1
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Wang JX, Zhang PL, Gopala L, Lv JS, Lin JM, Zhou CH. A Unique Hybridization Route to Access Hydrazylnaphthalimidols as Novel Structural Scaffolds of Multitargeting Broad-Spectrum Antifungal Candidates. J Med Chem 2024; 67:8932-8961. [PMID: 38814290 DOI: 10.1021/acs.jmedchem.4c00209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/31/2024]
Abstract
This study developed a class of novel structural antifungal hydrazylnaphthalimidols (HNs) with multitargeting broad-spectrum potential via multicomponent hybridization to confront increasingly severe fungal invasion. Some prepared HNs exhibited considerable antifungal potency; especially nitrofuryl HN 4a (MIC = 0.001 mM) exhibited a potent antifungal activity against Candida albicans, which is 13-fold higher than that of fluconazole. Furthermore, nitrofuryl HN 4a displayed low cytotoxicity, hemolysis and resistance, as well as a rapid fungicidal efficacy. Preliminary mechanistic investigations revealed that nitrofuryl HN 4a could inhibit lactate dehydrogenase to decrease metabolic activity and promote the accumulation of reactive oxygen species, leading to oxidative stress. Moreover, nitrofuryl HN 4a did not exhibit membrane-targeting ability; it could embed into DNA to block DNA replication but could not cleave DNA. These findings implied that HNs are promising as novel structural scaffolds of potential multitargeting broad-spectrum antifungal candidates for treating fungal infection.
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Affiliation(s)
- Jin-Xin Wang
- Institute of Bioorganic & Medicinal Chemistry, Key Laboratory of Applied Chemistry of Chongqing Municipality, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Peng-Li Zhang
- Institute of Bioorganic & Medicinal Chemistry, Key Laboratory of Applied Chemistry of Chongqing Municipality, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Lavanya Gopala
- Institute of Bioorganic & Medicinal Chemistry, Key Laboratory of Applied Chemistry of Chongqing Municipality, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Jing-Song Lv
- College of Chemical Engineering, Guizhou University of Engineering Science, Bijie 551700, China
| | - Jian-Mei Lin
- Department of Infections, Sichuan Provincial People's Hospital, University of Electronic Science and Technology of China, Chengdu 610072, China
| | - Cheng-He Zhou
- Institute of Bioorganic & Medicinal Chemistry, Key Laboratory of Applied Chemistry of Chongqing Municipality, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
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2
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Menéndez-Herrero M, Martín Pendás Á. Persistence of atoms in molecules: there is room beyond electron densities. IUCRJ 2024; 11:210-223. [PMID: 38376913 PMCID: PMC10916289 DOI: 10.1107/s2052252524000915] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2023] [Accepted: 01/25/2024] [Indexed: 02/21/2024]
Abstract
Evidence that the electronic structure of atoms persists in molecules to a much greater extent than has been usually admitted is presented. This is achieved by resorting to N-electron real-space descriptors instead of one- or at most two-particle projections like the electron or exchange-correlation densities. Here, the 3N-dimensional maxima of the square of the wavefunction, the so-called Born maxima, are used. Since this technique is relatively unknown to the crystallographic community, a case-based approach is taken, revisiting first the Born maxima of atoms in their ground state and then some of their excited states. It is shown how they survive in molecules and that, beyond any doubt, the distribution of electrons around an atom in a molecule can be recognized as that of its isolated, in many cases excited, counterpart, relating this fact with the concept of energetic promotion. Several other cases that exemplify the applicability of the technique to solve chemical bonding conflicts and to introduce predictability in real-space analyses are also examined.
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Affiliation(s)
| | - Ángel Martín Pendás
- Dpto. Química Física y Analítica, Universidad de Oviedo, 33006 Oviedo, Spain
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3
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Chen J, Zhang W, Yang W, Xi F, He H, Liang M, Dong Q, Hou J, Wang M, Yu G, Zhou J. Separation of benzene and toluene associated with vapochromic behaviors by hybrid[4]arene-based co-crystals. Nat Commun 2024; 15:1260. [PMID: 38341431 DOI: 10.1038/s41467-024-45592-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Accepted: 01/29/2024] [Indexed: 02/12/2024] Open
Abstract
The combination of macrocyclic chemistry with co-crystal engineering has promoted the development of materials with vapochromic behaviors in supramolecular science. Herein, we develop a macrocycle co-crystal based on hybrid[4]arene and 1,2,4,5-tetracyanobenzene that is able to construct vapochromic materials. After the capture of benzene and toluene vapors, activated hybrid[4]arene-based co-crystal forms new structures, accompanied by color changes from brown to yellow. However, when hybrid[4]arene-based co-crystal captures cyclohexane and pyridine, neither structures nor colors change. Interestingly, hybrid[4]arene-based co-crystal can separate benzene from a benzene/cyclohexane equal-volume mixture and allow toluene to be removed from a toluene/ pyridine equal-volume mixture with purities reaching 100%. In addition, the process of adsorptive separation can be visually monitored. The selectivity of benzene from a benzene/cyclohexane equal-volume mixture and toluene from a toluene/ pyridine equal-volume mixture is attributed to the different changes in the charge-transfer interaction between hybrid[4]arene and 1,2,4,5-tetracyanobenzene when hybrid[4]arene-based co-crystal captures different vapors. Moreover, hybrid[4]arene-based co-crystal can be reused without losing selectivity and performance. This work constructs a vapochromic material for hydrocarbon separation.
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Affiliation(s)
- Jingyu Chen
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Wenjie Zhang
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Wenzhi Yang
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Fengcheng Xi
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Hongyi He
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Minghao Liang
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Qian Dong
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Jiawang Hou
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China
| | - Mengbin Wang
- ZJU-Hangzhou Global Scientific and Technological Innovation Center, Zhejiang University, Hangzhou, 311215, PR China.
| | - Guocan Yu
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology, Department of Chemistry, Tsinghua University, Beijing, 100084, PR China.
| | - Jiong Zhou
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, PR China.
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4
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Ren W, Fu W, Wu X, Chen J. Towards the ground state of molecules via diffusion Monte Carlo on neural networks. Nat Commun 2023; 14:1860. [PMID: 37012248 PMCID: PMC10070323 DOI: 10.1038/s41467-023-37609-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2022] [Accepted: 03/20/2023] [Indexed: 04/05/2023] Open
Abstract
Diffusion Monte Carlo (DMC) based on fixed-node approximation has enjoyed significant developments in the past decades and become one of the go-to methods when accurate ground state energy of molecules and materials is needed. However, the inaccurate nodal structure hinders the application of DMC for more challenging electronic correlation problems. In this work, we apply the neural-network based trial wavefunction in fixed-node DMC, which allows accurate calculations of a broad range of atomic and molecular systems of different electronic characteristics. Our method is superior in both accuracy and efficiency compared to state-of-the-art neural network methods using variational Monte Carlo (VMC). We also introduce an extrapolation scheme based on the empirical linearity between VMC and DMC energies, and significantly improve our binding energy calculation. Overall, this computational framework provides a benchmark for accurate solutions of correlated electronic wavefunction and also sheds light on the chemical understanding of molecules.
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Affiliation(s)
- Weiluo Ren
- ByteDance Research, Zhonghang Plaza, No. 43, North 3rd Ring West Road, Haidian District, Beijing, People's Republic of China.
| | - Weizhong Fu
- ByteDance Research, Zhonghang Plaza, No. 43, North 3rd Ring West Road, Haidian District, Beijing, People's Republic of China
- School of Physics, Peking University, 100871, Beijing, People's Republic of China
| | - Xiaojie Wu
- ByteDance Research, Zhonghang Plaza, No. 43, North 3rd Ring West Road, Haidian District, Beijing, People's Republic of China
| | - Ji Chen
- School of Physics, Peking University, 100871, Beijing, People's Republic of China.
- Interdisciplinary Institute of Light-Element Quantum Materials, Frontiers Science Center for Nano-Optoelectronics, Peking University, 100871, Beijing, People's Republic of China.
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5
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Herzfeld J. Emergence of Linnett's "double quartets" from a model of "Lewis dots". Phys Chem Chem Phys 2023; 25:5423-5429. [PMID: 36723373 DOI: 10.1039/d2cp05648h] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Chemists routinely explicate molecular structures and chemical reactions in terms of the propensities of semiclassical valence electrons (aka "Lewis dots"). Typically, the electrons are viewed as forming spin pairs and recent efforts to translate this concise and intuitive qualitative picture into an efficient and relatable quantitative model have made good progress. But electrons are not always paired and advanced quantum calculations have shown that this is so even in small diamagnetic species such as dicarbon and benzene. Here we show that the latest semiclassical model for paired electrons can clarify the limitations on pairing simply by dissecting the elements of the interparticle potentials. Although not trained to do so, these elements produce a Linnett-like benzene, with three valence electrons in each CC bond, when the electrons are free to move singly. At the same time, sustaining higher order bonds with independently mobile electrons requires adjustments in the details of the model potentials at short distances. This is addressed with new training data and new forms for the contributions from Coulomb integrals. Although trained on hydrogen and carbon species separately, the combination applied to ethyne predicts the pairing of spins in the CH bonds and the dispersion of spins in the CC bond that is found in ab initio calculations. This adjusted force field is named LINNETT, in appreciation of Linnett's insightful double quartet interpretation of the Lewis octet.
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Affiliation(s)
- Judith Herzfeld
- Department of Chemistry, Brandeis University, Waltham, Massachusetts, USA.
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6
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Menéndez-Herrero M, Munárriz J, Francisco E, Martín Pendás Á. Atomic shell structure from Born probabilities: Comparison to other shell descriptors and persistence in molecules. J Chem Phys 2022; 156:164103. [PMID: 35489996 DOI: 10.1063/5.0089438] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Real space chemical bonding descriptors, such as the electron localization function or the Laplacian of the electron density, have been widely used in electronic structure theory thanks to their power to provide chemically intuitive spatial images of bonded and non-bonded interactions. This capacity stems from their ability to display the shell structure of atoms and its distortion upon molecular formation. Here, we examine the spatial position of the N electrons of an atom at the maximum of the square of the wavefunction, the so-called Born maximum, as a shell structure descriptor for ground state atoms with Z = 1-36, comparing it to other available indices. The maximization is performed with the help of variational quantum Monte Carlo calculations. We show that many electron effects (mainly Pauli driven) are non-negligible, that Born shells are closer to the nucleus than any other of the examined descriptors, and that these shells are very well preserved in simple molecules.
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Affiliation(s)
| | - Julen Munárriz
- Depto. Química Física y Analítica, Universidad de Oviedo, 33006 Oviedo, Spain
| | - Evelio Francisco
- Depto. Química Física y Analítica, Universidad de Oviedo, 33006 Oviedo, Spain
| | - Ángel Martín Pendás
- Depto. Química Física y Analítica, Universidad de Oviedo, 33006 Oviedo, Spain
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7
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Abstract
The electronic wave function of molecules is 3N-dimensional and inseparable in the coordinates of the N electrons. Whereas molecular orbitals are often invoked to visualize the electronic structure, they are nonunique, with the same 3N-dimensional wave function being represented by an infinite number of 3-D, one-electron functions (orbitals). Furthermore, multireference wave functions cannot be described by an antisymmetrized product of a single set of occupied orbitals. What is required is a way to visualize the full dimensionality of the wave function, including the effects of correlation, as a 3N-dimensional being would be able to do. In the past 5 years, we have been developing a way to analyze and visualize highly dimensional wave functions by focusing on the structure of the repeating unit demanded by fermionic behavior. This 3N-dimensional repeating unit, the wave function "tile", can be projected onto the three dimensions of each electron, in turn, to reveal the complete electronic structure. It is found that the tile reproduces canonical chemical motifs such as core-electrons, single bonds and lone pairs. Multiple bonds emerge as the "banana" bonds favored by Pauling. As a function of the reaction coordinate, electron motions are visualized that correspond to the curly arrow notation of organic chemists. Excited states can also be inspected. Analyzing a wave function in terms of fermionic tiling allows for insight not facilitated by the inspection of orbitals or configuration interaction vectors: The wave function tiles of resonance structures reveal that electron correlation in benzene pushes opposing spin electrons to occupy alternate Kekulé structures, and in C2, the emerging structure supports the notion of a triply bonded structure with a weak, fourth bonding contribution.
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Affiliation(s)
- Yu Liu
- ARC Centre of Excellence in Exciton Science, School of Chemistry, UNSW, Sydney, New South Wales 2052, Australia.,International Center for Quantum and Molecular Structures, College of Science, Shanghai University, Shanghai 200444, People's Republic of China
| | - Terry J Frankcombe
- School of Science, UNSW, Canberra, Australian Capital Territory 2600, Australia
| | - Timothy W Schmidt
- ARC Centre of Excellence in Exciton Science, School of Chemistry, UNSW, Sydney, New South Wales 2052, Australia
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8
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Trepte K, Schwalbe S, Liebing S, Schulze WT, Kortus J, Myneni H, Ivanov AV, Lehtola S. Chemical bonding theories as guides for self-interaction corrected solutions: Multiple local minima and symmetry breaking. J Chem Phys 2021; 155:224109. [PMID: 34911315 DOI: 10.1063/5.0071796] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Abstract
Fermi-Löwdin orbitals (FLOs) are a special set of localized orbitals, which have become commonly used in combination with the Perdew-Zunger self-interaction correction (SIC) in the FLO-SIC method. The FLOs are obtained for a set of occupied orbitals by specifying a classical position for each electron. These positions are known as Fermi-orbital descriptors (FODs), and they have a clear relation to chemical bonding. In this study, we show how FLOs and FODs can be used to initialize, interpret, and justify SIC solutions in a common chemical picture, both within FLO-SIC and in traditional variational SIC, and to locate distinct local minima in either of these approaches. We demonstrate that FLOs based on Lewis theory lead to symmetry breaking for benzene-the electron density is found to break symmetry already at the symmetric molecular structure-while ones from Linnett's double-quartet theory reproduce symmetric electron densities and molecular geometries. Introducing a benchmark set of 16 planar cyclic molecules, we show that using Lewis theory as the starting point can lead to artifactual dipole moments of up to 1 D, while Linnett SIC dipole moments are in better agreement with experimental values. We suggest using the dipole moment as a diagnostic of symmetry breaking in SIC and monitoring it in all SIC calculations. We show that Linnett structures can often be seen as superpositions of Lewis structures and propose Linnett structures as a simple way to describe aromatic systems in SIC with reduced symmetry breaking. The role of hovering FODs is also briefly discussed.
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Affiliation(s)
- Kai Trepte
- SUNCAT Center for Interface Science and Catalysis, Stanford University, Menlo Park, California 94025, USA
| | - Sebastian Schwalbe
- Institute of Theoretical Physics, TU Bergakademie Freiberg, D-09599 Freiberg, Germany
| | - Simon Liebing
- Joint Institute for Nuclear Research Dubna, Bogoliubov Laboratory of Theoretical Physics, 141980 Dubna, Russia
| | - Wanja T Schulze
- Institute of Theoretical Physics, TU Bergakademie Freiberg, D-09599 Freiberg, Germany
| | - Jens Kortus
- Institute of Theoretical Physics, TU Bergakademie Freiberg, D-09599 Freiberg, Germany
| | - Hemanadhan Myneni
- Science Institute and Faculty of Physical Sciences, VR-III, University of Iceland, 107 Reykjavík, Iceland
| | - Aleksei V Ivanov
- Science Institute and Faculty of Physical Sciences, VR-III, University of Iceland, 107 Reykjavík, Iceland
| | - Susi Lehtola
- Molecular Sciences Software Institute, Blacksburg, Virginia 24061, USA
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9
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Fuhrer TJ, Houck M, Iacono ST. Fluoromaticity: The Molecular Orbital Contributions of Fluorine Substituents to the π-Systems of Aromatic Rings. ACS OMEGA 2021; 6:32607-32617. [PMID: 34901609 PMCID: PMC8655763 DOI: 10.1021/acsomega.1c04175] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Accepted: 11/10/2021] [Indexed: 06/14/2023]
Abstract
The addition of fluorine atoms to an aromatic ring brings about an additional set of π-bonding and antibonding orbitals culminating after the addition of the sixth fluorine with a new set of π-aromatic-like orbitals that affect the molecule in a way that we will refer to hereafter as "fluoromaticity". Depending on the number and position of the fluorine atoms, the contributed π-orbitals can even further stabilize the ring leading to smaller bond lengths within the ring and higher resistance to addition reactions. This added ring stability partially explains the high thermostability and chemical resistance found in polymers containing fluorinated aromatics in their architecture. A similar molecular orbital effect is seen with the addition of other halogen atoms to aromatic rings, though to a much smaller degree and not resulting in the additional ring stability.
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Affiliation(s)
- Timothy J. Fuhrer
- Department
of Chemistry, Radford University, Box 6949 Radford, Virginia 24142, United States
| | - Matthew Houck
- Department
of Chemistry & Chemistry Research Center, United States Air Force Academy, Colorado Springs, Colorado 80840, United States
| | - Scott T. Iacono
- Department
of Chemistry & Chemistry Research Center, United States Air Force Academy, Colorado Springs, Colorado 80840, United States
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10
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Reuter L, Lüchow A. Real space electron delocalization, resonance, and aromaticity in chemistry. Nat Commun 2021; 12:4820. [PMID: 34376667 PMCID: PMC8355119 DOI: 10.1038/s41467-021-25091-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2021] [Accepted: 07/19/2021] [Indexed: 11/10/2022] Open
Abstract
Chemists explaining a molecule’s stability and reactivity often refer to the concepts of delocalization, resonance, and aromaticity. Resonance is commonly discussed within valence bond theory as the stabilizing effect of mixing different Lewis structures. Yet, most computational chemists work with delocalized molecular orbitals, which are also usually employed to explain the concept of aromaticity, a ring delocalization in cyclic planar systems which abide certain number rules. However, all three concepts lack a real space definition, that is not reliant on orbitals or specific wave function expansions. Here, we outline a redefinition from first principles: delocalization means that likely electron arrangements are connected via paths of high probability density in the many-electron real space. In this picture, resonance is the consideration of additional electron arrangements, which offer alternative paths. Most notably, the famous 4n + 2 Hückel rule is generalized and derived from nothing but the antisymmetry of fermionic wave functions. The concept of delocalization, resonance and aromaticity are commonly discussed within electronic structure frameworks relying on specific wave function expansions. Here the authors propose a redefinition of these concepts from first-principles by investigating saddle points of the all-electron probability density.
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Affiliation(s)
- Leonard Reuter
- Institute of Physical Chemistry, RWTH Aachen University, Aachen, Germany
| | - Arne Lüchow
- Institute of Physical Chemistry, RWTH Aachen University, Aachen, Germany.
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11
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Volkov AS, Koposov GD, Khviyuzov SS. Features of the temperature-frequency dependences of the electrophysical properties of vanillin alcohol as a model lignin compound. Chem Phys 2021. [DOI: 10.1016/j.chemphys.2021.111202] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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12
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Abstract
We present a Perspective on what the future holds for full configuration interaction (FCI) theory, with an emphasis on conceptual rather than technical details. Upon revisiting the early history of FCI, a number of its key contemporary approximations are compared on as equal a footing as possible, using a recent blind challenge on the benzene molecule as a testbed [Eriksen et al., J. Phys. Chem. Lett., 2020 11, 8922]. In the process, we review the scope of applications for which FCI continues to prove indispensable, and the required traits in terms of robustness, efficacy, and reliability its modern approximations must satisfy are discussed. We close by conveying a number of general observations on the merits offered by the state-of-the-art alongside some of the challenges still faced to this day. While the field has altogether seen immense progress over the years-the past decade, in particular-it remains clear that our community as a whole has a substantial way to go in enhancing the overall applicability of near-exact electronic structure theory for systems of general composition and increasing size.
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Affiliation(s)
- Janus J Eriksen
- School of Chemistry, University of Bristol, Cantock's Close, Bristol BS8 1TS, United Kingdom
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13
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Visser GWM, Windhorst AD. Synchronizing chemistry, quantum mechanics and radioactivity in a revolutionary renewed atom model. Part 1: the elements where Z is 1–10 (H, He, Li, Be, B, C, N, O, F, Ne). RSC Adv 2021; 11:27978-27991. [PMID: 35480722 PMCID: PMC9038058 DOI: 10.1039/d1ra03529k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2021] [Accepted: 07/30/2021] [Indexed: 12/02/2022] Open
Abstract
The alliance between the reigning quantum mechanical atom model and chemistry still is a difficult one when it comes to an adequate explanation for e.g. the covalent bond, inversion, chirality, or hydrogen bonds. Overruling Rutherford's extrapolation from gold to hydrogen, an atom model is described that provides improved answers to these phenomena while the hybridization principle and the covalent bond are re-defined by giving neutrons a much more prominent role than they have in the reigning quantum mechanical model. It is postulated that a neutron is not just there to assist the strong force in surpassing the repulsive coulombic forces between the protons in the nucleus, but the neutron is the modus operandi of molecular geometry, and as such plays a part in chemical reactivity, bond length and bond strength. A renewed atom model is described that provides improved answers to unsolved phenomena like inversion, chirality, hydrogen bonds, the hybridization principle and covalent bonds by giving neutrons a much more prominent role.![]()
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Affiliation(s)
- Gerard W. M. Visser
- Amsterdam UMC, Vrije Universiteit Amsterdam, Dept. Radiology & Nuclear Medicine, De Boelelaan 1117, 1081HV Amsterdam, The Netherlands
| | - Albert D. Windhorst
- Amsterdam UMC, Vrije Universiteit Amsterdam, Dept. Radiology & Nuclear Medicine, De Boelelaan 1117, 1081HV Amsterdam, The Netherlands
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14
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Oliva-Enrich JM, Alkorta I, Elguero J. Hybrid Boron-Carbon Chemistry. Molecules 2020; 25:E5026. [PMID: 33138268 PMCID: PMC7672580 DOI: 10.3390/molecules25215026] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Revised: 10/23/2020] [Accepted: 10/26/2020] [Indexed: 11/25/2022] Open
Abstract
The recently proved one-to-one structural equivalence between a conjugated hydrocarbon CnHm and the corresponding borane BnHm+n is applied here to hybrid systems, where each C=C double bond in the hydrocarbon is consecutively substituted by planar B(H2)B moieties from diborane(6). Quantum chemical computations with the B3LYP/cc-pVTZ method show that the structural equivalences are maintained along the substitutions, even for non-planar systems. We use as benchmark aromatic and antiaromatic (poly)cyclic conjugated hydrocarbons: cyclobutadiene, benzene, cyclooctatetraene, pentalene, benzocyclobutadiene, naphthalene and azulene. The transformation of these conjugated hydrocarbons to the corresponding boranes is analyzed from the viewpoint of geometry and electronic structure.
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Affiliation(s)
| | - Ibon Alkorta
- Instituto de Quimica Médica (CSIC), Juan de la Cierva, 3, E-28006 Madrid, Spain; (I.A.); (J.E.)
| | - José Elguero
- Instituto de Quimica Médica (CSIC), Juan de la Cierva, 3, E-28006 Madrid, Spain; (I.A.); (J.E.)
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15
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Eriksen JJ, Anderson TA, Deustua JE, Ghanem K, Hait D, Hoffmann MR, Lee S, Levine DS, Magoulas I, Shen J, Tubman NM, Whaley KB, Xu E, Yao Y, Zhang N, Alavi A, Chan GKL, Head-Gordon M, Liu W, Piecuch P, Sharma S, Ten-No SL, Umrigar CJ, Gauss J. The Ground State Electronic Energy of Benzene. J Phys Chem Lett 2020; 11:8922-8929. [PMID: 33022176 DOI: 10.1021/acs.jpclett.0c02621] [Citation(s) in RCA: 66] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
We report on the findings of a blind challenge devoted to determining the frozen-core, full configuration interaction (FCI) ground-state energy of the benzene molecule in a standard correlation-consistent basis set of double-ζ quality. As a broad international endeavor, our suite of wave function-based correlation methods collectively represents a diverse view of the high-accuracy repertoire offered by modern electronic structure theory. In our assessment, the evaluated high-level methods are all found to qualitatively agree on a final correlation energy, with most methods yielding an estimate of the FCI value around -863 mEH. However, we find the root-mean-square deviation of the energies from the studied methods to be considerable (1.3 mEH), which in light of the acclaimed performance of each of the methods for smaller molecular systems clearly displays the challenges faced in extending reliable, near-exact correlation methods to larger systems. While the discrepancies exposed by our study thus emphasize the fact that the current state-of-the-art approaches leave room for improvement, we still expect the present assessment to provide a valuable community resource for benchmark and calibration purposes going forward.
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Affiliation(s)
- Janus J Eriksen
- School of Chemistry, University of Bristol, Cantock's Close, Bristol BS8 1TS, United Kingdom
| | - Tyler A Anderson
- Laboratory of Atomic and Solid State Physics, Cornell University, Ithaca, New York 14853, United States
| | - J Emiliano Deustua
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
| | - Khaldoon Ghanem
- Max-Planck-Institut für Festkörperforschung, 70569 Stuttgart, Germany
| | - Diptarka Hait
- Kenneth S. Pitzer Center for Theoretical Chemistry, Department of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Mark R Hoffmann
- Chemistry Department, University of North Dakota, Grand Forks, North Dakota 58202-9024, United States
| | - Seunghoon Lee
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | - Daniel S Levine
- Kenneth S. Pitzer Center for Theoretical Chemistry, Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Ilias Magoulas
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
| | - Jun Shen
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
| | - Norm M Tubman
- Kenneth S. Pitzer Center for Theoretical Chemistry, Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - K Birgitta Whaley
- Kenneth S. Pitzer Center for Theoretical Chemistry, Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Enhua Xu
- Graduate School of Science, Technology, and Innovation, Kobe University, 1-1 Rokkodai-cho, Nada-ku, Kobe 657-8501, Japan
| | - Yuan Yao
- Laboratory of Atomic and Solid State Physics, Cornell University, Ithaca, New York 14853, United States
| | - Ning Zhang
- Beijing National Laboratory for Molecular Sciences, Institute of Theoretical and Computational Chemistry, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Ali Alavi
- Max-Planck-Institut für Festkörperforschung, 70569 Stuttgart, Germany
- Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom
| | - Garnet Kin-Lic Chan
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | - Martin Head-Gordon
- Kenneth S. Pitzer Center for Theoretical Chemistry, Department of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Wenjian Liu
- Qingdao Institute for Theoretical and Computational Sciences, Shandong University, Qingdao, Shandong 266237, China
| | - Piotr Piecuch
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
- Department of Physics and Astronomy, Michigan State University, East Lansing, Michigan 48824, United States
| | - Sandeep Sharma
- Department of Chemistry, The University of Colorado at Boulder, Boulder, Colorado 80302, United States
| | - Seiichiro L Ten-No
- Graduate School of Science, Technology, and Innovation, Kobe University, 1-1 Rokkodai-cho, Nada-ku, Kobe 657-8501, Japan
| | - C J Umrigar
- Laboratory of Atomic and Solid State Physics, Cornell University, Ithaca, New York 14853, United States
| | - Jürgen Gauss
- Department Chemie, Johannes Gutenberg-Universität Mainz,Duesbergweg 10-14, 55128 Mainz, Germany
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Reuter L, Lüchow A. On the connection between probability density analysis, QTAIM, and VB theory. Phys Chem Chem Phys 2020; 22:25892-25903. [PMID: 33159782 DOI: 10.1039/d0cp02209h] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Classification of bonds is essential for understanding and predicting the reactivity of chemical compounds. This classification mainly manifests in the bond order and the contribution of different Lewis resonance structures. Here, we outline a first principles approach to obtain these orders and contributions for arbitrary wave functions in a manner that is both, related to the quantum theory of atoms in molecules and consistent with valence bond theory insight: the Lewis structures arise naturally as attractors of the all-electron probability density |Ψ|2. Doing so, we introduce a valence bond weight definition that does not collapse in the basis set limit.
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Affiliation(s)
- Leonard Reuter
- Institute of Physical Chemistry, RWTH Aachen University, Landoltweg 2, 52074 Aachen, Germany.
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