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Zhao Y, Li H, Lei J, Xie J, Li L, Gan Y, Deng J, Qi R, Liu Y. Study on the surface wetting mechanism of bituminous coal based on the microscopic molecular structure. RSC Adv 2023; 13:5933-5945. [PMID: 36816080 PMCID: PMC9936267 DOI: 10.1039/d2ra07908a] [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: 12/11/2022] [Accepted: 02/01/2023] [Indexed: 02/19/2023] Open
Abstract
The chemical wet dust removal method is one of the hot methods for coal dust control, and the key to its success lies in whether the surface of coal dust can be well wetted or not. Nowadays, the wetting mechanism of the coal dust surface is understudied, limiting the further application of chemical wet dust removal. Thus, the exploration of the wetting mechanism based on the microscopic molecular structure characteristics of the coal surface provides a new solution to improve the wet dust removal efficiency. Herein, the bituminous coal collected from 3 groups of coal seams in the Pingdingshan mining area was used as the object of study to reveal the microscopic wetting mechanism. Proximate analysis, nuclear magnetic resonance carbon spectroscopy (13C NMR) and X-ray photoelectron spectroscopy (XPS) can well distinguish the microstructural information of the coal surface, enabling building the molecular structure models of three groups of coal. Joint contact angle experiments were conducted to explore the influencing factors between the molecular structure of coal dust and its wettability. Molecular simulation techniques, combined with indoor experiments, were used to explore the essential causes of the differences in the wetting mechanisms of bituminous coal dust. The results showed that the composition and structure of carbon and oxygen elements on the coal surface has a significant effect on the wettability of coal dust. The higher the relative content of aromatic carbon and oxygen elements, the better the wettability of the coal surface. An opposite trend occurred for the aliphatic carbon. The difference in wettability of coal surfaces mainly stems from the ability of hydrophilic functional groups on coal surfaces to form hydrogen bonds with water molecules. The aromatic hydrocarbon structure has a much greater ability to adsorb water molecules than the aliphatic hydrocarbon structure. The research results can provide scientific guidance for the design of efficient and environmentally friendly dust suppressants to realize clean coal production in mines.
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Affiliation(s)
- Yun Zhao
- School of Mechanical Engineering, Chengdu UniversityChengdu610106China
| | - Hongmei Li
- College of Food and Bioengineering, Chengdu University Chengdu 610106 China .,State Key Lab of Hydraulics and Mountain River Engineering, College of Water Resource & Hydropower, Sichuan University Chengdu Sichuan 610065 China
| | - Jinming Lei
- College of Food and Bioengineering, Chengdu University Chengdu 610106 China
| | - Jing Xie
- State Key Lab of Hydraulics and Mountain River Engineering, College of Water Resource & Hydropower, Sichuan UniversityChengduSichuan 610065China
| | - Luming Li
- College of Food and Bioengineering, Chengdu University Chengdu 610106 China
| | - Ya Gan
- College of Food and Bioengineering, Chengdu University Chengdu 610106 China
| | - Jie Deng
- College of Food and Bioengineering, Chengdu University Chengdu 610106 China
| | - Rui Qi
- College of Food and Bioengineering, Chengdu University Chengdu 610106 China
| | - Yongliang Liu
- School of Mechanical Engineering, Chengdu UniversityChengdu610106China
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2
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Rostkowski M, Schürner HKV, Sowińska A, Vasquez L, Przydacz M, Elsner M, Dybala-Defratyka A. Isotope Effects on the Vaporization of Organic Compounds from an Aqueous Solution-Insight from Experiment and Computations. J Phys Chem B 2021; 125:13868-13885. [PMID: 34908428 PMCID: PMC8724799 DOI: 10.1021/acs.jpcb.1c05574] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
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An isotope fractionation
analysis of organic groundwater pollutants
can assess the remediation at contaminated sites yet needs to consider
physical processes as potentially confounding factors. This study
explores the predictability of water–air partitioning isotope
effects from experiments and computational predictions for benzene
and trimethylamine (both H-bond acceptors) as well as chloroform (H-bond
donor). A small, but significant, isotope fractionation of different
direction and magnitude was measured with ε = −0.12‰
± 0.07‰ (benzene), εC = 0.49‰
± 0.23‰ (triethylamine), and εH = 1.79‰
± 0.54‰ (chloroform) demonstrating that effects do not
correlate with expected hydrogen-bond functionalities. Computations
revealed that the overall isotope effect arises from contributions
of different nature and extent: a weakening of intramolecular vibrations
in the condensed phase plus additional vibrational modes from a complexation
with surrounding water molecules. Subtle changes in benzene contrast
with a stronger coupling between intra- and intermolecular modes in
the chloroform–water system and a very local vibrational response
with few atoms involved in a specific mode of triethylamine. An energy
decomposition analysis revealed that each system was affected differently
by electrostatics and dispersion, where dispersion was dominant for
benzene and electrostatics dominated for chloroform and triethylamine.
Interestingly, overall stabilization patterns in all studied systems
originated from contributions of dispersion rather than other energy
terms.
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Affiliation(s)
- Michał Rostkowski
- Institute of Applied Radiation Chemistry, Faculty of Chemistry, Lodz University of Technology, Zeromskiego 116, 90-924 Lodz, Poland
| | - Heide K V Schürner
- Chair of Analytical Chemistry and Water Chemistry, Technical University of Munich, Elisabeth-Winterhalter-Weg 6, 81377 Munich, Germany
| | - Agata Sowińska
- Institute of Applied Radiation Chemistry, Faculty of Chemistry, Lodz University of Technology, Zeromskiego 116, 90-924 Lodz, Poland
| | - Luis Vasquez
- Institute of Applied Radiation Chemistry, Faculty of Chemistry, Lodz University of Technology, Zeromskiego 116, 90-924 Lodz, Poland
| | - Martyna Przydacz
- Institute of Applied Radiation Chemistry, Faculty of Chemistry, Lodz University of Technology, Zeromskiego 116, 90-924 Lodz, Poland
| | - Martin Elsner
- Chair of Analytical Chemistry and Water Chemistry, Technical University of Munich, Elisabeth-Winterhalter-Weg 6, 81377 Munich, Germany
| | - Agnieszka Dybala-Defratyka
- Institute of Applied Radiation Chemistry, Faculty of Chemistry, Lodz University of Technology, Zeromskiego 116, 90-924 Lodz, Poland
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3
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Queiroz MH, Alves TV, Rivelino R. A theoretical screening of the O H⋅⋅⋅π interaction between water and benzene using density-functional approaches: Effects of nonlocal exchange and long-range dispersion corrections in the true minimum. COMPUT THEOR CHEM 2021. [DOI: 10.1016/j.comptc.2021.113464] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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4
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Hao H, Qi X, Tang W, Liu P. Energy Decomposition Analysis Reveals the Nature of Lone Pair−π Interactions with Cationic π Systems in Catalytic Acyl Transfer Reactions. Org Lett 2021; 23:4411-4414. [DOI: 10.1021/acs.orglett.1c01351] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | | | - Weiping Tang
- School of Pharmacy and Department of Chemistry, University of Wisconsin−Madison, Madison, Wisconsin 53706, United States
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5
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Silva WGDP, van Wijngaarden J. Characterization of Large-Amplitude Motions and Hydrogen Bonding Interactions in the Thiophene–Water Complex by Rotational Spectroscopy. J Phys Chem A 2021; 125:3425-3431. [DOI: 10.1021/acs.jpca.1c02086] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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6
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Felker PM, Bačić Z. Benzene–H2O and benzene–HDO: Fully coupled nine-dimensional quantum calculations of flexible H2O/HDO intramolecular vibrational excitations and intermolecular states of the dimers, and their infrared and Raman spectra using compact bases. J Chem Phys 2020; 152:124103. [DOI: 10.1063/5.0002515] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Peter M. Felker
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095-1569, USA
| | - Zlatko Bačić
- Department of Chemistry, New York University, New York, New York 10003, USA
- NYU-ECNU Center for Computational Chemistry at NYU Shanghai, 3663 Zhongshan Road North, Shanghai 200062, China
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7
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Wasserman JG, Murphy KJ, Newby JJ. Evidence of C–H···O Interactions in the Thiophene:Water Complex. J Phys Chem A 2019; 123:10406-10417. [DOI: 10.1021/acs.jpca.9b07355] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Joshua G. Wasserman
- Department of Chemistry, Hobart and William Smith Colleges, Geneva, New York 14456, United States
| | - Keshihito J. Murphy
- Department of Chemistry, Hobart and William Smith Colleges, Geneva, New York 14456, United States
| | - Josh J. Newby
- Department of Chemistry, Hobart and William Smith Colleges, Geneva, New York 14456, United States
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8
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Lockwood SP, Fuller TG, Newby JJ. Structure and Spectroscopy of Furan:H2O Complexes. J Phys Chem A 2018; 122:7160-7170. [DOI: 10.1021/acs.jpca.8b06308] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Schuyler P. Lockwood
- Department of Chemistry, Hobart and William Smith Colleges, Geneva, New York 14456, United States
| | - Tyler G. Fuller
- Department of Chemistry, Hobart and William Smith Colleges, Geneva, New York 14456, United States
| | - Josh J. Newby
- Department of Chemistry, Hobart and William Smith Colleges, Geneva, New York 14456, United States
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9
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Dawes A, Pascual N, Mason NJ, Gärtner S, Hoffmann SV, Jones NC. Probing the interaction between solid benzene and water using vacuum ultraviolet and infrared spectroscopy. Phys Chem Chem Phys 2018; 20:15273-15287. [DOI: 10.1039/c8cp01228h] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Benzene exhibits strong concentration dependent energy shifts of electronic states in solid phase mixtures with water ice.
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Affiliation(s)
- Anita Dawes
- School of Physical Sciences
- The Open University
- Walton Hall
- Milton Keynes
- UK
| | - Natalia Pascual
- Department of Chemistry and Physics
- La Trobe Institute for Molecular Science
- La Trobe University
- Melbourne 3086
- Australia
| | - Nigel J. Mason
- School of Physical Sciences
- The Open University
- Walton Hall
- Milton Keynes
- UK
| | - Sabrina Gärtner
- ISIS Neutron and Muon Source
- Science and Technology Facilities Council
- Rutherford Appleton Laboratory
- Didcot
- UK
| | - Søren V. Hoffmann
- ISA
- Centre for Storage Ring Facilities
- Department of Physics and Astronomy
- Aarhus University
- DK-8000 Aarhus C
| | - Nykola C. Jones
- ISA
- Centre for Storage Ring Facilities
- Department of Physics and Astronomy
- Aarhus University
- DK-8000 Aarhus C
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10
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Iwamoto R, Kusanagi H, Harui R. Novel Hydrogen-Bonding Pattern of Water in Polycarbonate. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2017. [DOI: 10.1246/bcsj.20160394] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Reikichi Iwamoto
- NIRS Institute of Water, Yuyamadai 2-7-10 Kawanishi, Hyogo 666-0137
| | - Hiroshi Kusanagi
- NIRS Institute of Water, Yuyamadai 2-7-10 Kawanishi, Hyogo 666-0137
| | - Rika Harui
- Thermo Fischer Scientific Japan, DNX Shin-Osaka Bldg. 6-3-14 Nishi Nakajima, Yodogawa-ku, Osaka 532-0011
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11
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Ingenmey J, von Domaros M, Kirchner B. Predicting miscibility of binary liquids from small cluster QCE calculations. J Chem Phys 2017; 146:154502. [PMID: 28433040 DOI: 10.1063/1.4980032] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Affiliation(s)
- Johannes Ingenmey
- Mulliken Center for Theoretical Chemistry, Universität Bonn, Beringstr. 4, D-53115 Bonn, Germany
| | - Michael von Domaros
- Mulliken Center for Theoretical Chemistry, Universität Bonn, Beringstr. 4, D-53115 Bonn, Germany
| | - Barbara Kirchner
- Mulliken Center for Theoretical Chemistry, Universität Bonn, Beringstr. 4, D-53115 Bonn, Germany
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12
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Dehestani M, Pourestarabadi S. A density functional theory and quantum theory of atoms in molecules study on hydrogen bonding interaction between paracetamol and water molecules. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY B 2017. [DOI: 10.1134/s1990793116060191] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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13
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Zhang C, Bell D, Harger M, Ren P. Polarizable Multipole-Based Force Field for Aromatic Molecules and Nucleobases. J Chem Theory Comput 2017; 13:666-678. [PMID: 28030769 PMCID: PMC5312700 DOI: 10.1021/acs.jctc.6b00918] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
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Aromatic molecules with π electrons
are commonly involved
in chemical and biological recognitions. For example, nucleobases
play central roles in DNA/RNA structure and their interactions with
proteins. The delocalization of the π electrons is responsible
for the high polarizability of aromatic molecules. In this work, the
AMOEBA force field has been developed and applied to 5 regular nucleobases
and 12 aromatic molecules. The permanent electrostatic energy is expressed
as atomic multipole interactions between atom pairs, and many-body
polarization is accounted for by mutually induced atomic dipoles.
We have systematically investigated aromatic ring stacking and aromatic-water
interactions for nucleobases and aromatic molecules, as well as base–base
hydrogen-bonding pair interactions, all at various distances and orientations.
van der Waals parameters were determined by comparison to the quantum
mechanical interaction energy of these dimers and fine-tuned using
condensed phase simulation. By comparing to quantum mechanical calculations,
we show that the resulting classical potential is able to accurately
describe molecular polarizability, molecular vibrational frequency,
and dimer interaction energy of these aromatic systems. Condensed
phase properties, including hydration free energy, liquid density,
and heat of vaporization, are also in good overall agreement with
experimental values. The structures of benzene liquid phase and benzene-water
solution were also investigated by simulation and compared with experimental
and PDB structure derived statistical results.
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Affiliation(s)
- Changsheng Zhang
- Department of Biomedical Engineering, The University of Texas at Austin , Austin, Texas 78712, United States
| | - David Bell
- Department of Biomedical Engineering, The University of Texas at Austin , Austin, Texas 78712, United States
| | - Matthew Harger
- Department of Biomedical Engineering, The University of Texas at Austin , Austin, Texas 78712, United States
| | - Pengyu Ren
- Department of Biomedical Engineering, The University of Texas at Austin , Austin, Texas 78712, United States
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14
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Hayashi S, Sugibayashi Y, Nakanishi W. Behavior of interactions between hydrogen chalcogenides and an anthracene π-system elucidated by QTAIM dual functional analysis with QC calculations. RSC Adv 2017. [DOI: 10.1039/c7ra04224h] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The nature of the interactions between chalcogenides and the anthracene p-system, EH2-*-p(C14H10), is predicted to be close to that of EH2-*-p(C10H8), although the partial structures around the central rings can be found in EH2-*-p(C6H6).
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Affiliation(s)
- Satoko Hayashi
- Department of Material Science and Chemistry
- Faculty of Systems Engineering
- Wakayama University
- Wakayama
- 640-8510 Japan
| | - Yuji Sugibayashi
- Department of Material Science and Chemistry
- Faculty of Systems Engineering
- Wakayama University
- Wakayama
- 640-8510 Japan
| | - Waro Nakanishi
- Department of Material Science and Chemistry
- Faculty of Systems Engineering
- Wakayama University
- Wakayama
- 640-8510 Japan
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15
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Hirahara M, Yagi M. Photoisomerization of ruthenium(ii) aquo complexes: mechanistic insights and application development. Dalton Trans 2017; 46:3787-3799. [DOI: 10.1039/c7dt00079k] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The perspective article highlights a new strategic synthesis of dinuclear ruthenium(ii) complexes acting as active water oxidation catalysts and also reports the development of unique visible-light-responsive giant vesicles, both of which are achieved based on photoisomerization.
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Affiliation(s)
- Masanari Hirahara
- Department of Applied Chemistry
- National Defense Academy of Japan
- Kanagawa 239-8686
- Japan
| | - Masayuki Yagi
- Department of Materials Science and Technology
- Faculty of Engineering
- Niigata University
- Niigata 950-2181
- Japan
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16
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Mishra P, Verma K, Bawari D, Viswanathan KS. Does borazine-water behave like benzene-water? A matrix isolation infrared and ab initio study. J Chem Phys 2016; 144:234307. [PMID: 27334162 DOI: 10.1063/1.4953793] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Borazine is isoelectronic with benzene and is popularly referred to as inorganic benzene. The study of non-covalent interactions with borazine and comparison with its organic counterpart promises to show interesting similarities and differences. The motivation of the present study of the borazine-water interaction, for the first time, stems from such interesting possibilities. Hydrogen-bonded complexes of borazine and water were studied using matrix isolation infrared spectroscopy and quantum chemical calculations. Computations were performed at M06-2X and MP2 levels of theory using 6-311++G(d,p) and aug-cc-pVDZ basis sets. At both the levels of theory, the complex involving an N-H⋯O interaction, where the N-H of borazine serves as the proton donor to the oxygen of water was found to be the global minimum, in contrast to the benzene-water system, which showed an H-π interaction. The experimentally observed infrared spectra of the complexes corroborated well with our computations for the complex corresponding to the global minimum. In addition to the global minimum, our computations also located two local minima on the borazine-water potential energy surface. Of the two local minima, one corresponded to a structure where the water was the proton donor to the nitrogen of borazine, approaching the borazine ring from above the plane of the ring; a structure that resembled the global minimum in the benzene-water H-π complex. The second local minimum corresponded to an interaction of the oxygen of water with the boron of borazine, which can be termed as the boron bond. Clearly the borazine-water system presents a richer landscape than the benzene-water system.
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Affiliation(s)
- P Mishra
- Department of Chemistry, Indian Institute of Science Education and Research, Sector 81, Mohali, Punjab 140306, India
| | - K Verma
- Department of Chemistry, Indian Institute of Science Education and Research, Sector 81, Mohali, Punjab 140306, India
| | - D Bawari
- Department of Chemistry, Indian Institute of Science Education and Research, Sector 81, Mohali, Punjab 140306, India
| | - K S Viswanathan
- Department of Chemistry, Indian Institute of Science Education and Research, Sector 81, Mohali, Punjab 140306, India
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17
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Hayashi S, Sugibayashi Y, Nakanishi W. Dynamic and static behavior of the H...π and E...π interactions in EH₂ adducts of benzene π-system (E = O, S, Se and Te), elucidated by QTAIM dual functional analysis. Phys Chem Chem Phys 2016; 18:9948-60. [PMID: 26818845 DOI: 10.1039/c5cp06062a] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Dynamic and static behavior of the interactions in the EH2 adducts of a benzene π-system (E = O, S, Se and Te) is elucidated by applying QTAIM-DFA (QTAIM dual functional analysis). Two types of H-*-π and E-*-π interactions are detected in the adducts, where the asterisk (*) emphasizes the existence of the bond critical point (BCP) on the interaction in question. Total electron energy densities Hb(rc) are plotted versus Hb(rc) -Vb(rc)/2 [=(ℏ(2)/8m)∇(2)ρb(rc)] at BCPs in QTAIM-DFA, where Vb(rc) are the potential energy densities at BCPs. Data from the fully optimized structures are analyzed by polar (R, θ) coordinate representation. Each plot for an interaction, containing data from the perturbed structures with those of the fully optimized one, shows a specific curve, which provides important information. The plot is expressed by (θp, κp): θp corresponds to the tangent line for the plot and κp is the curvature. θ and θp are measured from the y-axis and y-direction, respectively. Moreover, (R, θ) corresponds to the static nature, (θp, κp) represents the dynamic nature of interactions. While θ classifies the interaction in question, θp characterizes it. Both values are less than 90° for all H-*-π and E-*-π interactions examined in this study; therefore, they are all classified by the pure closed-shell interactions and predicted to have the character of vdW nature. However, it is suggested that E-*-π has the nature of the stronger interaction than the case of H-*-π for dynamic behavior in the same species evaluated at the MP2 and M06-2X levels. The nature of the interactions is well analyzed and specified by applying QTAIM-DFA.
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Affiliation(s)
- Satoko Hayashi
- Department of Material Science and Chemistry, Faculty of Systems Engineering, Wakayama University, 930 Sakaedani, Wakayama 640-8510, Japan.
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18
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Marchione D, McCoustra MRS. Non-covalent interaction of benzene with methanol and diethyl ether solid surfaces. Phys Chem Chem Phys 2016; 18:20790-801. [DOI: 10.1039/c6cp01787h] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
We have investigated the interactions involved at the interface of binary, layered ices (benzene on methanol and on diethyl ether) by means of laboratory experiments and ab initio calculations on model clusters.
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19
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Hirahara M, Hakamata T, League AB, Ertem MZ, Takahashi K, Nagai S, Inaba K, Yamazaki H, Saito K, Yui T, Cramer CJ, Yagi M. Mechanisms and Factors Controlling Photoisomerization Equilibria, Ligand Exchange, and Water Oxidation Catalysis Capabilities of Mononuclear Ruthenium(II) Complexes. Eur J Inorg Chem 2015. [DOI: 10.1002/ejic.201500642] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Masanari Hirahara
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Tomoya Hakamata
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Aaron B. League
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, 207 Pleasant St. SE, Minneapolis, MN 55455‐0431, USA
| | - Mehmed Z. Ertem
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, 207 Pleasant St. SE, Minneapolis, MN 55455‐0431, USA
| | - Kosuke Takahashi
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Sho Nagai
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Keisuke Inaba
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Hirosato Yamazaki
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Kenji Saito
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Tatsuto Yui
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
| | - Christopher J. Cramer
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, 207 Pleasant St. SE, Minneapolis, MN 55455‐0431, USA
| | - Masayuki Yagi
- Department of Materials Science and Technology, Faculty of Engineering, Niigata University, 8050 Ikarashi‐2, Niigata 950‐2181, Japan, https://www.niigata‐u.ac.jp/index_e.html
- Precursory Research for Embryonic Science and Technology (PRESTO), Japan Science and Technology Agency (JST), 4‐1‐8 Honcho, Kawaguchi, Saitama 332‐0012, Japan
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20
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T.N. R, M. U, Rajkumar BJ. Structural and spectroscopic study of adsorption of anthracene on silver. Mol Phys 2015. [DOI: 10.1080/00268976.2015.1053544] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Berland K, Cooper VR, Lee K, Schröder E, Thonhauser T, Hyldgaard P, Lundqvist BI. van der Waals forces in density functional theory: a review of the vdW-DF method. REPORTS ON PROGRESS IN PHYSICS. PHYSICAL SOCIETY (GREAT BRITAIN) 2015; 78:066501. [PMID: 25978530 DOI: 10.1088/0034-4885/78/6/066501] [Citation(s) in RCA: 309] [Impact Index Per Article: 34.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
A density functional theory (DFT) that accounts for van der Waals (vdW) interactions in condensed matter, materials physics, chemistry, and biology is reviewed. The insights that led to the construction of the Rutgers-Chalmers van der Waals density functional (vdW-DF) are presented with the aim of giving a historical perspective, while also emphasizing more recent efforts which have sought to improve its accuracy. In addition to technical details, we discuss a range of recent applications that illustrate the necessity of including dispersion interactions in DFT. This review highlights the value of the vdW-DF method as a general-purpose method, not only for dispersion bound systems, but also in densely packed systems where these types of interactions are traditionally thought to be negligible.
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Affiliation(s)
- Kristian Berland
- Centre for Materials Science and Nanotechnology, SMN, University of Oslo, NO-0318 Oslo, Norway. Microtechnology and Nanoscience, MC2, Chalmers University of Technology, SE-412 96 Göteborg, Sweden
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Hussain HB, Wilson KA, Wetmore SD. Serine and Cysteine π-Interactions in Nature: A Comparison of the Frequency, Structure, and Stability of Contacts Involving Oxygen and Sulfur. Aust J Chem 2015. [DOI: 10.1071/ch14598] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Despite many DNA–protein π-interactions in high-resolution crystal structures, only four X–H···π or X···π interactions were found between serine (Ser) or cysteine (Cys) and DNA nucleobase π-systems in over 100 DNA–protein complexes (where X = O for Ser and X = S for Cys). Nevertheless, 126 non-covalent contacts occur between Ser or Cys and the aromatic amino acids in many binding arrangements within proteins. Furthermore, Ser and Cys protein–protein π-interactions occur with similar frequencies and strengths. Most importantly, due to the great stability that can be provided to biological macromolecules (up to –20 kJ mol–1 for neutral π-systems or –40 kJ mol–1 for cationic π-systems), Ser and Cys π-interactions should be considered when analyzing protein stability and function.
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Janjić GV, Malkov SN, Zivković MV, Zarić SD. What are preferred water-aromatic interactions in proteins and crystal structures of small molecules? Phys Chem Chem Phys 2014; 16:23549-53. [PMID: 25271703 DOI: 10.1039/c4cp00929k] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The distribution of water molecules around aromatic rings in the protein structures and crystal structures of small molecules shows quite a small number of the strongest OH-π interactions, a larger number of parallel interactions, and the largest number of the weakest CH-O interactions.
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Affiliation(s)
- Goran V Janjić
- Institute of Chemistry, Technology and Metallurgy, University of Belgrade, Njegoševa 12, P.O. Box 473, Belgrade, Serbia
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25
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Vojislavljević-Vasilev DZ, Janjić GV, Medaković VB, Blagojević JP, Zarić SD. Parallel water/aromatic interactions of non-coordinated and coordinated water. Chemphyschem 2014; 15:2386-96. [PMID: 24840235 DOI: 10.1002/cphc.201402004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2014] [Revised: 03/19/2014] [Indexed: 11/07/2022]
Abstract
The parallel interactions of non-coordinated and coordinated water molecules with an aromatic ring were studied by analyzing data in the Cambridge structural database (CSD) and by using quantum chemical calculations. The CSD data show that water/aromatic contacts prefer parallel to OH/π interactions, which indicates the importance of parallel interactions. The results reveal the influence of water coordination to a metal ion; the interactions of aqua complexes are stronger. Coordinated water molecules prefer a parallel-down orientation in which one OH bond is parallel to the aromatic ring, whereas the other OH bond points to the plane of the ring. The interactions of aqua complexes with parallel-down water/benzene orientation are as strong as the much better known OH/π orientations. The strongest calculated interaction energy is -14.89 kcal mol(-1) . The large number of parallel contacts in crystal structures and the quite strong interactions indicate the importance of parallel orientation in water/benzene interactions.
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Nijem N, Canepa P, Kaipa U, Tan K, Roodenko K, Tekarli S, Halbert J, Oswald IWH, Arvapally RK, Yang C, Thonhauser T, Omary MA, Chabal YJ. Water cluster confinement and methane adsorption in the hydrophobic cavities of a fluorinated metal-organic framework. J Am Chem Soc 2013; 135:12615-26. [PMID: 23805867 DOI: 10.1021/ja400754p] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Water cluster formation and methane adsorption within a hydrophobic porous metal organic framework is studied by in situ vibrational spectroscopy, adsorption isotherms, and first-principle DFT calculations (using vdW-DF). Specifically, the formation and stability of H2O clusters in the hydrophobic cavities of a fluorinated metal-organic framework (FMOF-1) is examined. Although the isotherms of water show no measurable uptake (see Yang et al. J. Am. Chem. Soc. 2011 , 133 , 18094 ), the large dipole of the water internal modes makes it possible to detect low water concentrations using IR spectroscopy in pores in the vicinity of the surface of the solid framework. The results indicate that, even in the low pressure regime (100 mTorr to 3 Torr), water molecules preferentially occupy the large cavities, in which hydrogen bonding and wall hydrophobicity foster water cluster formation. We identify the formation of pentameric water clusters at pressures lower than 3 Torr and larger clusters beyond that pressure. The binding energy of the water species to the walls is negligible, as suggested by DFT computational findings and corroborated by IR absorption data. Consequently, intermolecular hydrogen bonding dominates, enhancing water cluster stability as the size of the cluster increases. The formation of water clusters with negligible perturbation from the host may allow a quantitative comparison with experimental environmental studies on larger clusters that are in low concentrations in the atmosphere. The stability of the water clusters was studied as a function of pressure reduction and in the presence of methane gas. Methane adsorption isotherms for activated FMOF-1 attained volumetric adsorption capacities ranging from 67 V(STP)/V at 288 K and 31 bar to 133 V(STP)/V at 173 K and 5 bar, with an isosteric heat of adsorption of ca. 14 kJ/mol in the high temperature range (288-318 K). Overall, the experimental and computational data suggest high preferential uptake for methane gas relative to water vapor within FMOF-1 pores with ease of desorption and high framework stability under operative temperature and moisture conditions.
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Affiliation(s)
- Nour Nijem
- Department of Materials Science and Engineering, University of Texas at Dallas, Texas 75080, USA
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27
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Malenov DP, Janjić GV, Veljković DŽ, Zarić SD. Mutual influence of parallel, CH/O, OH/π and lone pair/π interactions in water/benzene/water system. COMPUT THEOR CHEM 2013. [DOI: 10.1016/j.comptc.2013.05.030] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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28
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Kolb B, Kertesz M, Thonhauser T. Binding Interactions in Dimers of Phenalenyl and Closed-Shell Analogues. J Phys Chem A 2013; 117:3642-9. [DOI: 10.1021/jp3095424] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Brian Kolb
- Department of Physics, Wake Forest University, Winston-Salem,
North Carolina 27109, United States
| | - Miklos Kertesz
- Department of Chemistry, Georgetown University, Washington, D.C.
20057, United States
| | - T. Thonhauser
- Department of Physics, Wake Forest University, Winston-Salem,
North Carolina 27109, United States
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29
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Zhang M, Zhao J, Liu J, Zhou L, Bu Y. Coexistence of solvated electron and benzene-centered valence anion in the negatively charged benzene-water clusters. J Chem Phys 2013; 138:014310. [PMID: 23298044 DOI: 10.1063/1.4773398] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We present a combined M06 functional calculation and ab initio molecular dynamics simulation study of an excess electron (EE) in a microhydrated aromatic complex (modeled by benzene (Bz)-water binary clusters, Bz(H(2)O)(n)). Calculated results illustrate that Bz ring and water clusters are indeed linked through the π···HO interactions in the neutral Bz(H(2)O)(n) (n = 1-8) clusters, and the size of the water cluster does not influence the nature of its interaction with the π system for the oligo-hydrated complexes. The states and the dynamics of an EE trapped in such Bz-water clusters were also determined. All of possible localized states for the EE can be roughly classified into two types: (i) single, ring-localized states (the Bz-centered valence anions) in which an EE occupies the LUMO of the complexes originating from the LUMO (π*) of the Bz ring, and the π···HO interactions are enhanced for increase of electron density of the Bz ring. In this mode, the carbon skeleton of the Bz part is significantly deformed due to increase of electron density and nonsymmetric distribution of electron density induced by the interacting H-O bonds; (ii) solvated states, in which an EE is trapped directly as a surface state by the dangling hydrogen atoms of water molecules or as a solvated state in a mixed cavity formed by Bz and water cluster. In the latter case, Bz may also participate in capturing an EE using its C-H bonds in the side edge of the aromatic ring as a part of the cavity. In general, a small water cluster is favorable to the Bz-centered valence anion state, while a large one prefers a solvated electron state. Fluctuations and rearrangement of water molecules can sufficiently modify the relative energies of the EE states to permit facile conversion from the Bz-centered to the water cluster-centered state. This indicates that aromatic Bz can be identified as a stepping stone in electron transfer and the weak π···HO interaction plays an important role as the driving force in conversion of the two states.
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Affiliation(s)
- Meng Zhang
- The Center for Modeling and Simulation Chemistry, Institute of Theoretical Chemistry, Shandong University, Jinan 250100, People's Republic of China
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30
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Oltean M, Mile G, Vidrighin M, Leopold N, Chiş V. Weakly bound PTCDI and PTCDA dimers studied by using MP2 and DFT methods with dispersion correction. Phys Chem Chem Phys 2013; 15:13978-90. [DOI: 10.1039/c3cp44644a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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31
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Koh HS, Rana MK, Hwang J, Siegel DJ. Thermodynamic screening of metal-substituted MOFs for carbon capture. Phys Chem Chem Phys 2013; 15:4573-81. [DOI: 10.1039/c3cp50622c] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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32
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Gao W, Jiao J, Feng H, Xuan X, Chen L. Natures of benzene-water and pyrrole-water interactions in the forms of σ and π types: theoretical studies from clusters to liquid mixture. J Mol Model 2012. [DOI: 10.1007/s00894-012-1659-x] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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33
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Li Q, Thonhauser T. A theoretical study of the hydrogen-storage potential of (H2)4CH4 in metal organic framework materials and carbon nanotubes. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2012; 24:424204. [PMID: 23032298 DOI: 10.1088/0953-8984/24/42/424204] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The hydrogen-methane compound (H(2))(4)CH(4)-or for short H4M-is one of the most promising hydrogen-storage materials. This van der Waals compound is extremely rich in molecular hydrogen: 33.3 mass%, not including the hydrogen bound in CH(4); including it, we reach even 50.2 mass%. Unfortunately, H4M is not stable under ambient pressure and temperature, requiring either low temperature or high pressure. In this paper, we investigate the properties and structure of the molecular and crystalline forms of H4M, using ab initio methods based on van der Waals DFT (vdW-DF). We further investigate the possibility of creating the pressures required to stabilize H4M through external agents such as metal organic framework (MOF) materials and carbon nanotubes, with very encouraging results. In particular, we find that certain MOFs can create considerable pressure for H4M in their cavities, but not enough to stabilize it at room temperature, and moderate cooling is still necessary. On the other hand, we find that all the investigated carbon nanotubes can create the high pressures required for H4M to be stable at room temperature, with direct implications for new and exciting hydrogen-storage applications.
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Affiliation(s)
- Q Li
- Department of Physics, Wake Forest University, NC 27109, USA
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34
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Sabatini R, Küçükbenli E, Kolb B, Thonhauser T, de Gironcoli S. Structural evolution of amino acid crystals under stress from a non-empirical density functional. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2012; 24:424209. [PMID: 23032667 DOI: 10.1088/0953-8984/24/42/424209] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
Use of the non-local correlation functional vdW-DF (from 'van der Waals density functional'; Dion M et al 2004 Phys. Rev. Lett. 92 246401) has become a popular approach for including van der Waals interactions within density functional theory. In this work, we extend the vdW-DF theory and derive the corresponding stress tensor in a fashion similar to the LDA and GGA approach, which allows for a straightforward implementation in any electronic structure code. We then apply our methodology to investigate the structural evolution of amino acid crystals of glycine and l-alanine under pressure up to 10 GPa-with and without van der Waals interactions-and find that for an accurate description of intermolecular interactions and phase transitions in these systems, the inclusion of van der Waals interactions is crucial. For glycine, calculations including the vdW-DF (vdW-DF-c09x) functional are found to systematically overestimate (underestimate) the crystal lattice parameters, yet the stability ordering of the different polymorphs is determined accurately, at variance with the GGA case. In the case of l-alanine, our vdW-DF results agree with recent experiments that question the phase transition reported for this crystal at 2.3 GPa, as the a and c cell parameters happen to become equal but no phase transition is observed.
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35
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Albertí M, Aguilar A, Lucas JM, Pirani F. Competitive role of CH4-CH4 and CH-π interactions in C6H6-(CH4)n aggregates: the transition from dimer to cluster features. J Phys Chem A 2012; 116:5480-90. [PMID: 22591040 DOI: 10.1021/jp3023698] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The intermolecular methane-methane and benzene (Bz)-methane interactions formulated in this paper are suitable to investigate systems of increasing complexity. The proposed CH(4)-CH(4) and Bz-CH(4) potential energy functions are indeed applied to study some macroscopic properties of methane and important features of both small Bz-(CH(4))(n) (n > 1-10) clusters and Bz surrounded by several CH(4) molecules. Relevant parameters of the interaction, derived from molecular polarizability components, have been proved to be useful to describe in a consistent way both size repulsion and dispersion attraction forces. The proposed potential model also allows one to isolate the role of the different intermolecular energy contributions. The spatial distribution of the CH(4) molecules in the clusters is investigated by means of molecular dynamics simulations under various conditions, even when methane phase transition from liquid to gas is likely to occur. In addition, several properties, such as radial distribution functions, density values, and mean diffusion coefficients, are analyzed in detail.
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Affiliation(s)
- M Albertí
- IQTCUB, Departament de Química Física, Universitat de Barcelona, Barcelona, Spain.
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36
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Albertí M, Aguilar A, Pirani F. Propensities in the solvation of M+–Benzene systems (M=Na, K, Rb) investigated by cluster dynamics. Chem Phys 2012. [DOI: 10.1016/j.chemphys.2011.07.030] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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37
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Albertí M, Faginas Lago N, Pirani F. Benzene water interaction: From gaseous dimers to solvated aggregates. Chem Phys 2012. [DOI: 10.1016/j.chemphys.2011.08.009] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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38
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Copeland KL, Tschumper GS. Hydrocarbon/Water Interactions: Encouraging Energetics and Structures from DFT but Disconcerting Discrepancies for Hessian Indices. J Chem Theory Comput 2012; 8:1646-56. [DOI: 10.1021/ct300132e] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Kari L. Copeland
- Department
of Chemistry and Biochemistry, University of Mississippi, University, Mississippi 38677-1848 United
States
| | - Gregory S. Tschumper
- Department
of Chemistry and Biochemistry, University of Mississippi, University, Mississippi 38677-1848 United
States
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39
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Šakić D, Vrček V. Prereactive Complexes in Chlorination of Benzene, Triazine, and Tetrazine: A Quantum Chemical Study. J Phys Chem A 2012; 116:1298-306. [DOI: 10.1021/jp210993k] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Davor Šakić
- Faculty of Pharmacy and
Biochemistry, University of Zagreb, A.
Kovačića 1,
HR-10000 Zagreb, Croatia
| | - Valerije Vrček
- Faculty of Pharmacy and
Biochemistry, University of Zagreb, A.
Kovačića 1,
HR-10000 Zagreb, Croatia
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40
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Mateus MPS, Galamba N, Cabral BJC. Structure and electronic properties of a benzene-water solution. J Chem Phys 2012; 136:014507. [DOI: 10.1063/1.3671947] [Citation(s) in RCA: 27] [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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41
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Kaur D, Khanna S. Theoretical study on the hydrogen bonding of five-membered heteroaromatics with water. Struct Chem 2011. [DOI: 10.1007/s11224-011-9917-6] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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42
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Mateus MPS, Galamba N, Cabral BJC. Electronic Properties of Hydrogen-Bonded Complexes of Benzene(HCN)1–4: Comparison with Benzene(H2O)1–4. J Phys Chem A 2011; 115:13714-23. [DOI: 10.1021/jp208595p] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- M. P. S. Mateus
- Grupo de Física-Matemática da Universidade de Lisboa, Avenido Prof. Gama Pinto 2, 1649-003 Lisboa, Portugal
| | - N. Galamba
- Grupo de Física-Matemática da Universidade de Lisboa, Avenido Prof. Gama Pinto 2, 1649-003 Lisboa, Portugal
| | - B. J. Costa Cabral
- Grupo de Física-Matemática da Universidade de Lisboa, Avenido Prof. Gama Pinto 2, 1649-003 Lisboa, Portugal
- Departamento de Química e Bioquímica, Faculdade de Ciências da Universidade de Lisboa, 1749-016 Lisboa, Portugal
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43
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Fucke K, Anderson KM, Filby MH, Henry M, Wright J, Mason SA, Gutmann MJ, Barbour LJ, Oliver C, Coleman AW, Atwood JL, Howard JAK, Steed JW. The Structure of Water in p-Sulfonatocalix[4]arene. Chemistry 2011; 17:10259-71. [DOI: 10.1002/chem.201101748] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2011] [Indexed: 11/12/2022]
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44
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Hagiwara Y, Kang J, Tateno M. Structural Instability of the Active Site of T1 Lipase Induced by Replacement of Na+ with Water Complexed with the Phenylalanine Aromatic Ring. J Chem Theory Comput 2011; 7:2593-9. [DOI: 10.1021/ct100752y] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yohsuke Hagiwara
- Graduate School of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba Science City, Ibaraki 305-8571, Japan
| | - Jiyoung Kang
- Graduate School of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba Science City, Ibaraki 305-8571, Japan
| | - Masaru Tateno
- Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigohri, Akoh, Hyogo 678-1297, Japan
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Steinmann SN, Corminboeuf C, Wu W, Mo Y. Dispersion-corrected energy decomposition analysis for intermolecular interactions based on the BLW and dDXDM methods. J Phys Chem A 2011; 115:5467-77. [PMID: 21557586 DOI: 10.1021/jp202560d] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
As the simplest variant of the valence bond (VB) theory, the block-localized wave function (BLW) method defines the intermediate electron-localized state self-consistently at the DFT level and can be used to explore the nature of intermolecular interactions in terms of several physically intuitive energy components. Yet, it is unclear how the dispersion interaction affects such a kind of energy decomposition analysis (EDA) as standard density functional approximations neglect the long-range dispersion attractive interactions. Three electron densities corresponding to the initial electron-localized state, optimal electron-localized state, and final electron-delocalized state are involved in the BLW-ED approach; a density-dependent dispersion correction, such as the recently proposed dDXDM approach, can thus uniquely probe the impact of the long-range dispersion effect on EDA results computed at the DFT level. In this paper, we incorporate the dDXDM dispersion corrections into the BLW-ED approach and investigate a range of representative systems such as hydrogen-bonding systems, acid-base pairs, and van der Waals complexes. Results show that both the polarization and charge-transfer energies are little affected by the inclusion of the long-range dispersion effect, which thus can be regarded as an independent energy component in EDA.
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Affiliation(s)
- Stephan N Steinmann
- Laboratory for Computational Molecular Design, Institut des Sciences et Ingénierie Chimiques, Ecole Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland
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46
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Kim SJ, Seo HI, Boo BH. Theoretical investigations for the molecular structures and binding energies for C6H6(H2O) n , (n = 1–7) complexes. Mol Phys 2010. [DOI: 10.1080/00268970902926212] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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47
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Water Chains in Hydrophobic Crystal Channels: Nanoporous Materials as Supramolecular Analogues of Carbon Nanotubes. Angew Chem Int Ed Engl 2010; 49:5125-9. [DOI: 10.1002/anie.201002418] [Citation(s) in RCA: 72] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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48
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Natarajan R, Charmant J, Orpen A, Davis A. Water Chains in Hydrophobic Crystal Channels: Nanoporous Materials as Supramolecular Analogues of Carbon Nanotubes. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.201002418] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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49
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Berland K, Hyldgaard P. Structure and binding in crystals of cagelike molecules: Hexamine and platonic hydrocarbons. J Chem Phys 2010; 132:134705. [DOI: 10.1063/1.3366652] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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50
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Cooper V, Kong L, Langreth D. Computing dispersion interactions in density functional theory. ACTA ACUST UNITED AC 2010. [DOI: 10.1016/j.phpro.2010.01.201] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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