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Wang Z, Han W, Shi R, Han X, Zheng Y, Xu J, Bu XH. Mechanoresponsive Flexible Crystals. JACS AU 2024; 4:279-300. [PMID: 38425899 PMCID: PMC10900217 DOI: 10.1021/jacsau.3c00481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 11/06/2023] [Accepted: 12/15/2023] [Indexed: 03/02/2024]
Abstract
Flexible crystals have gained significant attention owing to their remarkable pliability, plasticity, and adaptability, making them highly popular in various research and application fields. The main challenges in developing flexible crystals lie in the rational design, preparation, and performance optimization of such crystals. Therefore, a comprehensive understanding of the fundamental origins of crystal flexibility is crucial for establishing evaluation criteria and design principles. This Perspective offers a retrospective analysis of the development of flexible crystals over the past two decades. It summarizes the elastic standards and possible plastic bending mechanisms tailored to diverse flexible crystals and analyzes the assessment of their theoretical basis and applicability. Meanwhile, the compatibility between crystal elasticity and plasticity has been discussed, unveiling the immense prospects of elastic/plastic crystals for applications in biomedicine, flexible electronic devices, and flexible optics. Furthermore, this Perspective presents state-of-the-art experimental avenues and analysis methods for investigating molecular interactions in molecular crystals, which is vital for the future exploration of the mechanisms of crystal flexibility.
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Affiliation(s)
- Zhihua Wang
- School
of Materials Science and Engineering, Smart Sensing Interdisciplinary
Science Center, Frontiers Science Center for New Organic Matter, Nankai University, Tongyan Road 38, Tianjin 300350, P. R. China
| | - Wenqing Han
- School
of Materials Science and Engineering, Smart Sensing Interdisciplinary
Science Center, Frontiers Science Center for New Organic Matter, Nankai University, Tongyan Road 38, Tianjin 300350, P. R. China
| | - Rongchao Shi
- School
of Materials Science and Engineering, Smart Sensing Interdisciplinary
Science Center, Frontiers Science Center for New Organic Matter, Nankai University, Tongyan Road 38, Tianjin 300350, P. R. China
| | - Xiao Han
- School
of Materials Science and Engineering, Smart Sensing Interdisciplinary
Science Center, Frontiers Science Center for New Organic Matter, Nankai University, Tongyan Road 38, Tianjin 300350, P. R. China
| | - Yongshen Zheng
- School
of Materials Science and Engineering, Smart Sensing Interdisciplinary
Science Center, Frontiers Science Center for New Organic Matter, Nankai University, Tongyan Road 38, Tianjin 300350, P. R. China
| | - Jialiang Xu
- School
of Materials Science and Engineering, Smart Sensing Interdisciplinary
Science Center, Frontiers Science Center for New Organic Matter, Nankai University, Tongyan Road 38, Tianjin 300350, P. R. China
- Collaborative
Innovation Center of Chemical Science and Engineering, Tianjin 300350, P. R. China
| | - Xian-He Bu
- School
of Materials Science and Engineering, Smart Sensing Interdisciplinary
Science Center, Frontiers Science Center for New Organic Matter, Nankai University, Tongyan Road 38, Tianjin 300350, P. R. China
- Collaborative
Innovation Center of Chemical Science and Engineering, Tianjin 300350, P. R. China
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2
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Zhu C, Wang Q, Yun J, Hu Q, Yang G. Non-covalent interactions for carbonaceous materials: impacts of doping, curving and their combination. Phys Chem Chem Phys 2018; 20:22228-22240. [DOI: 10.1039/c8cp02286k] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Non-covalent interactions and their influencing factors are addressed after studying the binding of ion pairs with graphene (doped, curved and combination).
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Affiliation(s)
- Chang Zhu
- College of Resources and Environment & Chongqing Key Laboratory of Soil Multi-scale Interfacial Process
- Southwest University
- Chongqing 400715
- China
| | - Qian Wang
- College of Resources and Environment & Chongqing Key Laboratory of Soil Multi-scale Interfacial Process
- Southwest University
- Chongqing 400715
- China
| | - Jiena Yun
- College of Resources and Environment & Chongqing Key Laboratory of Soil Multi-scale Interfacial Process
- Southwest University
- Chongqing 400715
- China
| | - Qiaoli Hu
- College of Resources and Environment & Chongqing Key Laboratory of Soil Multi-scale Interfacial Process
- Southwest University
- Chongqing 400715
- China
| | - Gang Yang
- College of Resources and Environment & Chongqing Key Laboratory of Soil Multi-scale Interfacial Process
- Southwest University
- Chongqing 400715
- China
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3
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Hu W, Lin L, Banerjee AS, Vecharynski E, Yang C. Adaptively Compressed Exchange Operator for Large-Scale Hybrid Density Functional Calculations with Applications to the Adsorption of Water on Silicene. J Chem Theory Comput 2017; 13:1188-1198. [PMID: 28177229 DOI: 10.1021/acs.jctc.6b01184] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Density functional theory (DFT) calculations using hybrid exchange-correlation functionals have been shown to provide an accurate description of the electronic structures of nanosystems. However, such calculations are often limited to small system sizes due to the high computational cost associated with the construction and application of the Hartree-Fock (HF) exchange operator. In this paper, we demonstrate that the recently developed adaptively compressed exchange (ACE) operator formulation [J. Chem. Theory Comput. 2016, 12, 2242-2249] can enable hybrid functional DFT calculations for nanosystems with thousands of atoms. The cost of constructing the ACE operator is the same as that of applying the exchange operator to the occupied orbitals once, while the cost of applying the Hamiltonian operator with a hybrid functional (after construction of the ACE operator) is only marginally higher than that associated with applying a Hamiltonian constructed from local and semilocal exchange-correlation functionals. Therefore, this new development significantly lowers the computational barrier for using hybrid functionals in large-scale DFT calculations. We demonstrate that a parallel planewave implementation of this method can be used to compute the ground-state electronic structure of a 1000-atom bulk silicon system in less than 30 wall clock minutes and that this method scales beyond 8000 computational cores for a bulk silicon system containing about 4000 atoms. The efficiency of the present methodology in treating large systems enables us to investigate adsorption properties of water molecules on Ag-supported two-dimensional silicene. Our computational results show that water monomer, dimer, and trimer configurations exhibit distinct adsorption behaviors on silicene. In particular, the presence of additional water molecules in the dimer and trimer configurations induces a transition from physisorption to chemisorption, followed by dissociation on Ag-supported silicene. This is caused by the enhanced effect of hydrogen bonds on charge transfer and proton transfer processes. Such a hydrogen bond autocatalytic effect is expected to have broad applications for silicene as an efficient surface catalyst for oxygen reduction reactions and water dissociation.
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Affiliation(s)
- Wei Hu
- Computational Research Division, Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Lin Lin
- Computational Research Division, Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States.,Department of Mathematics, University of California , Berkeley, California 94720, United States
| | - Amartya S Banerjee
- Computational Research Division, Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Eugene Vecharynski
- Computational Research Division, Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Chao Yang
- Computational Research Division, Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
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4
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Molecular modeling and infrared and Raman spectroscopy of the crystal structure of the chiral antiparasitic drug Praziquantel. J Mol Model 2017; 23:106. [PMID: 28275906 DOI: 10.1007/s00894-017-3266-3] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Accepted: 01/30/2017] [Indexed: 10/20/2022]
Abstract
Anthelmintic praziquantel (PZQ) and its molecular and crystal lattice structures were studied by means of atomistic calculations based on empirical interatomic potentials and quantum mechanical methods (DFT). This chiral drug presents several crystal polymorphs due to the enantiomers (either R or S) or the racemic crystal, and different molecular conformations. The relative configurations of the carbonyl groups in PZQ define these conformations that produce different polymorphs. The polarity of these conformers is quite different and their relative population can vary in media with different polarity. Crystal structures of PZQ were studied by infrared and Raman spectroscopy and their spectroscopical properties were calculated by quantum mechanical methods, assigning many of their bands, and finding a good agreement with experimental data.
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5
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Eikeland E, Thomsen MK, Madsen SR, Overgaard J, Spackman MA, Iversen BB. Structural Collapse of the Hydroquinone-Formic Acid Clathrate: A Pressure-Medium-Dependent Phase Transition. Chemistry 2016; 22:4061-9. [PMID: 26879515 DOI: 10.1002/chem.201504908] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2015] [Indexed: 11/06/2022]
Abstract
The energy landscape governing a new pressure-induced phase transition in the hydroquinone-formic acid clathrate is reported in which the host structure collapses, opening up the cavity channels within which the guest molecules migrate and order. The reversible isosymmetric phase transition causes significant changes in the morphology and the birefringence of the crystal. The subtle intermolecular interaction energies in the clathrate are quantified at varying pressures using novel model energies and energy frameworks. These calculations show that the high-pressure phase forms a more stable host network at the expense of less-stable host-guest interactions. The phase transition can be kinetically hindered using a nonhydrostatic pressure-transmitting medium, enabling the comparison of intermolecular energies in two polymorphic structures in the same pressure range. Overall this study illustrates a need for accurate intermolecular energies when analyzing self-assembly structures and supramolecular aggregates.
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Affiliation(s)
- Espen Eikeland
- Center for Materials Crystallography, Department of Chemistry and iNANO, Aarhus University, 8000, Aarhus C, Denmark
| | - Maja K Thomsen
- Center for Materials Crystallography, Department of Chemistry and iNANO, Aarhus University, 8000, Aarhus C, Denmark
| | - Solveig R Madsen
- Center for Materials Crystallography, Department of Chemistry and iNANO, Aarhus University, 8000, Aarhus C, Denmark
| | - Jacob Overgaard
- Center for Materials Crystallography, Department of Chemistry and iNANO, Aarhus University, 8000, Aarhus C, Denmark
| | - Mark A Spackman
- School of Chemistry and Biochemistry, M310, University of Western Australia, 35 Stirling Hwy, Crawley, 6009, Australia
| | - Bo B Iversen
- Center for Materials Crystallography, Department of Chemistry and iNANO, Aarhus University, 8000, Aarhus C, Denmark.
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Vaughan J, Carter DJ, Rohl AL, Ogden MI, Skelton BW, Simpson PV, Brown DH. Silver(I), gold(I) and palladium(II) complexes of a NHC-pincer ligand with an aminotriazine core: a comparison with pyridyl analogues. Dalton Trans 2016; 45:1484-95. [PMID: 26672744 DOI: 10.1039/c5dt04213e] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Dinuclear silver, di- and tetra-nuclear gold, and mononuclear palladium complexes with chelating C,N,C diethylaminotriazinyl-bridged bis(NHC) pincer ligands were prepared and characterised. The silver and gold complexes exist in a twisted, helical conformation in both the solution- and the solid state. In contrast, an analogous dinuclear gold complex with pyridyl-bridged NHCs exists in a linear conformation. Computational studies have been performed to rationalise the formation of twisted/helical vs. linear forms.
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Affiliation(s)
- Jamila Vaughan
- Department of Chemistry, Curtin University, GPO Box U1987, Perth WA 6845, Australia.
| | - Damien J Carter
- Science & Maths Education Centre, Nanochemistry Research Institute & Department of Chemistry, Curtin University, GPO Box U1987, Perth WA 6845, Australia
| | - Andrew L Rohl
- Curtin Institute for Computation, Nanochemistry Research Institute & Department of Chemistry, Curtin University, GPO Box U1987, Perth WA 6845, Australia
| | - Mark I Ogden
- Department of Chemistry, Curtin University, GPO Box U1987, Perth WA 6845, Australia.
| | - Brian W Skelton
- Centre for Microscopy, Characterisation and Analysis, The University of Western Australia, 35 Stirling Highway, Crawley, WA 6009, Australia
| | - Peter V Simpson
- Department of Chemistry, Curtin University, GPO Box U1987, Perth WA 6845, Australia.
| | - David H Brown
- Department of Chemistry, Curtin University, GPO Box U1987, Perth WA 6845, Australia.
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7
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Litinskii AO, Hien TD. Electron energy and optical characteristics of two-dimensional graphene boronitride structures. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY B 2015. [DOI: 10.1134/s1990793114050194] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Turner MJ, Grabowsky S, Jayatilaka D, Spackman MA. Accurate and Efficient Model Energies for Exploring Intermolecular Interactions in Molecular Crystals. J Phys Chem Lett 2014; 5:4249-55. [PMID: 26273970 DOI: 10.1021/jz502271c] [Citation(s) in RCA: 255] [Impact Index Per Article: 25.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
The energy of interaction between molecules is commonly expressed in terms of four key components: electrostatic, polarization, dispersion, and exchange-repulsion. Using monomer wave functions to obtain accurate estimates of electrostatic, polarization, and repulsion energies along with Grimme's dispersion corrections, a series of energy models are derived by fitting to dispersion-corrected DFT energies for a large number of molecular pairs extracted from organic and inorganic molecular crystals. The best performing model reproduces B3LYP-D2/6-31G(d,p) counterpoise-corrected energies with a mean absolute deviation (MAD) of just over 1 kJ mol(-1) but in considerably less computation time. It also performs surprisingly well against benchmark CCSD(T)/CBS energies, with a MAD of 2.5 kJ mol(-1) for a combined data set including Hobza's X40, S22, A24, and S66 dimers. Two of these energy models, the most accurate and the fastest, are expected to find widespread application in investigations of molecular crystals.
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9
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Li Y, Tu X, Wang M, Wang H, Sanvito S, Hou S. Microscopic mechanism of electron transfer through the hydrogen bonds between carboxylated alkanethiol molecules connected to gold electrodes. J Chem Phys 2014; 141:174702. [DOI: 10.1063/1.4900511] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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10
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Bailey S, Visontai D, Lambert CJ, Bryce MR, Frampton H, Chappell D. A study of planar anchor groups for graphene-based single-molecule electronics. J Chem Phys 2014; 140:054708. [PMID: 24511969 DOI: 10.1063/1.4861941] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
To identify families of stable planar anchor groups for use in single molecule electronics, we report detailed results for the binding energies of two families of anthracene and pyrene derivatives adsorbed onto graphene. We find that all the selected derivatives functionalized with either electron donating or electron accepting substituents bind more strongly to graphene than the parent non-functionalized anthracene or pyrene. The binding energy is sensitive to the detailed atomic alignment of substituent groups over the graphene substrate leading to larger than expected binding energies for -OH and -CN derivatives. Furthermore, the ordering of the binding energies within the anthracene and pyrene series does not simply follow the electron affinities of the substituents. Energy barriers to rotation or displacement on the graphene surface are much lower than binding energies for adsorption and therefore at room temperature, although the molecules are bound to the graphene, they are almost free to move along the graphene surface. Binding energies can be increased by incorporating electrically inert side chains and are sensitive to the conformation of such chains.
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Affiliation(s)
- Steven Bailey
- Department of Physics, Lancaster University, Lancaster LA1 4YB, United Kingdom
| | - David Visontai
- Department of Physics, Lancaster University, Lancaster LA1 4YB, United Kingdom
| | - Colin J Lambert
- Department of Physics, Lancaster University, Lancaster LA1 4YB, United Kingdom
| | - Martin R Bryce
- Department of Chemistry, Durham University, Durham DH1 3LE, United Kingdom
| | - Harry Frampton
- BP Exploration Operating Company Limited, Chertsey Road, Sunbury on Thames, Middlesex TW16 7BP, United Kingdom
| | - David Chappell
- BP Exploration Operating Company Limited, Chertsey Road, Sunbury on Thames, Middlesex TW16 7BP, United Kingdom
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11
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Carter DJ, Rohl AL. van der Waals corrected density functional calculations of the adsorption of benzene on the Cu (111) surface. J Comput Chem 2014. [DOI: 10.1002/jcc.23745] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Damien J. Carter
- Department of Chemistry and Nanochemistry Research Institute; Curtin University; GPO Box U1987, Perth, Western Australia 6845 Australia
| | - Andrew L. Rohl
- Department of Chemistry and Nanochemistry Research Institute; Curtin University; GPO Box U1987, Perth, Western Australia 6845 Australia
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12
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Carter DJ, Rohl AL. Benchmarking Calculated Lattice Parameters and Energies of Molecular Crystals Using van der Waals Density Functionals. J Chem Theory Comput 2014; 10:3423-37. [DOI: 10.1021/ct500335b] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Damien J. Carter
- Nanochemistry
Research Institute
and Department of Chemistry, Curtin University, GPO Box U1987, Perth, Western
Australia 6845, Australia
| | - Andrew L. Rohl
- Nanochemistry
Research Institute
and Department of Chemistry, Curtin University, GPO Box U1987, Perth, Western
Australia 6845, Australia
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13
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Vogiatzis KD, Klopper W. Accurate non-covalent interactions with basis-set corrections from interference-corrected perturbation theory: comparison with the S22B database. Mol Phys 2013. [DOI: 10.1080/00268976.2013.805888] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Konstantinos D. Vogiatzis
- Center for Functional Nanostructures (CFN) and Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), , P. O. Box 6980, Karlsruhe, D-76049, Germany
| | - Wim Klopper
- Center for Functional Nanostructures (CFN) and Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), , P. O. Box 6980, Karlsruhe, D-76049, Germany
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Ganji MD, Mohseni M, Bakhshandeh A. Simple benzene derivatives adsorption on defective single-walled carbon nanotubes: a first-principles van der Waals density functional study. J Mol Model 2012; 19:1059-67. [DOI: 10.1007/s00894-012-1652-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2012] [Accepted: 10/14/2012] [Indexed: 12/01/2022]
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Wu J, Gygi F. A simplified implementation of van der Waals density functionals for first-principles molecular dynamics applications. J Chem Phys 2012; 136:224107. [DOI: 10.1063/1.4727850] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
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