1
|
Brela MZ, Didovets Y, Boczar M, Sato H, Nakajima T, Wójcik MJ. The hydrogen bond interaction dynamics in polyvinylphenol: Studied by Born-Oppenheimer molecular dynamics. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.139976] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
|
2
|
Towards an unified chemical model of secondary bonding. J Mol Model 2020; 26:62. [DOI: 10.1007/s00894-019-4283-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Accepted: 12/19/2019] [Indexed: 11/27/2022]
|
3
|
Thaunay F, Calvo F, Nicol E, Ohanessian G, Clavaguéra C. Infrared Spectra of Deprotonated Dicarboxylic Acids: IRMPD Spectroscopy and Empirical Valence‐Bond Modeling. Chemphyschem 2019; 20:803-814. [PMID: 30695125 DOI: 10.1002/cphc.201800947] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2018] [Revised: 01/28/2019] [Indexed: 01/08/2023]
Abstract
Experimental infrared multiple-photon dissociation (IRMPD) spectra recorded for a series of deprotonated dicarboxylic acids, HO2 (CH2 )n CO 2 - (n=2-4), are interpreted using a variety of computational methods. The broad bands centered near 1600 cm-1 can be reproduced neither by static vibrational calculations based on quantum chemistry nor by a dynamical description of individual structures using the many-body polarizable AMOEBA force field, strongly suggesting that these molecules experience dynamical proton sharing between the two carboxylic ends. To confirm this assumption, AMOEBA was combined with a two-state empirical valence-bond (EVB) model to allow for proton transfer in classical molecular dynamics simulations. Upon suitable parametrization based on ab initio reference data, the EVB-AMOEBA model satisfactorily reproduces the experimental infrared spectra, and the finite temperature dynamics reveals a significant amount of proton sharing in such systems.
Collapse
Affiliation(s)
| | - Florent Calvo
- LIPhyUniversité Grenoble Alpes, CNRS, LiPhy 38000 Grenoble France
| | - Edith Nicol
- LCM, CNRSEcole Polytechnique 91128 Palaiseau Cedex France
| | | | - Carine Clavaguéra
- Laboratoire de Chimie PhysiqueCNRS – Université Paris Sud, Université Paris-Saclay 15 avenue Jean Perrin 91405 Orsay Cedex France
| |
Collapse
|
4
|
Gług M, Brela MZ, Boczar M, Turek AM, Boda Ł, Wójcik MJ, Nakajima T, Ozaki Y. Infrared Spectroscopy and Born–Oppenheimer Molecular Dynamics Simulation Study on Deuterium Substitution in the Crystalline Benzoic Acid. J Phys Chem B 2017; 121:479-489. [DOI: 10.1021/acs.jpcb.6b10617] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Maciej Gług
- Faculty
of Chemistry, Jagiellonian University, 30-060 Kraków, Ingardena 3, Poland
| | - Mateusz Z. Brela
- Faculty
of Chemistry, Jagiellonian University, 30-060 Kraków, Ingardena 3, Poland
- Department
of Chemistry, School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo 669-1337, Japan
| | - Marek Boczar
- Faculty
of Chemistry, Jagiellonian University, 30-060 Kraków, Ingardena 3, Poland
| | - Andrzej M. Turek
- Faculty
of Chemistry, Jagiellonian University, 30-060 Kraków, Ingardena 3, Poland
| | - Łukasz Boda
- Faculty
of Chemistry, Jagiellonian University, 30-060 Kraków, Ingardena 3, Poland
| | - Marek J. Wójcik
- Faculty
of Chemistry, Jagiellonian University, 30-060 Kraków, Ingardena 3, Poland
| | - Takahito Nakajima
- Advanced
Institute for Computational Science, RIKEN, 7-1-26, Minatojima-minami-machi,
Chuo-ku, Kobe, Hyogo 650-0047, Japan
| | - Yukihiro Ozaki
- Department
of Chemistry, School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo 669-1337, Japan
| |
Collapse
|
5
|
Brela MZ, Wójcik MJ, Boczar M, Witek Ł, Yasuda M, Ozaki Y. Car–Parrinello Molecular Dynamics Simulations of Infrared Spectra of Crystalline Vitamin C with Analysis of Double Minimum Proton Potentials for Medium-Strong Hydrogen Bonds. J Phys Chem B 2015; 119:7922-30. [DOI: 10.1021/acs.jpcb.5b02777] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Mateusz Z. Brela
- Research
Group of Molecular Modelling of Catalytic Processes, Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Krakow, Poland
| | - Marek J. Wójcik
- Laboratory
of Molecular Spectroscopy, Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Krakow, Poland
| | - Marek Boczar
- Laboratory
of Molecular Spectroscopy, Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Krakow, Poland
| | - Łukasz Witek
- Photochemistry
and Luminescence Research Group, Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Krakow, Poland
| | - Mitsuru Yasuda
- Department
of Chemistry, School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo 669-1337, Japan
| | - Yukihiro Ozaki
- Department
of Chemistry, School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo 669-1337, Japan
| |
Collapse
|
6
|
Lei X, Qin C, Huang K. Energetics of proton transfer in alkali carbonates: a first principles calculation. RSC Adv 2015. [DOI: 10.1039/c5ra07975f] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Recent development of dual-phase ceramic–carbonate composite electrolytes for IT-SOFCs has prompted a pressing question as to whether H+ can transfer in MC and play a role in the enhanced ionic conductivity and improved SOFC performance.
Collapse
Affiliation(s)
- Xueling Lei
- Department of Physics
- Jiangxi Normal University
- Nanchang
- China
- Department of Mechanical Engineering
| | - Changyong Qin
- Department of Biology
- Chemistry and Environmental Health Science
- Benedict College
- Columbia
- USA
| | - Kevin Huang
- Department of Mechanical Engineering
- University of South Carolina
- Columbia
- USA
| |
Collapse
|
7
|
Duan Y, Zhang B, Sorescu DC, Karl Johnson J, Majzoub EH, Luebke DR. Density functional theory studies on the electronic, structural, phonon dynamical and thermo-stability properties of bicarbonates MHCO(3), M = Li, Na, K. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2012; 24:325501-16. [PMID: 22787158 DOI: 10.1088/0953-8984/24/32/325501] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The structural, electronic, phonon dispersion and thermodynamic properties of MHCO(3) (M = Li, Na, K) solids were investigated using density functional theory. The calculated bulk properties for both their ambient and the high-pressure phases are in good agreement with available experimental measurements. Solid phase LiHCO(3) has not yet been observed experimentally. We have predicted several possible crystal structures for LiHCO(3) using crystallographic database searching and prototype electrostatic ground state modeling. Our total energy and phonon free energy (F(PH)) calculations predict that LiHCO(3) will be stable under suitable conditions of temperature and partial pressures of CO(2) and H(2)O. Our calculations indicate that the [Formula: see text] groups in LiHCO(3) and NaHCO(3) form an infinite chain structure through O⋯H⋯O hydrogen bonds. In contrast, the [Formula: see text] anions form dimers, [Formula: see text], connected through double hydrogen bonds in all phases of KHCO(3). Based on density functional perturbation theory, the Born effective charge tensor of each atom type was obtained for all phases of the bicarbonates. Their phonon dispersions with the longitudinal optical-transverse optical splitting were also investigated. Based on lattice phonon dynamics study, the infrared spectra and the thermodynamic properties of these bicarbonates were obtained. Over the temperature range 0-900 K, the F(PH) and the entropies (S) of MHCO(3) (M =Li, Na, K) systems vary as F(PH)(LiHCO(3)) > F(PH)(NaHCO(3)) > F(PH)(KHCO(3)) and S(KHCO(3)) > S(NaHCO(3)) > S(LiHCO(3)), respectively, in agreement with the available experimental data. Analysis of the predicted thermodynamics of the CO(2) capture reactions indicates that the carbonate/bicarbonate transition reactions for Na and K could be used for CO(2) capture technology, in agreement with experiments.
Collapse
Affiliation(s)
- Yuhua Duan
- National Energy Technology Laboratory, United States Department of Energy, Pittsburgh, PA 15236, USA.
| | | | | | | | | | | |
Collapse
|
8
|
Bhargava BL, Yasaka Y, Klein ML. Hydrogen Evolution from Formic Acid in an Ionic Liquid Solvent: A Mechanistic Study by ab Initio Molecular Dynamics. J Phys Chem B 2011; 115:14136-40. [DOI: 10.1021/jp204007w] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- B. L. Bhargava
- Institute for Computational Molecular Science, Temple University, 1900 N. 12th Street, Philadelphia, Pennsylvania 19122, United States
- Laboratory for Research on the Structure of Matter, University of Pennsylvania, 3231 Walnut Street, Philadelphia, Pennsylvania 19104-6202, United States
| | - Yoshiro Yasaka
- Institute for Computational Molecular Science, Temple University, 1900 N. 12th Street, Philadelphia, Pennsylvania 19122, United States
| | - Michael L. Klein
- Institute for Computational Molecular Science, Temple University, 1900 N. 12th Street, Philadelphia, Pennsylvania 19122, United States
| |
Collapse
|
9
|
Dopieralski PD, Burakowski A, Latajka Z, Olovsson I. Hydration of NaHCO3, KHCO3, (HCO3-)2, HCO3- and CO32- from molecular dynamics simulation and speed of sound measurements. Chem Phys Lett 2011. [DOI: 10.1016/j.cplett.2011.03.065] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|