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Liu J, Ni S, Pan X. Interaction of Glutamic Acid/Protonated Glutamic Acid with Amide and Water Molecules: A Theoretical Study. J Phys Chem A 2022; 126:7750-7762. [PMID: 36253764 DOI: 10.1021/acs.jpca.2c05135] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Amino acids are important nitrogen-containing compounds and organic carbon components that exist widely in the atmosphere. The formation of atmospheric aerosols is affected by their interactions with amides. The dimers formed by glutamic acid (Glu) or protonated glutamic acid (Glu+) with three kinds of amide molecules (formamide FA, acetamide AA, urea U) and the hydrated clusters formed by Glu or Glu+, U molecules along with one to six water molecules were systematically studied at the M06-2X/6-311++G(3df,3pd) level. U is predicted to form a more stable structure with Glu/Glu+ than FA and AA by thermodynamics. If the concentration ratio of FA to U is less than 104, U will play a critical role in NPF. The degree of hydration in Glu+-mU-nW is higher than that of Glu-mU-nW (m = 0, 1; n = 0-6) clusters. Notably, Glu contributes more to the Rayleigh scattering properties than glutaric acid and sulfuric acid, and thus may lead to the destruction of atmospheric visibility. This study is helpful to better understand the properties of organic aerosols containing amino acids or amides.
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Affiliation(s)
- Jia Liu
- Institute of Functional Material Chemistry, National & Local United Engineering Lab for Power Battery, Faculty of Chemistry, Northeast Normal University, Changchun130024, People's Republic of China
| | - Shuang Ni
- Institute of Catalysis for Energy and Environment, College of Chemistry and Chemical Engineering, Shenyang Normal University, Shenyang110034, People's Republic of China
| | - Xiumei Pan
- Institute of Functional Material Chemistry, National & Local United Engineering Lab for Power Battery, Faculty of Chemistry, Northeast Normal University, Changchun130024, People's Republic of China
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2
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Chen J. Studies on the conformation, thermodynamics, and evaporation rate characteristics of sulfuric acid and amines molecular clusters. RESULTS IN CHEMISTRY 2022. [DOI: 10.1016/j.rechem.2022.100527] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022] Open
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3
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Ni S, Bai FY, Pan XM. Can nitrous acid contribute to atmospheric new particle formation from nitric acid and water? NEW J CHEM 2020. [DOI: 10.1039/d0nj02992k] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The properties of (HNO3)(HONO)(H2O)n (n = 1–6) clusters are reported including thermodynamics, structures, temperature-dependence, intermolecular forces, optical properties, and evaporation rates.
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Affiliation(s)
- Shuang Ni
- Institute of Functional Material Chemistry
- National & Local United Engineering Lab for Power Battery
- Faculty of Chemistry
- Northeast Normal University
- Changchun 130024
| | - Feng-Yang Bai
- Institute of Catalysis for Energy and Environment
- College of Chemistry and Chemical Engineering
- Shenyang Normal University
- Shenyang
- People's Republic of China
| | - Xiu-Mei Pan
- Institute of Functional Material Chemistry
- National & Local United Engineering Lab for Power Battery
- Faculty of Chemistry
- Northeast Normal University
- Changchun 130024
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Abstract
We review recent work on property decomposition techniques using quantum chemical methods and discuss some topical applications in terms of quantum mechanics-molecular mechanics calculations and the constructing of properties of large molecules and clusters. Starting out from the so-called LoProp decomposition scheme [Gagliardi et al., J. Chem. Phys., 2004, 121, 4994] for extracting atomic and inter-atomic contributions to molecular properties we show how this method can be generalized to localized frequency-dependent polarizabilities, to localized hyperpolarizabilities and to localized dispersion coefficients. Some applications of the generalized decomposition technique are reviewed - calculations of frequency-dependent polarizabilities, Rayleigh scattering of large clusters, and calculations of hyperpolarizabilities of proteins.
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Affiliation(s)
- Hans Ågren
- KTH Royal Institute of Technology, School of Engineering Sciences in Chemistry, Biotechnology and Health, Department of Theoretical Chemistry and Biology, SE-106 91 Stockholm, Sweden.
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Joranger T, Kildgaard JV, Jørgensen S, Elm J, Mikkelsen KV. Benchmarking sampling methodology for calculations of Rayleigh light scattering properties of atmospheric molecular clusters. Phys Chem Chem Phys 2019; 21:17274-17287. [DOI: 10.1039/c9cp02573a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
We present four different computational methods for benchmarking the sampling and Rayleigh light scattering of hydrogen bonded atmospheric molecular clusters.
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Affiliation(s)
- Teis Joranger
- Department of Chemistry
- University of Copenhagen
- 2100 Copenhagen Ø
- Denmark
| | | | - Solvejg Jørgensen
- Department of Chemistry
- University of Copenhagen
- 2100 Copenhagen Ø
- Denmark
| | - Jonas Elm
- Department of Chemistry and iClimate
- Aarhus University
- 8000 Århus C
- Denmark
| | - Kurt V. Mikkelsen
- Department of Chemistry
- University of Copenhagen
- 2100 Copenhagen Ø
- Denmark
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6
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Ge P, Luo G, Luo Y, Huang W, Xie H, Chen J, Qu J. Molecular understanding of the interaction of amino acids with sulfuric acid in the presence of water and the atmospheric implication. CHEMOSPHERE 2018; 210:215-223. [PMID: 30005342 DOI: 10.1016/j.chemosphere.2018.07.014] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2018] [Revised: 06/29/2018] [Accepted: 07/02/2018] [Indexed: 06/08/2023]
Abstract
Amino acids are important components of atmospheric aerosols. Despite the diversity of amino acids structures, however, the role of amino acids with additional non-characteristic functional groups in new particle formation (NPF) has almost remained unexplored. Herein, the interaction of serine (Ser) and threonine (Thr), which feature a hydroxyl group and differ by a methyl-substitution, with sulfuric acid (SA) and up to three water (W) molecules has been investigated at the M06-2X/6-311++G (3df, 3pd) level of theory. The effects of structural differences of amino acids on the structure and properties of clusters were also pointed out. Results show that serine may play more important role in stabilizing sulfuric acid to promote NPF in initial steps compared with threonine, glycine and alanine. Meanwhile, threonine may participate in ion-induced nucleation due to the high dipole moment of (Thr) (SA) isomers. Moreover, the effects of structure differences of amino acids can be seen in several aspects. Firstly, methyl substitution and hydroxyl group of amino acids have great influence on the structure of clusters. Secondly, hydrated (Ser) (SA) and (Tur) (SA) clusters could retain water even at low relative humidity, which may due to the hydroxyl group in serine and threonine. In addition, the Rayleigh light scattering intensities of amino acid-containing clusters are higher than trimethylamine, monoethanolamine and oxalic acid-involved counterparts. The effect of carboxyl group and methyl substitution on optical properties of clusters is also discussed. This study may bring new insight into the role of amino acids with additional non-characteristic functional groups in initial steps of NPF.
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Affiliation(s)
- Pu Ge
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian, 116024, China
| | - Gen Luo
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian, 116024, China
| | - Yi Luo
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian, 116024, China.
| | - Wei Huang
- School of Environmental Science & Optoelectronic Technology, University of Science and Technology of China, Hefei, Anhui, 230026, China
| | - Hongbin Xie
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Dalian, 116024, China
| | - Jingwen Chen
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Dalian, 116024, China
| | - Jingping Qu
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian, 116024, China
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Hou GL, Zhang J, Valiev M, Wang XB. Structures and energetics of hydrated deprotonated cis-pinonic acid anion clusters and their atmospheric relevance. Phys Chem Chem Phys 2017; 19:10676-10684. [DOI: 10.1039/c6cp08834a] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Pinonic acid, a C10-monocarboxylic acid with a hydrophilic –CO2H group and a hydrophobic hydrocarbon backbone, is a key intermediate oxidation product of α-pinene – an important monoterpene compound in biogenic emission processes that influences the atmosphere.
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Affiliation(s)
- Gao-Lei Hou
- Pacific Northwest National Laboratory
- 902 Battelle Boulevard
- P. O. Box 999
- MS K8-88, Richland
- USA
| | - Jun Zhang
- Department of Chemistry
- University of Illinois at Urbana-Champaign
- Urbana
- USA
| | - Marat Valiev
- Pacific Northwest National Laboratory
- 902 Battelle Boulevard
- P. O. Box 999
- MS K8-88, Richland
- USA
| | - Xue-Bin Wang
- Pacific Northwest National Laboratory
- 902 Battelle Boulevard
- P. O. Box 999
- MS K8-88, Richland
- USA
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Harczuk I, Vahtras O, Ågren H. Modeling Rayleigh Scattering of Aerosol Particles. J Phys Chem B 2016; 120:4296-301. [DOI: 10.1021/acs.jpcb.6b02278] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Ignat Harczuk
- School of Biotechnology,
Division of Theoretical Chemistry and Biology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden
| | - Olav Vahtras
- School of Biotechnology,
Division of Theoretical Chemistry and Biology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden
| | - Hans Ågren
- School of Biotechnology,
Division of Theoretical Chemistry and Biology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden
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Yang ZL, Feng YJ, Liang J, Huang W. A combined ab initio and Franck–Condon simulation study of the photodetachment spectra of the HCBr− anion. Chem Phys Lett 2015. [DOI: 10.1016/j.cplett.2015.09.021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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