that the Te···Te chalcogen bonding in (WTe2)2 is weak, whereas the Se···Se and S···S bonding interactions in (WSe2)2 and (WS2)2, respectively, are of the van der Waals type. The presence and character of Ch···Ch chalcogen bonding interactions in the dimers of (WCh2)2 are examined with a number of theoretical approaches and discussed, including charge-density-based approaches, such as the quantum theory of atoms in molecules, interaction region indicator, independent gradient model, and reduced density gradient non-covalent index approaches. The charge-density-based topological features are shown to be concordant with the results that originate from the extrema of potential on the electrostatic surfaces of WCh2 monomers. A natural bond orbital analysis has enabled us to suggest a number of weak hyperconjugative charge transfer interactions between the interacting monomers that are responsible for the geometry of the (WCh2)2 dimers at equilibrium. In addition to other features, we demonstrate that there is no so-called van der Waals gap between the monolayers in two-dimensional layered transition metal tungsten dichalcogenides, which are gapless, and that the (WCh2)2 dimers may be prototypes for a basic understanding of the physical chemistry of the chemical bonding environments associated with the local interfacial/interlayer regions in layered 2H-WCh2 nanoscale systems.
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Yu X, Sergentu DC, Feng R, Autschbach J. Covalency of Trivalent Actinide Ions with Different Donor Ligands: Do Density Functional and Multiconfigurational Wavefunction Calculations Corroborate the Observed "Breaks"? Inorg Chem 2021; 60:17744-17757. [PMID: 34747167 DOI: 10.1021/acs.inorgchem.1c02374] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
A comprehensive ab initio study of periodic actinide-ligand bonding trends for trivalent actinides is performed. Relativistic density functional theory (DFT) and complete active-space (CAS) self-consistent field wavefunction calculations are used to dissect the chemical bonding in the [AnCl6]3-, [An(CN)6]3-, [An(NCS)6]3-, [An(S2PMe2)3], [An(DPA)3]3-, and [An(HOPO)]- series of actinide (An = U-Es) complexes. Except for some differences for the early actinide complexes with DPA, bond orders and excess 5f-shell populations from donation bonding show qualitatively similar trends in 5f n active-space CAS vs DFT calculations. The influence of spin-orbit coupling on donation bonding is small for the tested systems. Along the actinide series, chemically soft vs chemically harder ligands exhibit clear differences in bonding trends. There are pronounced changes in the 5f populations when moving from Pu to Am or Cm, which correlate with previously noted "breaks" in chemical trends. Bonding involving 5f becomes very weak beyond Cm/Bk. We propose that Cm(III) is a borderline case among the trivalent actinides that can be meaningfully considered to be involved in ground-state 5f covalent bonding.
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Affiliation(s)
- Xiaojuan Yu
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260-3000, United States
| | - Dumitru-Claudiu Sergentu
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260-3000, United States
| | - Rulin Feng
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260-3000, United States
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260-3000, United States
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7
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Revisiting UF6, NpF6 and PuF6 for bonding and molecular surface analysis within density functional theory: Comparative study at the different theory levels with the same basis set. Polyhedron 2021. [DOI: 10.1016/j.poly.2021.115452] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Cossard A, Casassa S, Gatti C, Desmarais JK, Erba A. Topology of the Electron Density and of Its Laplacian from Periodic LCAO Calculations on f-Electron Materials: The Case of Cesium Uranyl Chloride. Molecules 2021; 26:4227. [PMID: 34299502 PMCID: PMC8303866 DOI: 10.3390/molecules26144227] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2021] [Revised: 07/06/2021] [Accepted: 07/08/2021] [Indexed: 11/28/2022] Open
Abstract
The chemistry of f-electrons in lanthanide and actinide materials is yet to be fully rationalized. Quantum-mechanical simulations can provide useful complementary insight to that obtained from experiments. The quantum theory of atoms in molecules and crystals (QTAIMAC), through thorough topological analysis of the electron density (often complemented by that of its Laplacian) constitutes a general and robust theoretical framework to analyze chemical bonding features from a computed wave function. Here, we present the extension of the Topond module (previously limited to work in terms of s-, p- and d-type basis functions only) of the Crystal program to f- and g-type basis functions within the linear combination of atomic orbitals (LCAO) approach. This allows for an effective QTAIMAC analysis of chemical bonding of lanthanide and actinide materials. The new implemented algorithms are applied to the analysis of the spatial distribution of the electron density and its Laplacian of the cesium uranyl chloride, Cs2UO2Cl4, crystal. Discrepancies between the present theoretical description of chemical bonding and that obtained from a previously reconstructed electron density by experimental X-ray diffraction are illustrated and discussed.
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Affiliation(s)
- Alessandro Cossard
- Dipartimento di Chimica, Università di Torino, Via Giuria 5, 10125 Torino, Italy; (A.C.); (S.C.)
| | - Silvia Casassa
- Dipartimento di Chimica, Università di Torino, Via Giuria 5, 10125 Torino, Italy; (A.C.); (S.C.)
| | - Carlo Gatti
- CNR-SCITEC, Istituto di Scienze e Tecnologie Chimiche “Giulio Natta”, Via C. Golgi 19, 20133 Milano, Italy;
| | - Jacques K. Desmarais
- Dipartimento di Chimica, Università di Torino, Via Giuria 5, 10125 Torino, Italy; (A.C.); (S.C.)
| | - Alessandro Erba
- Dipartimento di Chimica, Università di Torino, Via Giuria 5, 10125 Torino, Italy; (A.C.); (S.C.)
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Desmarais JK, Bi W, Zhao J, Hu MH, Alp E, Tse JS. 57Fe Mössbauer isomer shift of pure iron and iron oxides at high pressure-An experimental and theoretical study. J Chem Phys 2021; 154:214104. [PMID: 34240999 DOI: 10.1063/5.0048141] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
The 57Fe isomer shift (IS) of pure iron has been measured up to 100 GPa using synchrotron Mössbauer spectroscopy in the time domain. Apart from the expected discontinuity due to the α → ε structural and spin transitions, the IS decreases monotonically with increasing pressure. The absolute shifts were reproduced without semi-empirical calibrations by periodic density functional calculations employing extensive localized basis sets with several common density functionals. However, the best numerical agreement is obtained with the B1WC hybrid functional. Extension of the calculations to 350 GPa, a pressure corresponding to the Earth's inner core, predicted the IS range of 0.00 to -0.85 mm/s, covering the span from Fe(0) to Fe(VI) compounds measured at ambient pressure. The calculations also reproduced the pressure trend from polymorphs of prototypical iron oxide minerals, FeO and Fe2O3. Analysis of the electronic structure shows a strong donation of electrons from oxygen to iron at high pressure. The assignment of formal oxidation to the Fe atom becomes ambiguous under this condition.
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Affiliation(s)
- Jacques K Desmarais
- Department of Physics and Engineering Physics, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E2, Canada
| | - Wenli Bi
- Department of Physics, University of Alabama at Birmingham, Birmingham, Alabama 35294, USA
| | - Jiyong Zhao
- Advanced Photon Source, Argonne National Laboratory, 9700 S. Cass Avenue, Argonne, Illinois 60439, USA
| | - Michael H Hu
- Advanced Photon Source, Argonne National Laboratory, 9700 S. Cass Avenue, Argonne, Illinois 60439, USA
| | - Esen Alp
- Advanced Photon Source, Argonne National Laboratory, 9700 S. Cass Avenue, Argonne, Illinois 60439, USA
| | - John S Tse
- Department of Physics and Engineering Physics, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E2, Canada
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