1
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Mouats N, Djellali S, Ferkous H, Sedik A, Delimi A, Boublia A, Rachedi KO, Berredjem M, Çukurovali A, Alam M, Ernsti B, Benguerba Y. Comprehensive Investigation of the Adsorption, Corrosion Inhibitory Properties, and Quantum Calculations for 2-(2,4,5-Trimethoxybenzylidene) Hydrazine Carbothioamide in Mitigating Corrosion of XC38 Carbon Steel under HCl Environment. ACS OMEGA 2024; 9:27945-27962. [PMID: 38973843 PMCID: PMC11223226 DOI: 10.1021/acsomega.3c10240] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/21/2023] [Revised: 06/02/2024] [Accepted: 06/06/2024] [Indexed: 07/09/2024]
Abstract
This study investigates the inhibitory effects of 2-(2,4,5-trimethoxy benzylidene) hydrazine carbothioamide (TMBHCA) on the corrosion of carbon steel in a 1 M HCl solution across various concentrations. The assessment employs a comprehensive approach, combining gravimetric analysis, potentiodynamic polarization tests, and electrochemical impedance spectroscopy (EIS). Additionally, scanning electron microscopy (SEM) and quantum chemical calculations are employed to provide a thorough understanding of the corrosion inhibition mechanism. The influence of exposure time on mild steel corrosion is systematically examined. Results reveal a remarkable reduction in the corrosion rate of steel, with TMBHCA demonstrating its highest inhibition efficiency of 97.8% at 200 ppm. Potentiodynamic polarization studies characterize TMBHCA as a mixed-type inhibitor, while Nyquist plots illustrate increased charge transfer resistance and decreased double-layer capacitance with escalating TMBHCA concentrations. Consistency between weight loss measurements and electrochemical findings further validates the efficacy of TMBHCA as a corrosion inhibitor. SEM images substantiate and visually support the obtained results. An immersion test conducted at 25 °C over 28 days showcases a notable enhancement in TMBHCA efficiency (IE%) from 45.16% to 92.43% at 200 ppm as the immersion period progresses from 1 day to 28 days. This improvement is attributed to the augmented adsorption of inhibitor molecules on the steel surface over time. These comprehensive findings significantly contribute to our understanding of TMBHCA's corrosion inhibition behavior, emphasizing its potential as a highly efficient corrosion inhibitor for diverse industrial applications.
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Affiliation(s)
- Nadia Mouats
- Département
de Technologie, Université20 Août
1955-Skikda, Skikda 21000, Algeria
| | - Souad Djellali
- Laboratoire
de Physico-Chimie des Hauts Polymères (LPCHP), Faculty of Technology, University of Ferhat Abbas Setif 1, Setif 19000, Algeria
| | - Hana Ferkous
- Département
de Technologie, Université20 Août
1955-Skikda, Skikda 21000, Algeria
- Laboratoire
de Génie Mécanique et Matériaux, Faculté
de Technologie, Université 20 Août
1955-Skikda, Skikda 21000, Algeria
| | - Amel Sedik
- Scientific
and Technical Research Center in Physico-chemical Analysis. BP 384, Bou-Ismail industrial zone, Tipaza RP 42004, Algeria
- Nanomaterials,
corrosion and surface treatment laboratory (LNMCT), BP 12, Badji Mokhtar University, Annaba 23000, Algeria
| | - Amel Delimi
- Département
de Technologie, Université20 Août
1955-Skikda, Skikda 21000, Algeria
- Laboratoire
de Génie Mécanique et Matériaux, Faculté
de Technologie, Université 20 Août
1955-Skikda, Skikda 21000, Algeria
| | - Abir Boublia
- Laboratoire
de Physico-Chimie des Hauts Polymères (LPCHP), Faculty of Technology, University of Ferhat Abbas Setif 1, Setif 19000, Algeria
| | - Khadidja Otmane Rachedi
- Laboratory
of Applied Organic Chemistry LCOA, Synthesis of biomolecules and molecular
modelingGroup, Badji -Mokhtar - Annaba University, Box 12 Annaba, 23000, Algeria
| | - Malika Berredjem
- Laboratory
of Applied Organic Chemistry LCOA, Synthesis of biomolecules and molecular
modelingGroup, Badji -Mokhtar - Annaba University, Box 12 Annaba, 23000, Algeria
| | - Alaaddin Çukurovali
- Department
of Chemistry, Faculty of Sciences, Firat
University, Elazĭ 23119, Turkey
| | - Manawwer Alam
- Department
of Chemistry, College of Science, King Saud
University, PO Box 2455, Riyadh 11451, Saudi Arabia
| | - Barbara Ernsti
- Laboratoire
de Reconnaissance et Procédés de Séparation Moléculaire
(RePSeM), Université de Strasbourg,
CNRS, IPHC UMR 7178, ECPM 25 rue Becquerel, Strasbourg F-67000, France
| | - Yacine Benguerba
- Laboratoire
de Biopharmacie Et Pharmacotechnie (LBPT), Ferhat Abbas Setif 1 University, Setif 19000, Algeria
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Wibowo-Teale M, Huynh BC, Wibowo-Teale AM, De Proft F, Geerlings P. Symmetry and reactivity of π-systems in electric and magnetic fields: a perspective from conceptual DFT. Phys Chem Chem Phys 2024; 26:15156-15180. [PMID: 38747576 PMCID: PMC11135622 DOI: 10.1039/d4cp00799a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 04/30/2024] [Indexed: 05/30/2024]
Abstract
The extension of conceptual density-functional theory (conceptual DFT) to include external electromagnetic fields in chemical systems is utilised to investigate the effects of strong magnetic fields on the electronic charge distribution and its consequences on the reactivity of π-systems. Formaldehyde, H2CO, is considered as a prototypical example and current-density-functional theory (current-DFT) calculations are used to evaluate the electric dipole moment together with two principal local conceptual DFT descriptors, the electron density and the Fukui functions, which provide insight into how H2CO behaves chemically in a magnetic field. In particular, the symmetry properties of these quantities are analysed on the basis of group, representation, and corepresentation theories using a recently developed automatic program for symbolic symmetry analysis, QSYM2. This allows us to leverage the simple symmetry constraints on the macroscopic electric dipole moment components to make profound predictions on the more nuanced symmetry transformation properties of the microscopic frontier molecular orbitals (MOs), electron densities, and Fukui functions. This is especially useful for complex-valued MOs in magnetic fields whose detailed symmetry analyses lead us to define the new concepts of modular and phasal symmetry breaking. Through these concepts, the deep connection between the vanishing constraints on the electric dipole moment components and the symmetry of electron densities and Fukui functions can be formalised, and the inability of the magnetic field in all three principal orientations considered to induce asymmetry with respect to the molecular plane of H2CO can be understood from a molecular perspective. Furthermore, the detailed forms of the Fukui functions reveal a remarkable reversal in the direction of the dipole moment along the CO bond in the presence of a parallel or perpendicular magnetic field, the origin of which can be attributed to the mixing between the frontier MOs due to their subduced symmetries in magnetic fields. The findings in this work are also discussed in the wider context of a long-standing debate on the possibility to create enantioselectivity by external fields.
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Affiliation(s)
- Meilani Wibowo-Teale
- School of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
| | - Bang C Huynh
- School of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
| | - Andrew M Wibowo-Teale
- School of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
| | - Frank De Proft
- Research group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
| | - Paul Geerlings
- Research group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
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3
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Mikkelsen JES, Jensen F. Ambiguities in Decomposing Molecular Polarizability into Atomic Charge Flow and Induced Dipole Contributions. J Phys Chem A 2024; 128:4168-4175. [PMID: 38743593 DOI: 10.1021/acs.jpca.4c01890] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/16/2024]
Abstract
The molecular dipole polarizability can be decomposed into components corresponding to the charge flow between atoms and changes in atomic dipole moments. Such decompositions are recognized to depend on how atoms are defined within a molecule, as, for example, by Hirshfeld, iterative Stockholder, or quantum topology partitioning of the electron density. For some of these, however, there are significant differences between the numerical results obtained by analytical response methods and finite field calculations. We show that this difference is due to analytical response methods accounting for (only) the change in electron density by a perturbation, while finite field methods may also include a component corresponding to a perturbation-dependent change in the definition of an atom within a molecule. For some atom-in-molecule definitions, such as the iterative Hirshfeld, iterative Stockholder, and quantum topology methods, the latter effect significantly increases the charge flow component. The decomposition of molecular polarizability into atomic charge flow and induced dipole components thus depends on whether the atom-in-molecule definition is taken to be perturbation-dependent.
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Affiliation(s)
- Jonas E S Mikkelsen
- Department of Chemistry, Aarhus University, Langelandsgade 140, DK-8000 Aarhus, Denmark
| | - Frank Jensen
- Department of Chemistry, Aarhus University, Langelandsgade 140, DK-8000 Aarhus, Denmark
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Wang B, Geerlings P, Liu S, De Proft F. Extending the Scope of Conceptual Density Functional Theory with Second Order Analytical Methodologies. J Chem Theory Comput 2024. [PMID: 38310523 DOI: 10.1021/acs.jctc.3c01184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2024]
Abstract
In the context of the growing impact of conceptual density functional theory (DFT) as one of the most successful chemical reactivity theories, response functions up to second order have now been widely applied; in recent years, among others, particular attention has been focused on the linear response function and also extensions to higher order have been put forward. As the larger part of these studies have been carried using a finite difference approach to compute these concepts, we now embarked on (an extension of) an analytical approach to conceptual DFT. With the ultimate aim of providing a complete set of analytically computable second order properties, including the softness and hardness kernels, the hardness as the simplest second order response function is scrutinized again with numerical results highlighting the difference in nature between the analytical hardness (referred to as hardness condition) and the Parr-Pearson absolute chemical hardness. The hardness condition is investigated for its capability to gauge the (de)localization error of density functional approximations (DFAs). The analytical Fukui function, besides overcoming the difficulties in the finite difference approach in treating negatively charged systems, also showcases the errors of deviating from the straight-line behavior using fractional occupation number calculations. Subsequently, the softness kernel and its atom-condensed inverse, the hardness matrix, are accessed through the Berkowitz-Parr relation. Revisiting the softness kernel confirms and extends previous discussions on how Kohn's Nearsightedness of Electronic Matter principle can be retrieved and identified as the physicist's version of the chemist's "transferability of functional groups" concept. The accurate, analytical hardness matrix evaluation on the other hand provides further support for the basics of Nalewajski's charge sensitivity analysis. Based on Parr and Liu's functional expansion of the energy functional, a new energy decomposition is introduced with an order of magnitude analysis of the different terms for a series of simple molecules both at their equilibrium geometry and upon variation in bond length and dihedral angle. Finally, for the first time, the perturbation expansion of the energy functional is studied numerically up to second order now that all response functions and integration techniques are at hand. The perturbation expansion energies are in excellent agreement with those obtained directly from DFA calculations giving confidence in the convergence of the perturbation series and its use in judging the importance of the different terms in reactivity investigations.
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Affiliation(s)
- Bin Wang
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium
| | - Paul Geerlings
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, United States
- Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599-3290, United States
| | - Frank De Proft
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium
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5
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Alonso M, Bettens T, Eeckhoudt J, Geerlings P, De Proft F. Wandering through quantum-mechanochemistry: from concepts to reactivity and switches. Phys Chem Chem Phys 2023; 26:21-35. [PMID: 38086672 DOI: 10.1039/d3cp04907h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2023]
Abstract
Mechanochemistry has experienced a renaissance in recent years witnessing, at the molecular level, a remarkable interplay between theory and experiment. Molecular mechanochemistry has welcomed a broad spectrum of quantum-chemical methods to evaluate the influence of an external mechanical force on molecular properties. In this contribution, an overview is given on recent work on quantum mechanochemistry in the Brussels Quantum Chemistry group (ALGC). The effect of an external force was scrutinized both in fundamental topics, like reactivity descriptors in Conceptual DFT, and in applied topics, such as designing molecular force probes and tuning the stereoselectivity of certain types of reactions. In the conceptual part, a brief overview of the techniques introducing mechanical forces into a quantum-mechanical description of a molecule is followed by an introduction to conceptual DFT. The evolution of the electronic chemical potential (or electronegativity), chemical hardness and electrophilicity are investigated when a chemical bond in a series of diatomics is put under mechanical stress. Its counterpart, the influence of mechanical stress on bond angles, is analyzed by varying the strain present in alkyne triple bonds by applying a bending force, taking the strain promoted alkyne-azide coupling cycloaddition as an example. The increase of reactivity of the alkyne upon bending is probed by Fukui functions and the local softness. In the applied part, a new molecular force probe is presented based on an intramolecular 6π-electrocyclization in constrained polyenes operating under thermal conditions. A cyclic process is conceived where ring opening and closure are triggered by applying or removing an external pulling force. The efficiency of mechanical activation strongly depends on the magnitude of the applied force and the distance between the pulling points. The idea of pulling point distances as a tool to identify new mechanochemical processes is then tested in [28]hexaphyrins with an intricate equilibrium between Möbius aromatic and Hückel antiaromatic topologies. A mechanical force is shown to trigger the interconversion between the two topologies, using the distance matrix as a guide to select appropriate pulling points. In a final application, the Felkin-Anh model for the addition of nucleophiles to chiral carbonyls under the presence of an external mechanical force is scrutinized. By applying a force for restricting the conformational freedom of the chiral ketone, otherwise inaccessible reaction pathways are promoted on the force-modified potential energy surfaces resulting in a diastereoselectivity different from the force-free reaction.
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Affiliation(s)
- Mercedes Alonso
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium.
| | - Tom Bettens
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium.
| | - Jochen Eeckhoudt
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium.
| | - Paul Geerlings
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium.
| | - Frank De Proft
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium.
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6
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Kumari S, Thakur M, Chauhan C, Kumari M. Synthesis, characterization, biological activity and computation-based efficacy of cobalt(II) complexes of biphenyl-2-ol against SARS-CoV-2 virus. J Biomol Struct Dyn 2023:1-15. [PMID: 37990487 DOI: 10.1080/07391102.2023.2283144] [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: 07/13/2023] [Accepted: 11/06/2023] [Indexed: 11/23/2023]
Abstract
Cobalt(II) complexes of biphenyl-2-ol of composition, CoCl2-n(OC6H4C6H5-2)n(H2O)4 (where n = 1 or 2), were prepared by reacting cobaltous(II) chloride with equi- and bimolar ratios of sodium salt of biphenyl-2-ol. The structural characterization of the synthesized complexes was accomplished by NMR, FTIR, thermogravimetry (TGA), high resolution mass spectroscopy (HRMS), electronic spectroscopic techniques coupled with density functional theory (DFT). The stability of the complexes in different pH media of solvent was studied. Chemical reactivity parameters of the newly synthesized complexes, computed using DFT, indicated greater reactivity of complex 2 over complex 1 and free ligand as indicated by its low HOMO-LUMO energy gap corresponding to 1.71 eV. Molecular docking (MD) studies were carried out in order to study the binding affinities between amino acid residues of DNA duplex (PDB ID: 1BNA) and SARS-CoV-2 (PDB ID: 7T9K) with newly synthesized complexes. Complex 2 has shown promising antivirus behaviour with an inhibition constant value of 0.0423 µmol-1 with amino acid residues of SARS-CoV-2 virus. Toxicity of the complexes was predicted using ProTox-II online server. Antibacterial studies have indicated the complexes to exhibit greater efficacy than the free ligand, while the antioxidant activities have suggested them to display enhanced antioxidant behaviour as compared to reference compounds.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Shalima Kumari
- Department of Chemistry, Himachal Pradesh University, Shimla, India
| | - Maridula Thakur
- Department of Chemistry, Himachal Pradesh University, Shimla, India
| | - Chetan Chauhan
- Department of Chemistry, Himachal Pradesh University, Shimla, India
| | - Meena Kumari
- Department of Chemistry, Himachal Pradesh University, Shimla, India
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7
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Pal R, Chattaraj PK. Electrophilicity index revisited. J Comput Chem 2023; 44:278-297. [PMID: 35546516 DOI: 10.1002/jcc.26886] [Citation(s) in RCA: 15] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2022] [Revised: 03/30/2022] [Accepted: 04/22/2022] [Indexed: 01/03/2023]
Abstract
This review aims to be a comprehensive, authoritative, critical, and accessible review of general interest to the chemistry community; because the electrophilicity index is a very useful global reactivity descriptor defined within a conceptual density functional theory framework. Our group has also introduced electrophilicity based new global and local reactivity descriptors and also new associated electronic structure principles, which are important indicators of structure, stability, bonding, reactivity, interactions, and dynamics in a wide variety of physico-chemical systems and processes. This index along with its local counterpart augmented by the associated electronic structure principles could properly explain molecular vibrations, internal rotations and various types of chemical reactions. The concept of the electrophilicity index has been extended to dynamical processes, excited states, confined environment, spin-dependent and temperature-dependent situations, biological activity, site selectivity, aromaticity, charge removal and acceptance, presence of external perturbation through solvents, external electric and magnetic fields, and so forth. Although electrophilicity and its local variant can adequately interpret the behavior of a wide variety of systems and different physico-chemical processes involving them, their predictive potential remains to be explored. An exhaustive review on all these aspects will set the tone of the future research in that direction.
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Affiliation(s)
- Ranita Pal
- Advanced Technology Development Centre, Indian Institute of Technology Kharagpur, Kharagpur, India
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Teale AM, Helgaker T, Savin A, Adamo C, Aradi B, Arbuznikov AV, Ayers PW, Baerends EJ, Barone V, Calaminici P, Cancès E, Carter EA, Chattaraj PK, Chermette H, Ciofini I, Crawford TD, De Proft F, Dobson JF, Draxl C, Frauenheim T, Fromager E, Fuentealba P, Gagliardi L, Galli G, Gao J, Geerlings P, Gidopoulos N, Gill PMW, Gori-Giorgi P, Görling A, Gould T, Grimme S, Gritsenko O, Jensen HJA, Johnson ER, Jones RO, Kaupp M, Köster AM, Kronik L, Krylov AI, Kvaal S, Laestadius A, Levy M, Lewin M, Liu S, Loos PF, Maitra NT, Neese F, Perdew JP, Pernal K, Pernot P, Piecuch P, Rebolini E, Reining L, Romaniello P, Ruzsinszky A, Salahub DR, Scheffler M, Schwerdtfeger P, Staroverov VN, Sun J, Tellgren E, Tozer DJ, Trickey SB, Ullrich CA, Vela A, Vignale G, Wesolowski TA, Xu X, Yang W. DFT exchange: sharing perspectives on the workhorse of quantum chemistry and materials science. Phys Chem Chem Phys 2022; 24:28700-28781. [PMID: 36269074 PMCID: PMC9728646 DOI: 10.1039/d2cp02827a] [Citation(s) in RCA: 62] [Impact Index Per Article: 31.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2022] [Accepted: 08/09/2022] [Indexed: 12/13/2022]
Abstract
In this paper, the history, present status, and future of density-functional theory (DFT) is informally reviewed and discussed by 70 workers in the field, including molecular scientists, materials scientists, method developers and practitioners. The format of the paper is that of a roundtable discussion, in which the participants express and exchange views on DFT in the form of 302 individual contributions, formulated as responses to a preset list of 26 questions. Supported by a bibliography of 777 entries, the paper represents a broad snapshot of DFT, anno 2022.
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Affiliation(s)
- Andrew M. Teale
- School of Chemistry, University of Nottingham, University ParkNottinghamNG7 2RDUK
| | - Trygve Helgaker
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033 Blindern, N-0315 Oslo, Norway.
| | - Andreas Savin
- Laboratoire de Chimie Théorique, CNRS and Sorbonne University, 4 Place Jussieu, CEDEX 05, 75252 Paris, France.
| | - Carlo Adamo
- PSL University, CNRS, ChimieParisTech-PSL, Institute of Chemistry for Health and Life Sciences, i-CLeHS, 11 rue P. et M. Curie, 75005 Paris, France.
| | - Bálint Aradi
- Bremen Center for Computational Materials Science, University of Bremen, P.O. Box 330440, D-28334 Bremen, Germany.
| | - Alexei V. Arbuznikov
- Technische Universität Berlin, Institut für Chemie, Theoretische Chemie/Quantenchemie, Sekr. C7Straße des 17. Juni 13510623Berlin
| | | | - Evert Jan Baerends
- Department of Chemistry and Pharmaceutical Sciences, Faculty of Science, Vrije Universiteit, De Boelelaan 1083, 1081HV Amsterdam, The Netherlands.
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56125 Pisa, Italy.
| | - Patrizia Calaminici
- Departamento de Química, Centro de Investigación y de Estudios Avanzados (Cinvestav), CDMX, 07360, Mexico.
| | - Eric Cancès
- CERMICS, Ecole des Ponts and Inria Paris, 6 Avenue Blaise Pascal, 77455 Marne-la-Vallée, France.
| | - Emily A. Carter
- Department of Mechanical and Aerospace Engineering and the Andlinger Center for Energy and the Environment, Princeton UniversityPrincetonNJ 08544-5263USA
| | | | - Henry Chermette
- Institut Sciences Analytiques, Université Claude Bernard Lyon1, CNRS UMR 5280, 69622 Villeurbanne, France.
| | - Ilaria Ciofini
- PSL University, CNRS, ChimieParisTech-PSL, Institute of Chemistry for Health and Life Sciences, i-CLeHS, 11 rue P. et M. Curie, 75005 Paris, France.
| | - T. Daniel Crawford
- Department of Chemistry, Virginia TechBlacksburgVA 24061USA,Molecular Sciences Software InstituteBlacksburgVA 24060USA
| | - Frank De Proft
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
| | | | - Claudia Draxl
- Institut für Physik and IRIS Adlershof, Humboldt-Universität zu Berlin, 12489 Berlin, Germany. .,Fritz-Haber-Institut der Max-Planck-Gesellschaft, 14195 Berlin, Germany
| | - Thomas Frauenheim
- Bremen Center for Computational Materials Science, University of Bremen, P.O. Box 330440, D-28334 Bremen, Germany. .,Beijing Computational Science Research Center (CSRC), 100193 Beijing, China.,Shenzhen JL Computational Science and Applied Research Institute, 518110 Shenzhen, China
| | - Emmanuel Fromager
- Laboratoire de Chimie Quantique, Institut de Chimie, CNRS/Université de Strasbourg, 4 rue Blaise Pascal, 67000 Strasbourg, France.
| | - Patricio Fuentealba
- Departamento de Física, Facultad de Ciencias, Universidad de Chile, Casilla 653, Santiago, Chile.
| | - Laura Gagliardi
- Department of Chemistry, Pritzker School of Molecular Engineering, The James Franck Institute, and Chicago Center for Theoretical Chemistry, The University of Chicago, Chicago, Illinois 60637, USA.
| | - Giulia Galli
- Pritzker School of Molecular Engineering and Department of Chemistry, The University of Chicago, Chicago, IL, USA.
| | - Jiali Gao
- Institute of Systems and Physical Biology, Shenzhen Bay Laboratory, Shenzhen 518055, China. .,Department of Chemistry, University of Minnesota, Minneapolis, MN 55455, USA
| | - Paul Geerlings
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
| | - Nikitas Gidopoulos
- Department of Physics, Durham University, South Road, Durham DH1 3LE, UK.
| | - Peter M. W. Gill
- School of Chemistry, University of SydneyCamperdown NSW 2006Australia
| | - Paola Gori-Giorgi
- Department of Chemistry and Pharmaceutical Sciences, Amsterdam Institute of Molecular and Life Sciences (AIMMS), Faculty of Science, Vrije Universiteit, De Boelelaan 1083, 1081HV Amsterdam, The Netherlands.
| | - Andreas Görling
- Chair of Theoretical Chemistry, University of Erlangen-Nuremberg, Egerlandstrasse 3, 91058 Erlangen, Germany.
| | - Tim Gould
- Qld Micro- and Nanotechnology Centre, Griffith University, Gold Coast, Qld 4222, Australia.
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry, University of Bonn, Beringstrasse 4, 53115 Bonn, Germany.
| | - Oleg Gritsenko
- Department of Chemistry and Pharmaceutical Sciences, Amsterdam Institute of Molecular and Life Sciences (AIMMS), Faculty of Science, Vrije Universiteit, De Boelelaan 1083, 1081HV Amsterdam, The Netherlands.
| | - Hans Jørgen Aagaard Jensen
- Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, DK-5230 Odense M, Denmark.
| | - Erin R. Johnson
- Department of Chemistry, Dalhousie UniversityHalifaxNova ScotiaB3H 4R2Canada
| | - Robert O. Jones
- Peter Grünberg Institut PGI-1, Forschungszentrum Jülich52425 JülichGermany
| | - Martin Kaupp
- Technische Universität Berlin, Institut für Chemie, Theoretische Chemie/Quantenchemie, Sekr. C7, Straße des 17. Juni 135, 10623, Berlin.
| | - Andreas M. Köster
- Departamento de Química, Centro de Investigación y de Estudios Avanzados (Cinvestav)CDMX07360Mexico
| | - Leeor Kronik
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovoth, 76100, Israel.
| | - Anna I. Krylov
- Department of Chemistry, University of Southern CaliforniaLos AngelesCalifornia 90089USA
| | - Simen Kvaal
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033 Blindern, N-0315 Oslo, Norway.
| | - Andre Laestadius
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033 Blindern, N-0315 Oslo, Norway.
| | - Mel Levy
- Department of Chemistry, Tulane University, New Orleans, Louisiana, 70118, USA.
| | - Mathieu Lewin
- CNRS & CEREMADE, Université Paris-Dauphine, PSL Research University, Place de Lattre de Tassigny, 75016 Paris, France.
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, NC 27599-3420, USA. .,Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599-3290, USA
| | - Pierre-François Loos
- Laboratoire de Chimie et Physique Quantiques (UMR 5626), Université de Toulouse, CNRS, UPS, France.
| | - Neepa T. Maitra
- Department of Physics, Rutgers University at Newark101 Warren StreetNewarkNJ 07102USA
| | - Frank Neese
- Max Planck Institut für Kohlenforschung, Kaiser Wilhelm Platz 1, D-45470 Mülheim an der Ruhr, Germany.
| | - John P. Perdew
- Departments of Physics and Chemistry, Temple UniversityPhiladelphiaPA 19122USA
| | - Katarzyna Pernal
- Institute of Physics, Lodz University of Technology, ul. Wolczanska 219, 90-924 Lodz, Poland.
| | - Pascal Pernot
- Institut de Chimie Physique, UMR8000, CNRS and Université Paris-Saclay, Bât. 349, Campus d'Orsay, 91405 Orsay, France.
| | - Piotr Piecuch
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA. .,Department of Physics and Astronomy, Michigan State University, East Lansing, Michigan 48824, USA
| | - Elisa Rebolini
- Institut Laue Langevin, 71 avenue des Martyrs, 38000 Grenoble, France.
| | - Lucia Reining
- Laboratoire des Solides Irradiés, CNRS, CEA/DRF/IRAMIS, École Polytechnique, Institut Polytechnique de Paris, F-91120 Palaiseau, France. .,European Theoretical Spectroscopy Facility
| | - Pina Romaniello
- Laboratoire de Physique Théorique (UMR 5152), Université de Toulouse, CNRS, UPS, France.
| | - Adrienn Ruzsinszky
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA.
| | - Dennis R. Salahub
- Department of Chemistry, Department of Physics and Astronomy, CMS – Centre for Molecular Simulation, IQST – Institute for Quantum Science and Technology, Quantum Alberta, University of Calgary2500 University Drive NWCalgaryAlbertaT2N 1N4Canada
| | - Matthias Scheffler
- The NOMAD Laboratory at the FHI of the Max-Planck-Gesellschaft and IRIS-Adlershof of the Humboldt-Universität zu Berlin, Faradayweg 4-6, D-14195, Germany.
| | - Peter Schwerdtfeger
- Centre for Theoretical Chemistry and Physics, The New Zealand Institute for Advanced Study, Massey University Auckland, 0632 Auckland, New Zealand.
| | - Viktor N. Staroverov
- Department of Chemistry, The University of Western OntarioLondonOntario N6A 5B7Canada
| | - Jianwei Sun
- Department of Physics and Engineering Physics, Tulane University, New Orleans, LA 70118, USA.
| | - Erik Tellgren
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033 Blindern, N-0315 Oslo, Norway.
| | - David J. Tozer
- Department of Chemistry, Durham UniversitySouth RoadDurhamDH1 3LEUK
| | - Samuel B. Trickey
- Quantum Theory Project, Deptartment of Physics, University of FloridaGainesvilleFL 32611USA
| | - Carsten A. Ullrich
- Department of Physics and Astronomy, University of MissouriColumbiaMO 65211USA
| | - Alberto Vela
- Departamento de Química, Centro de Investigación y de Estudios Avanzados (Cinvestav), CDMX, 07360, Mexico.
| | - Giovanni Vignale
- Department of Physics, University of Missouri, Columbia, MO 65203, USA.
| | - Tomasz A. Wesolowski
- Department of Physical Chemistry, Université de Genève30 Quai Ernest-Ansermet1211 GenèveSwitzerland
| | - Xin Xu
- Shanghai Key Laboratory of Molecular Catalysis and Innovation Materials, Collaborative Innovation Centre of Chemistry for Energy Materials, MOE Laboratory for Computational Physical Science, Department of Chemistry, Fudan University, Shanghai 200433, China.
| | - Weitao Yang
- Department of Chemistry and Physics, Duke University, Durham, NC 27516, USA.
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9
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Fias S, Ayers PW, De Proft F, Geerlings P. Properties of the density functional response kernels and its implications on chemistry. J Chem Phys 2022; 157:114102. [PMID: 36137804 DOI: 10.1063/5.0094653] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
An overview of mathematical properties of the non-local second order derivatives of the canonical, grand canonical, isomorphic, and grand isomorphic ensembles is given. The significance of their positive or negative semidefiniteness and the implications of these properties for atoms and molecules are discussed. Based on this property, many other interesting properties can be derived, such as the expansion in eigenfunctions, bounds on the diagonal and off-diagonal elements, and the eigenvalues of these kernels. We also prove Kato's theorem for the softness kernel and linear response and the dissociation limit of the linear responses as the sum of the linear responses of the individual fragments when dissociating a system into two non-interacting molecular fragments. Finally, strategies for the practical calculation of these kernels, their eigenfunctions, and their eigenvalues are discussed.
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Affiliation(s)
- Stijn Fias
- McMaster University, 1280 Main St. W, Hamilton, Ontario L8S 4L8, Canada
| | - Paul W Ayers
- McMaster University, 1280 Main St. W, Hamilton, Ontario L8S 4L8, Canada
| | - Frank De Proft
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium
| | - Paul Geerlings
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium
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10
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Lander C, Satalkar V, Yang J, Pan X, Pei Z, Chatterji A, Liu C, Nicholas KM, Cichewicz RH, Yang Z, Shao Y. Visualization of Electron Density Changes Along Chemical Reaction Pathways. Mol Phys 2022; 121:e2113566. [PMID: 37638114 PMCID: PMC10448969 DOI: 10.1080/00268976.2022.2113566] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Accepted: 08/09/2022] [Indexed: 10/15/2022]
Abstract
We propose a simple procedure for visualizing the electron density changes (EDC) during a chemical reaction, which is based on a mapping of rectangular grid points for a stationary structure into (distorted) positions around atoms of another stationary structure. Specifically, during a small step along the minimum energy pathway (MEP), the displacement of each grid point is obtained as a linear combination of the motion of all atoms, with the contribution from each atom scaled by the corresponding Hirshfeld weight. For several reactions (identity SN2, Claisen rearrangement, Diels-Alder reaction, [3+2] cycloaddition, and phenylethyl mercaptan attack on pericosine A), our EDC plots showed an expected reduction of electron densities around severed bonds (or those with the bond-order lowered), with the opposite observed for newly-formed or enhanced chemical bonds. The EDC plots were also shown for copper triflate catalyzed N2O fragmentation, where the N-O bond weakening initially occurred on a singlet surface, but continued on a triplet surface after reaching the minimum-energy crossing point (MECP) between the two potential energy surfaces.
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Affiliation(s)
- Chance Lander
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Vardhan Satalkar
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Junjie Yang
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
- School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210046, China
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
| | - Xiaoliang Pan
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Zheng Pei
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Aayushi Chatterji
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Chungen Liu
- School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210046, China
| | - Kenneth M. Nicholas
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Robert H. Cichewicz
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Zhibo Yang
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
| | - Yihan Shao
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, USAc)
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11
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Mahler A, Williams J, Su NQ, Yang W. Localized orbital scaling correction for periodic systems. PHYSICAL REVIEW. B 2022; 106:035147. [PMID: 37727592 PMCID: PMC10508887 DOI: 10.1103/physrevb.106.035147] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/21/2023]
Abstract
Density functional theory offers accurate structure prediction at acceptable computational cost, but commonly used approximations suffer from delocalization error; this results in inaccurate predictions of quantities such as energy band gaps of finite and bulk systems, energy level alignments, and electron distributions at interfaces. The localized orbital scaling correction (LOSC) was developed to correct delocalization error by using orbitals localized in space and energy. These localized orbitals span both the occupied and unoccupied spaces and can have fractional occupations in order to correct both the total energy and the one-electron energy eigenvalues. We extend the LOSC method to periodic systems, in which the localized orbitals employed are dually localized Wannier functions. In light of the effect of the bulk environment on the electrostatic interaction between localized orbitals, we modify the LOSC energy correction to include a screened Coulomb kernel. For a test set of semiconductors and large-gap insulators, we show that the screened LOSC method consistently improves the band gap compared to the parent density functional approximation.
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Affiliation(s)
- Aaron Mahler
- Department of Physics, Duke University, Durham, North Carolina 27708, USA
| | - Jacob Williams
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
| | - Neil Qiang Su
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry (Ministry of Education) and Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin 300071, China
| | - Weitao Yang
- Department of Physics, Duke University, Durham, North Carolina 27708, USA
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
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12
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Zaklika J, Hładyszowski J, Ordon P, Komorowski L. From the Electron Density Gradient to the Quantitative Reactivity Indicators: Local Softness and the Fukui Function. ACS OMEGA 2022; 7:7745-7758. [PMID: 35284764 PMCID: PMC8908489 DOI: 10.1021/acsomega.1c06540] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/19/2021] [Accepted: 01/12/2022] [Indexed: 06/14/2023]
Abstract
Important reactivity measures such as the local softness, the Fukui function, and the global hardness have been calculated directly from first principles with the use of the electron density function, beyond the finite difference approximation. Our recently derived density gradient theorem and the principle of nearsightedness of the electronic matter have been instrumental in obtaining the original, albeit approximate, result on the local softness of an atom. By integration of the local softness s(r), we obtain the global softness S and the Fukui function f(r) = s(r)/S. Local and global softness values have also been calculated analytically for the basic hydrogenic orbitals; the general relation to the atomic number S = σZ -2 has been demonstrated, with constants σ characteristic for each orbital type. Global hardness η = 1/S calculated for atoms and ions has been favorably tested against its conventional measure given by the finite difference approximation: (I - A). Calculated test results for atoms and ions in rows 1-4 of the periodic table have been presented.
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Affiliation(s)
- Jarosław Zaklika
- Department of Physical and Quantum Chemistry, Wrocław University of Science and Technology, Wyb. Wyspiańskiego 27, 50-370 Wrocław, Poland
| | - Jerzy Hładyszowski
- Department of Physical Chemistry and Biophysics, Wrocław Medical University, ul. Borowska 211 A, 50-556 Wrocław, Poland
| | - Piotr Ordon
- Department of Physics and Biophysics, Wrocław University of Environmental and Life Sciences, ul. Norwida 25, 50-373 Wrocław, Poland
| | - Ludwik Komorowski
- Department of Physical and Quantum Chemistry, Wrocław University of Science and Technology, Wyb. Wyspiańskiego 27, 50-370 Wrocław, Poland
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13
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Mei Y, Chen Z, Yang W. Exact Second-Order Corrections and Accurate Quasiparticle Energy Calculations in Density Functional Theory. J Phys Chem Lett 2021; 12:7236-7244. [PMID: 34310157 PMCID: PMC9367128 DOI: 10.1021/acs.jpclett.1c01962] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
We develop a second-order correction to commonly used density functional approximations (DFAs) to eliminate the systematic delocalization error. The method, based on the previously developed global scaling correction (GSC), is an exact quadratic correction to the DFA for the fractional charge behavior and uses the analytical second derivatives of the total energy with respect to fractional occupation numbers of the canonical molecular orbitals. For small and medium-size molecules, this correction leads to ground-state orbital energies that are a highly accurate approximation to the corresponding quasiparticle energies. It provides excellent predictions of ionization potentials, electron affinities, photoemission spectrum, and photoexcitation energies beyond previous approximate second-order approaches, thus showing potential for broad applications in computational spectroscopy.
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Affiliation(s)
- Yuncai Mei
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
| | - Zehua Chen
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
| | - Weitao Yang
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
- Department of Physics, Duke University, Durham, North Carolina 27708, United States
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14
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Tsuyuki M, Kugaya Y, Kanamori H, Yabushita S. Size-Dependent π g + π u Combination Band Intensities of Polyynes C 2nH 2 ( n = 1-9) Analyzed by the Local CCH Bending and the Linear Response Functions. J Phys Chem A 2021; 125:6404-6419. [PMID: 34275276 DOI: 10.1021/acs.jpca.1c04168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Polyynes (C2nH2) show the unusually strong πg + πu combination bands in the infrared absorption spectra. We calculated them as the first overtone of the local CCH bending; the strong intensities are interpreted as a consequence of the large-amplitude bending vibration of the acidic acetylenic hydrogen combined with the size-dependent π electron conjugation. Our theoretical calculations show that the absorption intensity increases steadily and their increase rate is gradually slowed down by increasing the number of acetylene units up to n = 9. However, the calculated vibrational wavenumber converges quickly in agreement with the experimental observation. The second-order electron density deformation caused by the local CCH bending was analyzed using the linear response functions, including the linear and nonlinear contributions, to explain the n dependence. The easily polarizable π electron density caused two kinds of deformation-dominant but dark δxx-yy type and minor but bright σ type. Both of them exhibit interesting zigzag sign alternations, consistent with the law of alternating polarity of Coulson and Longuet-Higgins. The electron density polarization in these intra- and interacetylene units induces a large axial component molecular dipole moment, contributing to the intensity that increases with n. The difference between the curvilinear and rectilinear bending coordinates is interpreted within the present theoretical scheme.
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Affiliation(s)
- Masafumi Tsuyuki
- Department of Chemistry, Faculty of Science and Technology, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama 223-8522, Japan
| | - Yuto Kugaya
- Department of Chemistry, Faculty of Science and Technology, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama 223-8522, Japan
| | - Hideto Kanamori
- Department of Physics, Tokyo Institute of Technology, Ohokayama 2-12-1, Tokyo 152-8551, Japan
| | - Satoshi Yabushita
- Department of Chemistry, Faculty of Science and Technology, Keio University, 3-14-1 Hiyoshi, Kohoku-ku, Yokohama 223-8522, Japan
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15
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Mezey PG. From quantum similarity measures to quantum analogy functors: tools for QShAR, quantitative shape-activity relations. Theor Chem Acc 2021. [DOI: 10.1007/s00214-021-02745-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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16
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Tsuyuki M, Furudate S, Kugaya Y, Yabushita S. Graphical Transition Moment Decomposition and Conceptual Density Functional Theory Approaches to Study the Fundamental and Lower-Level Overtone Absorption Intensities of Some OH Stretching Vibrations. J Phys Chem A 2021; 125:2101-2113. [PMID: 33663218 DOI: 10.1021/acs.jpca.0c11619] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The investigation of electron density migrations caused by molecular structure changes is of central importance in various fields of chemistry. To address this topic in general and to study absorption intensities of vibrations, we analyze sensitive dipole moment functions (DMFs) of a molecule by combining the linear response function of conceptual DFT and bond dipoles separated by the quantum theory of atoms in molecules with a graphical transition moment decomposition scheme. The fundamental intensities of OH stretching vibrations depend strongly on the substituents but only weakly on the molecular conformations. Interestingly, in some alcohols, completely opposite trends have been observed for the lower-level overtone intensities: a weak substituent dependence but a stronger conformation dependence. It is well known that the formation of a hydrogen-bonded complex increases the OH stretching fundamental intensity, but less well known is the decrease in their overtone intensities. To investigate these characteristics comprehensively, we calculated their intensities (Δv = 1, 2, and 3) for conformers of ethanol and trifluoroethanol (TFE) and hydrogen-bonded phenol (PhOH) systems via the DFT method in the local mode model for the OH stretching coordinate ΔR. Their first and second derivatives of the electron density with respect to ΔR were calculated and interpreted using their bond moments. For ethanol and TFE, the OH, CC, and CH bond moments were found to make an important contribution to the molecular DMF derivatives parallel to the OH bond. The OH bond contributes only to the first derivative of DMF, and its conformational dependence is determined by the magnitude of the charge polarization of each structure. The electron density derivatives in the CC bond region were largely maintained during the internal rotation; thus, their conformation-dependent contributions were expressed by a geometrical factor of the CC bond direction. The CH bond at the antiperiplanar position of the OH bond was found to make a remarkably large contribution to the second derivative of DMF in the gauche conformer. The importance of electron density migration on substituents was also identified in the hydrogen-bonded phenol, in which the π-electron density change on the aromatic ring was clearly shown. This migration creates the DMF derivatives both perpendicular and parallel to the OH bond and strongly affects the absorption intensities. In all the cases, some bond moments on the substituents contribute to the first and second DMF derivatives in a structure-dependent manner, thus explaining their stereoelectronic effects.
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Affiliation(s)
- Masafumi Tsuyuki
- Department of Chemistry, Faculty of Science and Technology, Keio University, 3-14-1 Hiyoshi, Kohoku-Ku, Yokohama 223-8522, Japan
| | - Shunki Furudate
- Department of Chemistry, Faculty of Science and Technology, Keio University, 3-14-1 Hiyoshi, Kohoku-Ku, Yokohama 223-8522, Japan
| | - Yuto Kugaya
- Department of Chemistry, Faculty of Science and Technology, Keio University, 3-14-1 Hiyoshi, Kohoku-Ku, Yokohama 223-8522, Japan
| | - Satoshi Yabushita
- Department of Chemistry, Faculty of Science and Technology, Keio University, 3-14-1 Hiyoshi, Kohoku-Ku, Yokohama 223-8522, Japan
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17
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Clarys T, Stuyver T, De Proft F, Geerlings P. Extending conceptual DFT to include additional variables: oriented external electric field. Phys Chem Chem Phys 2021; 23:990-1005. [PMID: 33404573 DOI: 10.1039/d0cp05277a] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The extension of the E = E[N, v] functional for exploring chemical reactivity in a conceptual DFT context to include external electric fields is discussed. Concentrating on the case of a homogeneous field the corresponding response functions are identified and integrated, together with the conventional response functions such as permanent dipole moment and polarizability, in an extended response function tree associated with the E = E[N, v, ε] functional. In a case study on the dihalogens F2, Cl2, Br2, I2 the sensitivity of condensed atomic charges (∂q/∂ε) is linked to the polarizability of the halogen atoms. The non-integrated (∂ρ(r)/∂ε) response function, directly related to the field induced density change, is at the basis of these features. It reveals symmetry breaking for a perpendicular field, not detectable in its atom condensed counterpart, and accounts for the induced dipole moment directly related to the molecular polarizability. The much higher sensitivity of the electronic chemical potential/electronegativity as compared to the chemical hardness is highlighted. The response of the condensed Fukui functions to a parallel electric field increases when going down in the periodic table and is interpreted in terms of the extension of the outer contours in the non-condensed Fukui function. In the case of a perpendicular field the (∂f(r)/∂ε) response function hints at stereoselectivity with a preferential side of attack which is not retrieved in its condensed form. In an application the nucleophilic attack on the carbonyl group in H2CO is discussed. Similar to the dihalogens, stereoselectivity is displayed in the Fukui function for nucleophilic attack (f+) in the case of a perpendicular electric field, and opposite to the one that would arise based on the induced density. Disentangling the expression for the evolution of the Fukui function in the presence of an electric field reveals that this difference can be traced back to local differences in the polarization or induced density between the anionic and the neutral system. This difference may be exploited, e.g. for an appropriately substituted H2CO, to generate enantioselectivity.
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Affiliation(s)
- Tom Clarys
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
| | - Thijs Stuyver
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium. and Institute of Chemistry, The Hebrew University, Jerusalem, 91904, Israel
| | - Frank De Proft
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
| | - Paul Geerlings
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
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18
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Pei Z, Yang J, Deng J, Mao Y, Wu Q, Yang Z, Wang B, Aikens CM, Liang W, Shao Y. Analysis and visualization of energy densities. II. Insights from linear-response time-dependent density functional theory calculations. Phys Chem Chem Phys 2020; 22:26852-26864. [PMID: 33216085 PMCID: PMC8258743 DOI: 10.1039/d0cp04207b] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Inspired by the analysis of Kohn-Sham energy densities by Nakai and coworkers, we extended the energy density analysis to linear-response time-dependent density functional theory (LR-TDDFT) calculations. Using ethylene-tetrafluoroethylene and oxyluciferin-water complexes as examples, distinctive distribution patterns were demonstrated for the excitation energy densities of local excitations (within a molecular fragment) and charge-transfer excitations (between molecular fragments). It also provided a simple way to compute the effective energy of both hot carriers (particle and hole) from charge-transfer excitations via an integration of the excitation energy density over the donor and acceptor grid points.
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Affiliation(s)
- Zheng Pei
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Collaborative Innovation Center of Chemistry for Energy Materials, Fujian Provincial Key Laboratory of Theoretical and Computational Chemistry, and Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, P. R. China.
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19
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Geerlings P, Chamorro E, Chattaraj PK, De Proft F, Gázquez JL, Liu S, Morell C, Toro-Labbé A, Vela A, Ayers P. Conceptual density functional theory: status, prospects, issues. Theor Chem Acc 2020. [DOI: 10.1007/s00214-020-2546-7] [Citation(s) in RCA: 77] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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20
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Cedillo A. The density response kernel, the Fukui function, and other response functions from the Kohn–Sham orbitals. Theor Chem Acc 2019. [DOI: 10.1007/s00214-019-2465-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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21
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Balawender R, Lesiuk M, De Proft F, Geerlings P. Exploring Chemical Space with Alchemical Derivatives: BN-Simultaneous Substitution Patterns in C 60. J Chem Theory Comput 2018; 14:1154-1168. [PMID: 29300479 DOI: 10.1021/acs.jctc.7b01114] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
With the idea of using alchemical derivatives to explore in an efficient, computer- and cost-effective way Chemical Space was launched several years ago. In the context of Conceptual DFT response functions, these energies vs nuclear charge derivatives permit the estimatation of the energy of transmutants of a given starting or reference molecule showing different nuclear compositions. After an explorative study on small and planar molecules ( Balawender et al. J. Chem. Theory Comput. 2013 , 9 , 5327 ) by the present authors of this paper, the present study fully exploits the computational advantages of the alchemical derivatives in larger three-dimensional systems. Starting from a single reference calculation on C60, the complete BN substitution pattern, from single substituted C58BN via the belt (C20(BN)20 and the ball C12(BN)24 structures to the fully substituted (BN)30, is explored. Successive and simultaneous substitution strategies are followed and compared, indicating that both techniques yield identical results up to 13 substitutions but that for higher substitutions the simultaneous approach needs to be taken. Due to the cost-efficiency of the algorithm this path can indeed be followed as opposed to earlier work in the literature where for each step a full SCF calculation was at stake leading to prohibitively large computational demands for adopting the simultaneous approach. Previously formulated rules governing the substitution pattern by Kar and co-workers are scrutinized in this context and reformulated giving chemical insight in the gradual substitution process and the relative energies of the isomers. In its present form the method offers an interesting venue to study BN substitution patterns in higher fullerenes and graphene and in general paves the way for more efficient exploration of the Chemical Space.
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Affiliation(s)
- Robert Balawender
- Institute of Physical Chemistry, Polish Academy of Sciences , Kasprzaka 44/52, 01-224 Warsaw, Poland
| | - Michał Lesiuk
- Faculty of Chemistry, University of Warsaw , Pasteura 1, PL-02-093 Warsaw, Poland
| | - Frank De Proft
- Algemene Chemie, Vrije Universiteit Brussel, Faculteit Wetenschappen , Pleinlaan 2, 1050 Brussels, Belgium
| | - Paul Geerlings
- Algemene Chemie, Vrije Universiteit Brussel, Faculteit Wetenschappen , Pleinlaan 2, 1050 Brussels, Belgium
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22
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Introducing a new bond reactivity index: Philicities for natural bond orbitals. J Mol Model 2017; 24:25. [PMID: 29273935 DOI: 10.1007/s00894-017-3553-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2017] [Accepted: 12/01/2017] [Indexed: 10/18/2022]
Abstract
In the present work, a new methodology defined for obtaining reactivity indices (philicities) is proposed. This is based on reactivity functions such as the Fukui function or the dual descriptor, and makes it possible to project the information from reactivity functions onto molecular orbitals, instead of onto the atoms of the molecule (atomic reactivity indices). The methodology focuses on the molecules' natural bond orbitals (bond reactivity indices) because these orbitals have the advantage of being localized, allowing the reaction site of an electrophile or nucleophile to be determined within a very precise molecular region. This methodology provides a "philicity" index for every NBO, and a representative set of molecules has been used to test the new definition. A new methodology has also been developed to compare the "finite difference" and the "frontier molecular orbital" approximations. To facilitate their use, the proposed methodology as well as the possibility of calculating the new indices have been implemented in a new version of UCA-FUKUI software. In addition, condensation schemes based on atomic populations of the "atoms in molecules" theory, the Hirshfeld population analysis, the approximation of Mulliken (with a minimal basis set) and electrostatic potential-derived charges have also been implemented, including the calculation of "bond reactivity indices" defined in previous studies. Graphical abstract A new methodology defined for obtaining bond reactivity indices (philicities) is proposed and makes it possible to project the information from reactivity functions onto molecular orbitals. The proposed methodology as well as the possibility of calculating the new indices have been implemented in a new version of UCA-FUKUI software. In addition, this version can use new atomic condensation schemes and new "utilities" have also been included in this second version.
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Fias S, Heidar-Zadeh F, Anderson JSM, Ayers PW, Parr RG. A reference-free stockholder partitioning method based on the force on electrons. J Comput Chem 2017; 39:1044-1050. [DOI: 10.1002/jcc.25114] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2017] [Revised: 09/14/2017] [Accepted: 10/06/2017] [Indexed: 11/08/2022]
Affiliation(s)
- Stijn Fias
- Department of Chemistry & Chemical Biology; McMaster University; Hamilton Ontario Canada L8S 4M1
| | - Farnaz Heidar-Zadeh
- Department of Chemistry & Chemical Biology; McMaster University; Hamilton Ontario Canada L8S 4M1
- Center for Molecular Modeling; Ghent University, Technologiepark 903; 9052 Zwijnaarde Belgium
- Department of Inorganic and Physical Chemistry; Ghent University, Krijgslaan 281 (S3); 9000 Gent Belgium
| | | | - Paul W. Ayers
- Department of Chemistry & Chemical Biology; McMaster University; Hamilton Ontario Canada L8S 4M1
| | - Robert G. Parr
- Department of Chemistry; University of North Carolina; Chapel Hill NC USA 27599
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24
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Chemical transferability of functional groups follows from the nearsightedness of electronic matter. Proc Natl Acad Sci U S A 2017; 114:11633-11638. [PMID: 29078266 DOI: 10.1073/pnas.1615053114] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
We establish the physical origins of chemical transferability from the perspective of the nearsightedness of electronic matter. To do this, we explicitly evaluate the response of electron density to a change in the system, at constant chemical potential, by computing the softness kernel, [Formula: see text] The softness kernel is nearsighted, indicating that under constant-chemical-potential conditions like dilute solutions changing the composition of the molecule at [Formula: see text] has only local effects and does not have any significant impact on the reactivity at positions [Formula: see text] far away from point [Formula: see text] This locality principle elucidates the transferability of functional groups in chemistry.
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25
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Zhang D, Yang X, Zheng X, Yang W. Accurate density functional prediction of molecular electron affinity with the scaling corrected Kohn–Sham frontier orbital energies. Mol Phys 2017. [DOI: 10.1080/00268976.2017.1382738] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- DaDi Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, China
| | - Xiaolong Yang
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, China
| | - Xiao Zheng
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, China
- Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, China
| | - Weitao Yang
- Department of Chemistry, Duke University, Durham, NC, USA
- Key Laboratory of Theoretical Chemistry of Environment, School of Chemistry and Environment, South China Normal University, Guangzhou, China
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26
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Li C, Yang W. On the piecewise convex or concave nature of ground state energy as a function of fractional number of electrons for approximate density functionals. J Chem Phys 2017; 146:074107. [DOI: 10.1063/1.4974988] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Chen Li
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
| | - Weitao Yang
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
- Key Laboratory of Theoretical Chemistry of Environment, School of Chemistry and Environment, South China Normal University, Guangzhou 510006, China
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27
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Chang KYS, Fias S, Ramakrishnan R, von Lilienfeld OA. Fast and accurate predictions of covalent bonds in chemical space. J Chem Phys 2017; 144:174110. [PMID: 27155628 DOI: 10.1063/1.4947217] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We assess the predictive accuracy of perturbation theory based estimates of changes in covalent bonding due to linear alchemical interpolations among molecules. We have investigated σ bonding to hydrogen, as well as σ and π bonding between main-group elements, occurring in small sets of iso-valence-electronic molecules with elements drawn from second to fourth rows in the p-block of the periodic table. Numerical evidence suggests that first order Taylor expansions of covalent bonding potentials can achieve high accuracy if (i) the alchemical interpolation is vertical (fixed geometry), (ii) it involves elements from the third and fourth rows of the periodic table, and (iii) an optimal reference geometry is used. This leads to near linear changes in the bonding potential, resulting in analytical predictions with chemical accuracy (∼1 kcal/mol). Second order estimates deteriorate the prediction. If initial and final molecules differ not only in composition but also in geometry, all estimates become substantially worse, with second order being slightly more accurate than first order. The independent particle approximation based second order perturbation theory performs poorly when compared to the coupled perturbed or finite difference approach. Taylor series expansions up to fourth order of the potential energy curve of highly symmetric systems indicate a finite radius of convergence, as illustrated for the alchemical stretching of H2 (+). Results are presented for (i) covalent bonds to hydrogen in 12 molecules with 8 valence electrons (CH4, NH3, H2O, HF, SiH4, PH3, H2S, HCl, GeH4, AsH3, H2Se, HBr); (ii) main-group single bonds in 9 molecules with 14 valence electrons (CH3F, CH3Cl, CH3Br, SiH3F, SiH3Cl, SiH3Br, GeH3F, GeH3Cl, GeH3Br); (iii) main-group double bonds in 9 molecules with 12 valence electrons (CH2O, CH2S, CH2Se, SiH2O, SiH2S, SiH2Se, GeH2O, GeH2S, GeH2Se); (iv) main-group triple bonds in 9 molecules with 10 valence electrons (HCN, HCP, HCAs, HSiN, HSiP, HSiAs, HGeN, HGeP, HGeAs); and (v) H2 (+) single bond with 1 electron.
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Affiliation(s)
- K Y Samuel Chang
- Department of Chemistry, Institute of Physical Chemistry and National Center for Computational Design and Discovery of Novel Materials (MARVEL), University of Basel, 4056 Basel, Switzerland
| | - Stijn Fias
- General Chemistry (ALGC), Free University Brussels (VUB), Pleinlaan 2, 1050 Brussels, Belgium
| | - Raghunathan Ramakrishnan
- Department of Chemistry, Institute of Physical Chemistry and National Center for Computational Design and Discovery of Novel Materials (MARVEL), University of Basel, 4056 Basel, Switzerland
| | - O Anatole von Lilienfeld
- Department of Chemistry, Institute of Physical Chemistry and National Center for Computational Design and Discovery of Novel Materials (MARVEL), University of Basel, 4056 Basel, Switzerland
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28
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Wang H, Yang W. Determining polarizable force fields with electrostatic potentials from quantum mechanical linear response theory. J Chem Phys 2017; 144:224107. [PMID: 27305996 DOI: 10.1063/1.4953558] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We developed a new method to calculate the atomic polarizabilities by fitting to the electrostatic potentials (ESPs) obtained from quantum mechanical (QM) calculations within the linear response theory. This parallels the conventional approach of fitting atomic charges based on electrostatic potentials from the electron density. Our ESP fitting is combined with the induced dipole model under the perturbation of uniform external electric fields of all orientations. QM calculations for the linear response to the external electric fields are used as input, fully consistent with the induced dipole model, which itself is a linear response model. The orientation of the uniform external electric fields is integrated in all directions. The integration of orientation and QM linear response calculations together makes the fitting results independent of the orientations and magnitudes of the uniform external electric fields applied. Another advantage of our method is that QM calculation is only needed once, in contrast to the conventional approach, where many QM calculations are needed for many different applied electric fields. The molecular polarizabilities obtained from our method show comparable accuracy with those from fitting directly to the experimental or theoretical molecular polarizabilities. Since ESP is directly fitted, atomic polarizabilities obtained from our method are expected to reproduce the electrostatic interactions better. Our method was used to calculate both transferable atomic polarizabilities for polarizable molecular mechanics' force fields and nontransferable molecule-specific atomic polarizabilities.
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Affiliation(s)
- Hao Wang
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
| | - Weitao Yang
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
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29
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Heidar-Zadeh F, Miranda-Quintana RA, Verstraelen T, Bultinck P, Ayers PW. When is the Fukui Function Not Normalized? The Danger of Inconsistent Energy Interpolation Models in Density Functional Theory. J Chem Theory Comput 2016; 12:5777-5787. [DOI: 10.1021/acs.jctc.6b00494] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Farnaz Heidar-Zadeh
- Department of Chemistry & Chemical Biology, McMaster University, Hamilton, L8S 4M1 Ontario, Canada
- Department
of Inorganic and Physical Chemistry, Ghent University, Krijgslaan
281 (S3), 9000 Gent, Belgium
- Center
for Molecular Modeling, Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium
| | - Ramón Alain Miranda-Quintana
- Department of Chemistry & Chemical Biology, McMaster University, Hamilton, L8S 4M1 Ontario, Canada
- Laboratory
of Computational and Theoretical Chemistry, Faculty of Chemistry, University of Havana, Havana, Cuba
| | - Toon Verstraelen
- Center
for Molecular Modeling, Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium
| | - Patrick Bultinck
- Department
of Inorganic and Physical Chemistry, Ghent University, Krijgslaan
281 (S3), 9000 Gent, Belgium
| | - Paul W. Ayers
- Department of Chemistry & Chemical Biology, McMaster University, Hamilton, L8S 4M1 Ontario, Canada
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30
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Gledhill JD, De Proft F, Tozer DJ. Range-Separation Parameter in Tuned Exchange-Correlation Functionals: Successive Ionizations and the Fukui Function. J Chem Theory Comput 2016; 12:4879-4884. [PMID: 27622316 DOI: 10.1021/acs.jctc.6b00709] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The range-separation parameter in tuned, range-separated exchange-correlation functionals is investigated in two contexts. First, the system dependence of the parameter is investigated for a series of systems obtained by successively ionizing a single species, paying particular attention to the degree of linearity in the energy versus electron number curve. The parameter exhibits significant system dependence and, therefore, achieving near-linearity in one segment of the curve leads to strong nonlinearity in other segments. This provides a challenging test case for the development of new functionals designed to overcome the known problems of this class of functional. Next, the study considers whether a range-separation parameter tuned to a Koopmans energy condition is also applicable for the analogous density condition. This is tested by comparing two formulations of the Fukui function of conceptual density functional theory, for three representative systems. Both formulations yield the same general features and are not highly sensitive to the range-separation parameter. However, the agreement between the two is near-optimal when the energy-tuned parameter is used, indicating that this parameter is applicable for the analogous density condition.
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Affiliation(s)
- Jonathan D Gledhill
- Department of Chemistry, Durham University , South Road, Durham DH1 3LE, United Kingdom
| | - Frank De Proft
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) , Pleinlaan 2, 1050 Brussels, Belgium
| | - David J Tozer
- Department of Chemistry, Durham University , South Road, Durham DH1 3LE, United Kingdom
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31
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32
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33
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Janowski T, Wolinski K, Pulay P. Efficient calculation of the density response function from generalized polarizabilities. Theor Chem Acc 2015. [DOI: 10.1007/s00214-015-1761-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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34
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Scaling correction approaches for reducing delocalization error in density functional approximations. Sci China Chem 2015. [DOI: 10.1007/s11426-015-5501-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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35
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Computational study of the structure, bonding and reactivity of selected helical metallocenes. Inorganica Chim Acta 2015. [DOI: 10.1016/j.ica.2015.09.017] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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36
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Zhang D, Zheng X, Li C, Yang W. Orbital relaxation effects on Kohn–Sham frontier orbital energies in density functional theory. J Chem Phys 2015; 142:154113. [DOI: 10.1063/1.4918347] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- DaDi Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Xiao Zheng
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
- Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Chen Li
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
| | - Weitao Yang
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
- Key Laboratory of Theoretical Chemistry of Environment, School of Chemistry and Environment, South China Normal University, Guangzhou 510006, China
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37
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Fias S, Boisdenghien Z, De Proft F, Geerlings P. The spin polarized linear response from density functional theory: Theory and application to atoms. J Chem Phys 2014; 141:184107. [DOI: 10.1063/1.4900513] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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38
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QSAR study of the DPPH· radical scavenging activity of coumarin derivatives and xanthine oxidase inhibition by molecular docking. OPEN CHEM 2014. [DOI: 10.2478/s11532-014-0555-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
AbstractA Quantitative Structure-Activity Relationship (QSAR) of coumarins by genetic algorithms employing physicochemical, topological, lipophilic and electronic descriptors was performed. We have used experimental antioxidant activities of specific coumarin derivatives against the DPPH· radical molecule. Molecular descriptors such as Randic Path/Walk, hydrophilic factor and chemical hardness were selected to propose a mathematical model. We obtained a linear correlation with R2 = 96.65 and Q
LOO2 = 93.14 values. The evaluation of the predictive ability of the model was performed by applying the Q
ASYM2, $\hat r^2 $ and Δr
m2 methods. Fukui functions were calculated here for coumarin derivatives in order to delve into the mechanics by which they work as primary antioxidants. We also investigated xanthine oxidase inhibition with these coumarins by molecular docking. Our results show that hydrophobic, electrostatic and hydrogen bond interactions are crucial in the inhibition of xanthine oxidase by coumarins.
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39
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Malek A, Peng D, Yang W, Balawender R, Holas A. Testing exchange–correlation functionals at fractional electron numbers. Theor Chem Acc 2014. [DOI: 10.1007/s00214-014-1559-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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40
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Li B, Su D. The Nucleophilicity of the Oxygen Functional Groups on Carbon Materials: A DFT Analysis. Chemistry 2014; 20:7890-4. [DOI: 10.1002/chem.201400347] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2014] [Indexed: 11/12/2022]
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41
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In pursuit of negative Fukui functions: molecules with very small band gaps. J Mol Model 2014; 20:2162. [DOI: 10.1007/s00894-014-2162-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2014] [Accepted: 01/27/2014] [Indexed: 10/25/2022]
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42
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Geerlings P, Fias S, Boisdenghien Z, De Proft F. Conceptual DFT: chemistry from the linear response function. Chem Soc Rev 2014; 43:4989-5008. [PMID: 24531142 DOI: 10.1039/c3cs60456j] [Citation(s) in RCA: 112] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Within the context of reactivity descriptors known in conceptual DFT, the linear response function (χ(r,r')) remained nearly unexploited. Although well known, in its time dependent form, in the solid state physics and time-dependent DFT communities the study of the "chemistry" present in the kernel was, until recently, relatively unexplored. The evaluation of the linear response function as such and its study in the time independent form are highlighted in the present review. On the fundamental side, the focus is on the approaches of increasing complexity to compute and represent χ(r,r'), its visualisation going from plots of the unintegrated χ(r,r') to an atom condensed matrix. The study on atoms reveals its physical significance, retrieving atomic shell structure, while the results on molecules illustrate that a variety of chemical concepts are retrieved: inductive and mesomeric effects, electron delocalisation, aromaticity and anti-aromaticity, σ and π aromaticity,…. The applications show that the chemistry of aliphatic (saturated and unsaturated) chains, saturated and aromatic/anti-aromatic rings, organic, inorganic or metallic in nature, can be retrieved via the linear response function, including the variation of the electronic structure of the reagents along a reaction path. The connection of the linear response function with the concept of nearsightedness and the alchemical derivatives is also highlighted.
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Affiliation(s)
- Paul Geerlings
- General Chemistry (ALGC), Vrije Universiteit Brussel (Free University Brussels-VUB), Pleinlaan 2, 1050 Brussel, Belgium.
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43
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Cohen AJ, Mori-Sánchez P. Dramatic changes in electronic structure revealed by fractionally charged nuclei. J Chem Phys 2014; 140:044110. [DOI: 10.1063/1.4858461] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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44
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Balawender R, Welearegay MA, Lesiuk M, De Proft F, Geerlings P. Exploring Chemical Space with the Alchemical Derivatives. J Chem Theory Comput 2013; 9:5327-40. [PMID: 26592270 DOI: 10.1021/ct400706g] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
In this paper, we verify the usefulness of the alchemical derivatives in the prediction of chemical properties. We concentrate on the stability of the transmutation products, where the term "transmutation" means the change of the nuclear charge at an atomic site at constant number of electrons. As illustrative transmutations showing the potential of the method in exploring chemical space, we present some examples of increasing complexity starting with the deprotonation, continuing with the transmutation of the nitrogen molecule, and ending with the substitution of isoelectronic B-N units for C-C units and N units for C-H units in carbocyclic systems. The basis set influence on the qualitative and quantitative accuracies of the alchemical predictions was investigated. The alchemical deprotonation energy (from the second order Taylor expansion) correlates well with the vertical deprotonation energy and can be used as a preliminary indicator for the experimental deprotonation energy. The results of calculations for the BN derivatives of benzene and pyrene show that this method has great potential for efficient and accurate scanning of chemical space.
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Affiliation(s)
- Robert Balawender
- Institute of Physical Chemistry, Polish Academy of Sciences , Kasprzaka 44/52, PL-01-224 Warsaw, Poland
| | - Meressa A Welearegay
- Institute of Physical Chemistry, Polish Academy of Sciences , Kasprzaka 44/52, PL-01-224 Warsaw, Poland
| | - Michał Lesiuk
- Faculty of Chemistry, University of Warsaw , Pasteura 1, PL-02-093 Warsaw, Poland
| | - Frank De Proft
- Eenheid Algemene Chemie, Vrije Universiteit Brussel, Faculteit Wetenschappen , Pleinlaan 2, B-1050 Brussels, Belgium
| | - Paul Geerlings
- Eenheid Algemene Chemie, Vrije Universiteit Brussel, Faculteit Wetenschappen , Pleinlaan 2, B-1050 Brussels, Belgium
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45
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Das S, Shedge SV, Pal S. Critical study of the charge transfer parameter for the calculation of interaction energy using the local hard-soft acid-base principle. J Phys Chem A 2013; 117:10933-43. [PMID: 24066610 DOI: 10.1021/jp407070h] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Local hard-soft acid-base (HSAB) principle is semiquantitative in nature due to the presence of an ad hoc charge transfer parameter. The accuracy of HSAB principle significantly depends on the definition of this ad hoc parameter. In this paper, for the first time we have introduced the second-order approximation of ΔN (ΔNsecond) as an ad hoc parameter for charge transfer to calculate interaction energies of multiple site based interactions using local hard soft acid base principle. The second-order approximation of ΔN has been derived from Sanderson's electronegativity equalization principle. To validate our approach, we have studied interaction energies of some prototype molecules. The interaction energies obtained from our approach have been further compared with the interaction energies of those obtained using other charge transfer parameters (ΔNfirst and λ) and the conventional methods. We have also discussed the advantages and limitations of the approach.
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Affiliation(s)
- Susanta Das
- Physical Chemistry Division, CSIR-National Chemical Laboratory , Pune 411008, India
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46
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Yang W, Mori-Sánchez P, Cohen AJ. Extension of many-body theory and approximate density functionals to fractional charges and fractional spins. J Chem Phys 2013; 139:104114. [DOI: 10.1063/1.4817183] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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47
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Bultinck P, Van Damme S, Cedillo A. Bond fukui indices: Comparison of frozen molecular orbital and finite differences through mulliken populations. J Comput Chem 2013; 34:2421-9. [PMID: 23939806 DOI: 10.1002/jcc.23405] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2013] [Revised: 07/19/2013] [Accepted: 07/22/2013] [Indexed: 11/08/2022]
Affiliation(s)
- Patrick Bultinck
- Department of Inorganic and Physical Chemistry; Ghent University; Krijgslaan 281 (S3); 9000; Gent; Belgium
| | - Sofie Van Damme
- Department of Inorganic and Physical Chemistry; Ghent University; Krijgslaan 281 (S3); 9000; Gent; Belgium
| | - Andrés Cedillo
- Departamento de Química; Universidad Autónoma Metropolitana-Iztapalapa; San Rafael Atlixco 186; 09340; México; DF; México
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48
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Peng D, Yang W. Fukui function and response function for nonlocal and fractional systems. J Chem Phys 2013; 138:184108. [DOI: 10.1063/1.4803101] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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49
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Zheng X, Zhou T, Yang W. A nonempirical scaling correction approach for density functional methods involving substantial amount of Hartree–Fock exchange. J Chem Phys 2013; 138:174105. [DOI: 10.1063/1.4801922] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
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50
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Shape entropy’s response to molecular ionization. J Mol Model 2013; 19:1677-83. [DOI: 10.1007/s00894-012-1725-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2012] [Accepted: 12/03/2012] [Indexed: 10/27/2022]
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