1
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Iguchi A, Singh A, Bergmeister S, Azhagesan AA, Mizuse K, Fujii A, Tanuma H, Azuma T, Scheier P, Kuma S, Vilesov AF. Isolation and Infrared Spectroscopic Characterization of Hemibonded Water Dimer Cation in Superfluid Helium Nanodroplets. J Phys Chem Lett 2023; 14:8199-8204. [PMID: 37672355 PMCID: PMC10510431 DOI: 10.1021/acs.jpclett.3c02150] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Accepted: 08/30/2023] [Indexed: 09/08/2023]
Abstract
The structure of the minimum unit of the radical cationic water clusters, the (H2O)2+ dimer, has attracted much attention because of its importance for the radiation chemistry of water. Previous spectroscopic studies indicated that the dimers have a proton-transferred structure (H3O+·OH), though the alternate metastable hemibonded structure (H2O·OH2)+ was also predicted based on theoretical calculations. Here, we produce (H2O)2+ dimers in superfluid helium nanodroplets and study their infrared spectra in the range of OH stretching vibrations. The observed spectra indicate the coexistence of the two structures in the droplets, supported by density functional theory calculations. This is the first spectroscopic identification of the hemibonded isomer of water radical cation dimers. The observation of the higher-energy isomer reveals efficient kinetic trapping for metastable ionic clusters due to the rapid cooling in helium droplets.
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Affiliation(s)
- Arisa Iguchi
- Department
of Physics, Tokyo Metropolitan University, Tokyo 192-0397, Japan
- Atomic,
Molecular, and Optical Physics Laboratory, RIKEN, Saitama 351-0198, Japan
| | - Amandeep Singh
- Department
of Chemistry, University of Southern California, Los Angeles, California 90089, United States
| | - Stefan Bergmeister
- Institut
für Ionenphysik und Angewandte Physik, Universität Innsbruck, A-6020 Innsbruck, Austria
| | - Andrew A. Azhagesan
- Department
of Computer Science, University of Southern
California, Los Angeles, California 90089, United States
| | - Kenta Mizuse
- Department
of Chemistry, School of Science, Kitasato
University, Sagamihara, Kanagawa 252-0373, Japan
| | - Asuka Fujii
- Department
of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
| | - Hajime Tanuma
- Department
of Physics, Tokyo Metropolitan University, Tokyo 192-0397, Japan
| | - Toshiyuki Azuma
- Atomic,
Molecular, and Optical Physics Laboratory, RIKEN, Saitama 351-0198, Japan
| | - Paul Scheier
- Institut
für Ionenphysik und Angewandte Physik, Universität Innsbruck, A-6020 Innsbruck, Austria
| | - Susumu Kuma
- Atomic,
Molecular, and Optical Physics Laboratory, RIKEN, Saitama 351-0198, Japan
| | - Andrey F. Vilesov
- Department
of Chemistry, University of Southern California, Los Angeles, California 90089, United States
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2
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Mackie CJ, Lu W, Liang J, Kostko O, Bandyopadhyay B, Gupta I, Ahmed M, Head-Gordon M. Magic Numbers and Stabilities of Photoionized Water Clusters: Computational and Experimental Characterization of the Nanosolvated Hydronium Ion. J Phys Chem A 2023. [PMID: 37441795 DOI: 10.1021/acs.jpca.3c02230] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/15/2023]
Abstract
The stability and distributions of small water clusters generated in a supersonic beam expansion are interrogated by tunable vacuum ultraviolet (VUV) radiation generated at a synchrotron. Time-of-flight mass spectrometry reveals enhanced population of various protonated water clusters (H+(H2O)n) based upon ionization energy and photoionization distance from source, suggesting there are "magic" numbers below the traditional n = 21 that predominates in the literature. These intensity distributions suggest that VUV threshold photoionization (11.0-11.5 eV) of neutral water clusters close to the nozzle exit leads to a different nonequilibrium state compared to a skimmed molecular beam. This results in the appearance of a new magic number at 14. Metadynamics conformer searches coupled with modern density functional calculations are used to identify the global minimum energy structures of protonated water clusters between n = 2 and 21, as well as the manifold of low-lying metastable minima. New lowest energy structures are reported for the cases of n = 5, 6, 11, 12, 16, and 18, and special stability is identified by several measures. These theoretical results are in agreement with the experiments performed in this work in that n = 14 is shown to exhibit additional stability, based on the computed second-order stabilization energy relative to most cluster sizes, though not to the extent of the well-known n = 21 cluster. Other cluster sizes that show some additional energetic stability are n = 7, 9, 12, 17, and 19. To gain insight into the balance between ion-water and water-water interactions as a function of the cluster size, an analysis of the effective two-body interactions (which sum exactly to the total interaction energy) was performed. This analysis reveals a crossover as a function of cluster size between a water-hydronium-dominated regime for small clusters and a water-water-dominated regime for larger clusters around n = 17.
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Affiliation(s)
- Cameron J Mackie
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
- Department of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
| | - Wenchao Lu
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Jiashu Liang
- Department of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
| | - Oleg Kostko
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Biswajit Bandyopadhyay
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Ishan Gupta
- Department of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
| | - Musahid Ahmed
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Martin Head-Gordon
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
- Department of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
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3
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Zhang X, Zhang Y, Zhou X, Xu J, Mi D. Evidence for the co-existence of isomers of water dimer radical cations and their inter-conversion in a linear ion trap. Heliyon 2023; 9:e17763. [PMID: 37456026 PMCID: PMC10338966 DOI: 10.1016/j.heliyon.2023.e17763] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Revised: 06/26/2023] [Accepted: 06/27/2023] [Indexed: 07/18/2023] Open
Abstract
Water dimer radical cations are regarded as key intermediates in many aqueous reactions and biochemical processes. However, the structure of the water dimer radical cations, and particularly the inter-conversion between their isomers, remain difficult to investigate experimentally due to their short lifetime and low abundance under ambient conditions. Furthermore, the isomers cannot be distinguished in a full mass spectra. In this study, we report the experimental evidence for the hemi-bonded and proton-transferred isomers of gas-phase water dimer radical cations, and the inter-conversion process between them in a linear ion trap at low pressure and near room temperature. Multiple collisions of isolated water dimer radical cations with He inside the ion trap were systematically investigated; first, under different trapping times (i.e., reaction times) ranging from 0.03 to 800 ms, and then at a very low collision energies ranging from 0.1% to 10% normalized collision energy. The proton-transferred isomers were dominant at shorter trapping times (≤250 ms), while the hemi-bonded isomers were dominant at longer trapping times (250-800 ms). Moreover, the difference in symmetry of the shapes of the H2O•+ signal profiles and the H3O+ signal profiles implied the existence of two kinds of isomers and there were small potential differences between them. Our results also suggested that by tuning the experimental parameters the hemi-bonded isomers would become dominant, which could allow the study of novel chemical reactions involving the hemi-bonded two-center-three-electron (2c-3e) structure in a linear ion trap.
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4
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Liu JM, Nishigori T, Maeyama T, Huang QR, Katada M, Kuo JL, Fujii A. Infrared Spectroscopy and Anharmonic Vibrational Analysis of (H 2O-Kr n) + ( n = 1-3): Hemibond Formation of the Water Radical Cation. J Phys Chem Lett 2021; 12:7997-8002. [PMID: 34433278 DOI: 10.1021/acs.jpclett.1c02164] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The hemibond is a nonclassical covalent bond formed between a radical (cation) and a closed shell molecule. The hemibond formation ability of water has attracted great interest, concerning its role in ionization of water. While many computational studies on the water hemibond have been performed, clear experimental evidence has been hardly reported because the hydrogen bond formation overwhelms the hemibond formation. In the present study, infrared photodissociation spectroscopy is applied to (H2O-Krn)+ (n = 1-3) radical cation clusters. The observed spectra of (H2O-Krn)+ are well reproduced by the anharmonic vibrational simulations based on the hemibonded isomer structures. The firm evidence of the hemibond formation ability of water is revealed.
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Affiliation(s)
- Jing-Min Liu
- Institute of Atomic and Molecular Sciences, Academia Sinica, 1 Roosevelt Rd., Sec. 4, Taipei 10617, Taiwan
| | - Tomoki Nishigori
- Department of Chemistry, Graduate School of Science, Tohoku University, Aramaki-Aza-Aoba 6-3, Aoba-Ku, Sendai 980-8578, Japan
| | - Toshihiko Maeyama
- Department of Chemistry, Graduate School of Science, Tohoku University, Aramaki-Aza-Aoba 6-3, Aoba-Ku, Sendai 980-8578, Japan
| | - Qian-Rui Huang
- Institute of Atomic and Molecular Sciences, Academia Sinica, 1 Roosevelt Rd., Sec. 4, Taipei 10617, Taiwan
| | - Marusu Katada
- Department of Chemistry, Graduate School of Science, Tohoku University, Aramaki-Aza-Aoba 6-3, Aoba-Ku, Sendai 980-8578, Japan
| | - Jer-Lai Kuo
- Institute of Atomic and Molecular Sciences, Academia Sinica, 1 Roosevelt Rd., Sec. 4, Taipei 10617, Taiwan
| | - Asuka Fujii
- Department of Chemistry, Graduate School of Science, Tohoku University, Aramaki-Aza-Aoba 6-3, Aoba-Ku, Sendai 980-8578, Japan
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5
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Mandal M, Saito K, Ishikita H. Two Distinct Oxygen-Radical Conformations in the X-ray Free Electron Laser Structures of Photosystem II. J Phys Chem Lett 2021; 12:4032-4037. [PMID: 33881870 DOI: 10.1021/acs.jpclett.1c00814] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
We report the existence of two distinct oxygen-radical-containing Mn4CaO5/6 conformations with short O···O bonds in the crystal structures of the oxygen-evolving enzyme photosystem II (PSII), obtained using an X-ray free electron laser (XFEL). A short O···O distance of <2.3 Å between the O4 site of the Mn4CaO5 complex and the adjacent water molecule (W539) in the proton-conducting O4-water chain was observed in the second flash-induced (2F) XFEL structure (2F-XFEL), which may correspond to S3. By use of a quantum mechanical/molecular mechanical approach, the OH• formation at W539 and the short O4···OW539 distance (<2.3 Å) were reproduced in S2 and S3 with reduced Mn1(III), which lacks the additional sixth water molecule O6. As the O•- formation at O6 and the short O5···O6 distance (1.9 Å) have been reported in another 2F-XFEL structure with reduced Mn4(III), two distinct oxygen-radical conformations exist in the 2F-XFEL crystals.
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Affiliation(s)
- Manoj Mandal
- Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan
| | - Keisuke Saito
- Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan
| | - Hiroshi Ishikita
- Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan
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6
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Water Radical Cations in the Gas Phase: Methods and Mechanisms of Formation, Structure and Chemical Properties. Molecules 2020; 25:molecules25153490. [PMID: 32751962 PMCID: PMC7435662 DOI: 10.3390/molecules25153490] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2020] [Revised: 07/28/2020] [Accepted: 07/29/2020] [Indexed: 12/02/2022] Open
Abstract
Water radical cations, (H2O)n+•, are of great research interest in both fundamental and applied sciences. Fundamental studies of water radical reactions are important to better understand the mechanisms of natural processes, such as proton transfer in aqueous solutions, the formation of hydrogen bonds and DNA damage, as well as for the discovery of new gas-phase reactions and products. In applied science, the interest in water radicals is prompted by their potential in radiobiology and as a source of primary ions for selective and sensitive chemical ionization. However, in contrast to protonated water clusters, (H2O)nH+, which are relatively easy to generate and isolate in experiments, the generation and isolation of radical water clusters, (H2O)n+•, is tremendously difficult due to their ultra-high reactivity. This review focuses on the current knowledge and unknowns regarding (H2O)n+• species, including the methods and mechanisms of their formation, structure and chemical properties.
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7
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Jiang SK, Yang D, Kong XT, Wang C, Zang XY, Zheng HJ, Li G, Xie H, Zhang WQ, Yang XM, Jiang L. Structures, energetics, and infrared spectra of the cationic monomethylamine-water clusters. CHINESE J CHEM PHYS 2020. [DOI: 10.1063/1674-0068/cjcp1905103] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Affiliation(s)
- Shu-kang Jiang
- Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai 201210,
China
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210,
China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Dong Yang
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiang-tao Kong
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Chong Wang
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiang-yu Zang
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Hui-jun Zheng
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Gang Li
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Hua Xie
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Wei-qing Zhang
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Xue-ming Yang
- Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai 201210,
China
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210,
China
| | - Ling Jiang
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
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8
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Sugimoto T, Matsumoto Y. Orientational ordering in heteroepitaxial water ice on metal surfaces. Phys Chem Chem Phys 2020; 22:16453-16466. [DOI: 10.1039/d0cp01763a] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Sum frequency generation spectroscopy uncovers the orientational ordering in crystalline ice films of water grown on Pt(111) and Rh(111).
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Affiliation(s)
- Toshiki Sugimoto
- Department of Materials Molecular Science
- Institute for Molecular Science
- Myodaiji
- Okazaki
- Japan
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9
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Lin CK, Shishido R, Huang QR, Fujii A, Kuo JL. Vibrational spectroscopy of protonated amine–water clusters: tuning Fermi resonance and lighting up dark states. Phys Chem Chem Phys 2020; 22:22035-22046. [DOI: 10.1039/d0cp03229h] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The H-bonded NH stretching fundamentals of protonated amine–water clusters pass through the “Fermi resonance window” formed by bending overtones, generating split bands due to anharmonic couplings.
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Affiliation(s)
- Chih-Kai Lin
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617
- Republic of China
| | - Ryunosuke Shishido
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Qian-Rui Huang
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617
- Republic of China
| | - Asuka Fujii
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Jer-Lai Kuo
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617
- Republic of China
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10
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Choi HW, Kim KK, Jeong BG, Song JK, Park SM. Structures and infrared photodissociation of [(aniline)-(methanol)-(water) 2] . SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 220:117119. [PMID: 31141781 DOI: 10.1016/j.saa.2019.05.024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Revised: 04/30/2019] [Accepted: 05/10/2019] [Indexed: 06/09/2023]
Abstract
The structures of [(aniline)-(methanol)-(water)2]+ were investigated by infrared spectroscopy coupled with linear tandem mass spectrometry. We suggest the most stable structure of [(aniline)-(methanol)-(water)2]+ through infrared photodissociation spectra supported by the density functional theory calculations at the level of ωB97X-D/cc-pVQZ. Methanol and one water molecule formed hydrogen bonding with the amino group of aniline, while the other water formed hydrogen bonding with methanol. Upon infrared excitation of [(aniline)-(methanol)-(water)2]+, the water molecule connected to methanol turned out to be preferentially ejected, although the total internal energy in the cluster ion was large enough to dissociate other solvent molecules. This unique dissociation feature was attributed to the significant difference in the dissociation rates as obtained by the Rice-Ramsperger-Kassel-Marcus theory calculations as well as structural restriction.
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Affiliation(s)
- Hyun Wook Choi
- Department of Chemistry, Kyung Hee University, Seoul 02447, Republic of Korea
| | - Kuk Ki Kim
- Department of Chemistry, Kyung Hee University, Seoul 02447, Republic of Korea
| | - Bong Gyu Jeong
- Department of Chemistry, Kyung Hee University, Seoul 02447, Republic of Korea
| | - Jae Kyu Song
- Department of Chemistry, Kyung Hee University, Seoul 02447, Republic of Korea.
| | - Seung Min Park
- Department of Chemistry, Kyung Hee University, Seoul 02447, Republic of Korea.
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11
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Abstract
Hydrogen bonds play a critical role in nucleobase studies as they encode genes, map protein structures, provide stability to the base pairs, and are involved in spontaneous and induced mutations. Proton transfer mechanism is a critical phenomenon that is related to the acid-base characteristics of the nucleobases in Watson-Crick base pairs. The energetic and dynamical behavior of the proton can be depicted from these characteristics and their adjustment to the water molecules or the surrounding ions. Further, new pathways open up in which protonated nucleobases are generated by proton transfer from the ionized water molecules and elimination of a hydroxyl radical in this review, the analysis will be focused on understanding the mechanism of untargeted mutations in canonical, wobble, Hoogsteen pairs, and mutagenic tautomers through the non-covalent interactions. Further, rare tautomer formation through the single proton transfer (SPT) and the double proton transfer (DPT), quantum tunneling in nucleobases, radiation-induced bystander effects, role of water in proton transfer (PT) reactions, PT in anticancer drugs-DNA interaction, displacement and oriental polarization, possible models for mutations in DNA, genome instability, and role of proton transfer using kinetic parameters for RNA will be discussed.
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12
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Structures, energetics, and infrared spectra of the cationic monomethylamine clusters. Chem Phys 2019. [DOI: 10.1016/j.chemphys.2019.04.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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13
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Calvo F. Conformational diversity in deprotonated water clusters and anharmonic infrared spectra. MOLECULAR SIMULATION 2019. [DOI: 10.1080/08927022.2018.1513653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- F. Calvo
- Université Grenoble Alpes, CNRS, LIPhy, Grenoble, France
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14
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Zhao-Qi W, Hai-Yan W, Zeng ZY, Yan C. Ab initio investigation of possible lower-energy candidate structure for cationic water cluster (H2O) 12+ via particle swarm optimization method. Struct Chem 2019. [DOI: 10.1007/s11224-018-1182-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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15
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Lei X, Kong X, Zhao Z, Zhang B, Dai D, Yang X, Jiang L. Infrared photodissociation spectroscopy of ion-radical networks in cationic dimethylamine complexes. Phys Chem Chem Phys 2018; 20:30125-30132. [PMID: 30406787 DOI: 10.1039/c8cp05597a] [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
Infrared photodissociation spectroscopy was employed to establish the general trends in the stepwise growth motif of cationic dimethylamine (DMA)n+ (n = 4-13) complexes. Electronic structure calculations were performed to identify the structure of the low-lying isomers and to assign the observed spectral features. The results showed the preference of the formation of the proton-transferred (CH3)2NH2+ ion core. The (CH3)2NH2+-[(CH3)2N] ion-radical pair contact and the ion-radical separated pair could coexist at n = 4. The [(CH3)2N] radical is separated from the (CH3)2NH2+ ion core by one DMA molecule at n = 4-6 and by two or more DMA molecules in the larger clusters. This suggests that the (CH3)2NH2+-[(CH3)2N] ion-radical contact pair is not stable in the subsequent radiation-induced processes of DMA, and the [(CH3)2N] radical is released from the charged site in the cationic DMA networks.
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Affiliation(s)
- Xin Lei
- State Key Laboratory of Molecular Reaction Dynamics, Collaborative Innovation Center of Chemistry for Energy and Materials (iChEM), Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, China.
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16
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Ab initio investigation of the lower-energy candidate structures for (H2O)10+ water cluster. Struct Chem 2018. [DOI: 10.1007/s11224-018-1109-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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17
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Ignaczak A, Santos E, Schmickler W, da Costa TF. Oxidation of oxalic acid on boron-doped diamond electrode in acidic solutions. J Electroanal Chem (Lausanne) 2018. [DOI: 10.1016/j.jelechem.2017.11.036] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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18
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Chalabala J, Uhlig F, Slavíček P. Assessment of Real-Time Time-Dependent Density Functional Theory (RT-TDDFT) in Radiation Chemistry: Ionized Water Dimer. J Phys Chem A 2018. [PMID: 29513531 DOI: 10.1021/acs.jpca.8b01259] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Ionization in the condensed phase and molecular clusters leads to a complicated chain of processes with coupled electron-nuclear dynamics. It is difficult to describe such dynamics with conventional nonadiabatic molecular dynamics schemes since the number of states swiftly increases as the molecular system grows. It is therefore attractive to use a direct electron and nuclear propagation such as the real-time time-dependent density functional theory (RT-TDDFT). Here we report a RT-TDDFT benchmark study on simulations of singly and doubly ionized states of a water monomer and dimer as a prototype for more complex processes in a condensed phase. We employed the RT-TDDFT based Ehrenfest molecular dynamics with a generalized gradient approximate (GGA) functional and compared it with wave-function-based surface hopping (SH) simulations. We found that the initial dynamics of a singly HOMO ionized water dimer is similar for both the RT-TDDFT/GGA and the SH simulations but leads to completely different reaction channels on a longer time scale. This failure is attributed to the self-interaction error in the GGA functionals and it can be avoided by using hybrid functionals with large fraction of exact exchange (represented here by the BHandHLYP functional). The simulations of doubly ionized states are reasonably described already at the GGA level. This suggests that the RT-TDDFT/GGA method could describe processes following the autoionization processes such as Auger emission, while its applicability to more complex processes such as intermolecular Coulombic decay remains limited.
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Affiliation(s)
- Jan Chalabala
- Department of Physical Chemistry , University of Chemistry and Technology , Technická 5 , 16628 Prague , Czech Republic
| | - Frank Uhlig
- Department of Physical Chemistry , University of Chemistry and Technology , Technická 5 , 16628 Prague , Czech Republic.,Institute for Computational Physics , University of Stuttgart , Allmandring 3 , 70569 Stuttgart , Germany
| | - Petr Slavíček
- Department of Physical Chemistry , University of Chemistry and Technology , Technická 5 , 16628 Prague , Czech Republic.,Jaroslav Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic , Dolejškova 3 , 18200 Prague , Czech Republic
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19
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Mahnke LK, Warzok U, Lin M, Näther C, Schalley CA, Bensch W. New Water-Soluble Cluster Compound {Zn(en)3}3[V15Sb6O42(H2O)]⋅ (Ethylenediamine)3⋅10 H2O as a Synthon for the Generation of Two New Antimonato Polyoxovanadates. Chemistry 2018; 24:5522-5528. [DOI: 10.1002/chem.201705732] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Indexed: 11/07/2022]
Affiliation(s)
- Lisa K. Mahnke
- Institut für Anorganische Chemie; Christian-Albrechts-Universität zu Kiel; Max-Eyth-Strasse 2 24118 Kiel Germany
| | - Ulrike Warzok
- Institut für Chemie und Biochemie; Freie Universität Berlin; Takustrasse 3 14195 Berlin Germany
| | - Mengxi Lin
- Institut für Anorganische Chemie; Christian-Albrechts-Universität zu Kiel; Max-Eyth-Strasse 2 24118 Kiel Germany
| | - Christian Näther
- Institut für Anorganische Chemie; Christian-Albrechts-Universität zu Kiel; Max-Eyth-Strasse 2 24118 Kiel Germany
| | - Christoph A. Schalley
- Institut für Chemie und Biochemie; Freie Universität Berlin; Takustrasse 3 14195 Berlin Germany
| | - Wolfgang Bensch
- Institut für Anorganische Chemie; Christian-Albrechts-Universität zu Kiel; Max-Eyth-Strasse 2 24118 Kiel Germany
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20
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Ultrafast Chemistry of Water Radical Cation, H₂O •+, in Aqueous Solutions. Molecules 2018; 23:molecules23020244. [PMID: 29373497 PMCID: PMC6017428 DOI: 10.3390/molecules23020244] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2018] [Revised: 01/19/2018] [Accepted: 01/22/2018] [Indexed: 11/16/2022] Open
Abstract
Oxidation reactions by radicals constitute a very important class of chemical reactions in solution. Radiation Chemistry methods allow producing, in a controlled way, very reactive oxidizing radicals, such as OH•, CO3•–, NO3•, SO4•–, and N3•. Although the radical cation of water, H2O•+, with a very short lifetime (shorter than 1 ps) is the precursor of these radicals in aqueous solutions, its chemistry is usually known to be limited to the reaction of proton transfer by forming OH• radical. Herein, we stress situations where H2O•+ undergoes electron transfer reaction in competition with proton transfer.
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21
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Sharma S, Wright TG, Besley NA. Reactivity of the O2+·(H2O)n and NO+·(H2O)n cluster ions in the D-region of the ionosphere. Phys Chem Chem Phys 2018; 20:25931-25938. [DOI: 10.1039/c8cp05681a] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Ab initio molecular dynamics simulations reveal different reactivities of NO+·(H2O)n and O2+·(H2O)n cluster ions in the D-region of the ionosphere.
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22
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Ab initio study of cationic water cluster (H 2 O) 9 + via particle swarm optimization algorithm. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2017.09.020] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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23
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Danker F, Näther C, Pielnhofer F, Bensch W. Room‐Temperature Synthesis of Three Compounds Featuring the [Ge
4
S
10
]
4–
Anion from a Water‐Soluble Thiogermanate Precursor. Eur J Inorg Chem 2017. [DOI: 10.1002/ejic.201700795] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Felix Danker
- Institut für Anorganische Chemie Christian‐Albrechts‐Universität zu Kiel Max‐Eyth‐Strasse 2 24118 Kiel Germany
| | - Christian Näther
- Institut für Anorganische Chemie Christian‐Albrechts‐Universität zu Kiel Max‐Eyth‐Strasse 2 24118 Kiel Germany
| | - Florian Pielnhofer
- Institute of Materials Resource Management Universität Augsburg 86135 Augsburg Germany
| | - Wolfgang Bensch
- Institut für Anorganische Chemie Christian‐Albrechts‐Universität zu Kiel Max‐Eyth‐Strasse 2 24118 Kiel Germany
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24
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Ab initio investigation of possible candidate structures and properties of water cluster (H2O)7+ via particle swarm optimization method. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2016.11.028] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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25
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Herr JD, Steele RP. Signatures of Size-Dependent Structural Patterns in Hydrated Copper(I) Clusters, Cu +(H 2O) n=1-10. J Phys Chem A 2016; 120:10252-10263. [PMID: 27981838 DOI: 10.1021/acs.jpca.6b10346] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
The isomers of a hydrated Cu(I) ion with n = 1-10 water molecules were investigated by using ab initio quantum chemistry and an automated isomer-search algorithm. The electronic structure and vibrational spectra of the hundreds of resulting isomers were used to analyze the source of the observed bonding patterns. A structural evolution from dominantly two-coordinate structures (n = 1-4) toward a mixture of two- and three-coordinate structures was observed at n = 5-6, where the stability provided by expanded hydrogen-bonding was competitive with the dominantly electrostatic interaction between the water ligand and remaining binding sites of the metal ion. Further hydration (n = 7-10) led to a mixture of three- and four-coordinate structures. The metal ion was found, through spectroscopic signatures, to appreciably perturb the O-H bonds of even third-shell water molecules, which highlighted the ability of this nominally simple ion to partially activate the surrounding water network.
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Affiliation(s)
- Jonathan D Herr
- Department of Chemistry, University of Utah , 315 South 1400 East, Salt Lake City, Utah 84112, United States and.,Henry Eyring Center for Theoretical Chemistry, University of Utah , 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Ryan P Steele
- Department of Chemistry, University of Utah , 315 South 1400 East, Salt Lake City, Utah 84112, United States and.,Henry Eyring Center for Theoretical Chemistry, University of Utah , 315 South 1400 East, Salt Lake City, Utah 84112, United States
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26
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Tang M, Hu CE, Lv ZL, Chen XR, Cai LC. Ab Initio Study of Ionized Water Radical Cation (H 2O) 8+ in Combination with the Particle Swarm Optimization Method. J Phys Chem A 2016; 120:9489-9499. [PMID: 27934325 DOI: 10.1021/acs.jpca.6b09866] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
The structures of cationic water clusters (H2O)8+ have been globally explored by the particle swarm optimization method in combination with quantum chemical calculations. Geometry optimization and vibrational analysis for the 15 most interesting clusters were computed at the MP2/aug-cc-pVDZ level and infrared spectrum calculation at MPW1K/6-311++G** level. Special attention was paid to the relationships between their configurations and energies. Both MP2 and B3LYP-D3 calculations revealed that the cage-like structure is the most stable, which is different from a five-membered ring lowest energy structure but agrees well with a cage-like structure in the literature. Furthermore, our obtained cage-like structure is more stable by 0.87 and 1.23 kcal/mol than the previously reported structures at MP2 and B3LYP-D3 levels, respectively. Interestingly, on the basis of their relative Gibbs free energies and the temperature dependence of populations, the cage-like structure predominates only at very low temperatures, and the most dominating species transforms into a newfound four-membered ring structure from 100 to 400 K, which can contribute greatly to the experimental infrared spectrum. By topological analysis and reduced density gradient analysis, we also investigated the structural characteristics and bonding strengths of these water cluster radical cations.
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Affiliation(s)
- Mei Tang
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University , Chengdu 610065, China
| | - Cui-E Hu
- College of Physics and Electronic Engineering, Chongqing Normal University , Chongqing 400047, China
| | - Zhen-Long Lv
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University , Chengdu 610065, China
| | - Xiang-Rong Chen
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University , Chengdu 610065, China
| | - Ling-Cang Cai
- National Key Laboratory for Shock Wave and Detonation Physics Research, Institute of Fluid Physics, Chinese Academy of Engineering Physics , Mianyang 621900, China
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27
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Affiliation(s)
- Daniel M. Chipman
- Radiation Laboratory, University of Notre Dame, Notre
Dame, Indiana 46556-5674, United States
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28
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Apicella B, Li X, Passaro M, Russo C. Insights on Clusters Formation Mechanism by Time of Flight Mass Spectrometry. 2. The Case of Acetone-Water Clusters. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2016; 27:1835-1845. [PMID: 27572103 DOI: 10.1007/s13361-016-1464-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2016] [Revised: 07/20/2016] [Accepted: 07/22/2016] [Indexed: 06/06/2023]
Abstract
This paper is the second of a series dealing with clusters formation mechanism. In part 1, water clusters with the addition of an electrophilic molecule such as ethanol were studied by Time Of Flight Mass Spectrometry (TOFMS). Mass distributions of molecular clusters of ethanol, water and ethanol-water mixed clusters, were obtained by means of two different ionization methods: Electron Ionization (EI) and picosecond laser Photo-Ionization (PI) at a wavelength of 355 nm. In part 2, the same experimental approach was employed to obtain mass spectra of clusters generated by acetone-water binary mixtures with a different composition. Strong dependence of the mass spectra of clusters with EI and PI on the acetone-water mixing ratio was observed. It was shown that the spectral pattern changes gradually and water-rich cluster signals become fainter while acetone-rich cluster signals become more intensive with increasing acetone concentrations from 0.3% to 40%. Owing to the hydrogen bond acceptor character of acetone, its self-association is discouraged with respect to ethanol. The autocorrelation function (AF) was used to analyze the variation of the water clusters composition with the increase of the acetone concentration in terms of fundamental periodicities. However, although acetone and ethanol present a very different hydrogen-bonding ability, similarly to ethanol-water system, in acetone-water system the formation of water-rich clusters and subsequent metastable fragmentation are the dominant process that determine the clusters distribution, irrespective of the ionization process, while the ionization process significantly affects the acetone-rich clusters distribution. Graphical Abstract ᅟ.
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Affiliation(s)
- B Apicella
- Istituto di Ricerche sulla Combustione, IRC-CNR, P.le Tecchio 80, 80125, Napoli, Italy.
| | - X Li
- Istituto di Ricerche sulla Combustione, IRC-CNR, P.le Tecchio 80, 80125, Napoli, Italy
- Key Laboratory of Power Machinery and Engineering, Ministry of Education, Shanghai Jiao Tong University, Shanghai, 200240, China
| | - M Passaro
- Istituto di Ricerche sulla Combustione, IRC-CNR, P.le Tecchio 80, 80125, Napoli, Italy
- Chemical Engineering, Materials and Industrial Production Department, University of Naples "Federico II", P.le Tecchio 80, 80125, Napoli, Italy
| | - C Russo
- Istituto di Ricerche sulla Combustione, IRC-CNR, P.le Tecchio 80, 80125, Napoli, Italy
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29
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Liu L, Hu CE, Tang M, Chen XR, Cai LC. Ab initio investigation of structure, stability, thermal behavior, bonding, and infrared spectra of ionized water cluster (H 2O) 6. J Chem Phys 2016; 145:154307. [PMID: 27782468 DOI: 10.1063/1.4964860] [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
The low-lying isomers of cationic water cluster (H2O)6+ have been globally explored by using particle swarm optimization algorithm in conjunction with quantum chemical calculations. Compared with previous results, our searching method covers a wide range of structural isomers of (H2O)6+ and therefore turns out to be more effective. With these local minima, geometry optimization and vibrational analysis are performed for the most interesting clusters at second-order Møller-Plesset (MP2)/aug-cc-pVDZ level, and their energies are further refined at MP2/aug-cc-pVTZ and coupled-cluster theory with single, double, and perturbative triple excitations/aug-cc-pVDZ level. The interaction energies using the complete basis set limits at MP2 level are also reported. The relationships between their structure arrangement and their energies are discussed. Based on the results of thermal simulation, structural change from a four-numbered ring to a tree-like structure occurs at T ≈ 45 K, and the relative population of six lowest-free-energy isomers is found to exceed 4% at some point within the studied temperature range. Studies reveal that, among these six isomers, two new-found isomers constitute 10% of isomer population at 180 K, and the experimental spectra can be better explained with inclusions of the two isomers. The molecular orbitals for six representative cationic water clusters are also studied. Through topological and reduced density gradient analysis, we investigated the structural characteristics and the bonding strengths of these water cluster radical cations.
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Affiliation(s)
- Lei Liu
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University, Chengdu 610064, China
| | - Cui-E Hu
- College of Physics and Electronic Engineering, Chongqing Normal University, Chongqing 400047, China
| | - Mei Tang
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University, Chengdu 610064, China
| | - Xiang-Rong Chen
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University, Chengdu 610064, China
| | - Ling-Cang Cai
- National Key Laboratory for Shock Wave and Detonation Physics Research, Institute of Fluid Physics, CAEP, Mianyang 621900, China
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30
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Floris SD, Talbot JJ, Wilkinson MJ, Herr JD, Steele RP. Quantum molecular motion in the mixed ion-radical complex, [(H 2O)(H 2S)] . Phys Chem Chem Phys 2016; 18:27450-27459. [PMID: 27711703 DOI: 10.1039/c6cp05299a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
The cation dimer of water and hydrogen sulfide, [(H2O)(H2S)]+, serves as a fundamental model for the oxidation chemistry of H2S. The known oxidative metabolism of H2S by biological species in sulfur-rich environments has motivated the study of the inherent properties of this benchmark complex, with possible mechanistic implications for modern water oxidation chemistry. The low-energy isomer of this open-shell ion is a proton-transferred (PT) structure, H3O+SH˙. An alternative PT structure, H3S+OH˙, and a hemibonded (HB) isomer, [H2O·SH2]+, are also stable isomers, placing this complex intermediate to known (H2O)2+ (PT) and (H2S)2+ (HB) limiting regimes. This intermediate character suggested the possibility of unique molecular motion, even in the vibrational ground state. Path integral molecular dynamics and anharmonic vibrational spectroscopy simulations have been performed in this study, in order to understand the inherent quantum molecular motion of this complex. The resulting structural distributions were found to deviate significantly from both classical and harmonic analyses, including the observation of large-amplitude anharmonic motion of the central proton and nearly free rotation of the terminal hydrogens. The predicted vibrational spectra are particularly unique and suggest characteristic signatures of the strong electronic interactions and anharmonic vibrational mode couplings in this radical cation.
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Affiliation(s)
- S D Floris
- Department of Chemistry and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, UT, USA.
| | - J J Talbot
- Department of Chemistry and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, UT, USA.
| | - M J Wilkinson
- Department of Chemistry and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, UT, USA.
| | - J D Herr
- Department of Chemistry and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, UT, USA.
| | - R P Steele
- Department of Chemistry and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, UT, USA.
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31
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Herr JD, Steele RP. Ion–Radical Pair Separation in Larger Oxidized Water Clusters, (H2O)+n=6–21. J Phys Chem A 2016; 120:7225-39. [DOI: 10.1021/acs.jpca.6b07465] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Jonathan D. Herr
- Department
of Chemistry and Henry Eyring Center for
Theoretical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Ryan P. Steele
- Department
of Chemistry and Henry Eyring Center for
Theoretical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
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32
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Talbot JJ, Cheng X, Herr JD, Steele RP. Vibrational Signatures of Electronic Properties in Oxidized Water: Unraveling the Anomalous Spectrum of the Water Dimer Cation. J Am Chem Soc 2016; 138:11936-45. [DOI: 10.1021/jacs.6b07182] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Justin J. Talbot
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
- Henry
Eyring Center for Theoretical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Xiaolu Cheng
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
- Henry
Eyring Center for Theoretical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Jonathan D. Herr
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
- Henry
Eyring Center for Theoretical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Ryan P. Steele
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
- Henry
Eyring Center for Theoretical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
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33
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Tachikawa H, Takada T. Ionization dynamics of the branched water cluster: A long-lived non-proton-transferred intermediate. COMPUT THEOR CHEM 2016. [DOI: 10.1016/j.comptc.2016.05.008] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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34
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Pan PR, Lu EP, Kuo JL, Tsai MK. The Spectroscopic Features of Ionized Water Medium: Theoretical Characterization and Implication Using (H 2O) n+, n=3-4, Cluster Model. J CHIN CHEM SOC-TAIP 2016. [DOI: 10.1002/jccs.201600030] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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35
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Kostko O, Bandyopadhyay B, Ahmed M. Vacuum Ultraviolet Photoionization of Complex Chemical Systems. Annu Rev Phys Chem 2016; 67:19-40. [DOI: 10.1146/annurev-physchem-040215-112553] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Oleg Kostko
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720;
| | - Biswajit Bandyopadhyay
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720;
| | - Musahid Ahmed
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720;
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36
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Steele RP. Multiple-Timestep ab Initio Molecular Dynamics Using an Atomic Basis Set Partitioning. J Phys Chem A 2015; 119:12119-30. [DOI: 10.1021/acs.jpca.5b05850] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Ryan P. Steele
- Department of Chemistry and
Henry Eyring Center for Theoretical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
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37
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Lin LC, Liang JM, Lu EP, Tsai MK. Response of the hydrogen bond network to the ionization of bulk water: ab initio molecular dynamic simulations using H2S(aq). Chem Phys Lett 2015. [DOI: 10.1016/j.cplett.2015.04.034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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38
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Lv ZL, Cheng Y, Chen XR, Cai LC. Structural exploration and properties of (H2O)4+ cluster via ab initio in combination with particle swarm optimization method. Chem Phys 2015. [DOI: 10.1016/j.chemphys.2015.02.016] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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39
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Herr JD, Talbot J, Steele RP. Structural Progression in Clusters of Ionized Water, (H2O)n=1–5+. J Phys Chem A 2015; 119:752-66. [DOI: 10.1021/jp509698y] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Jonathan D. Herr
- Henry Eyring
Center for Theoretical
Chemistry, Thatcher Building for Biological and Biophysical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Justin Talbot
- Henry Eyring
Center for Theoretical
Chemistry, Thatcher Building for Biological and Biophysical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Ryan P. Steele
- Henry Eyring
Center for Theoretical
Chemistry, Thatcher Building for Biological and Biophysical Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
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40
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Pandey RK, Hossain MD, Sato T, Rana U, Moriyama S, Higuchi M. Effect of a three-dimensional hyperbranched structure on the ionic conduction of metallo-supramolecular polymers. RSC Adv 2015. [DOI: 10.1039/c5ra07217d] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
3D metallo-supramolecular polymers exhibited 10–100 times higher ionic conductivity than their 1D equivalents due to the improved ion conduction pathway.
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Affiliation(s)
- Rakesh K. Pandey
- Electronic Functional Materials Group
- National Institute for Materials Science (NIMS)
- Tsukuba 305-0044
- Japan
| | - Md. Delwar Hossain
- Electronic Functional Materials Group
- National Institute for Materials Science (NIMS)
- Tsukuba 305-0044
- Japan
| | - Takashi Sato
- Electronic Functional Materials Group
- National Institute for Materials Science (NIMS)
- Tsukuba 305-0044
- Japan
| | - Utpal Rana
- Electronic Functional Materials Group
- National Institute for Materials Science (NIMS)
- Tsukuba 305-0044
- Japan
| | - Satoshi Moriyama
- International Centre for Materials Nanoarchitectonics (MANA)
- NIMS
- Tsukuba
- Japan
- JST-CREST
| | - Masayoshi Higuchi
- Electronic Functional Materials Group
- National Institute for Materials Science (NIMS)
- Tsukuba 305-0044
- Japan
- JST-CREST
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41
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Shishido R, Li YC, Tsai CW, Bing D, Fujii A, Kuo JL. An infrared spectroscopic and theoretical study on (CH3)3N–H+–(H2O)n, n = 1–22: highly polarized hydrogen bond networks of hydrated clusters. Phys Chem Chem Phys 2015; 17:25863-76. [DOI: 10.1039/c5cp01487e] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Highly polarized water networks are found in the micro hydaration of protonated trimethylamine.
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Affiliation(s)
- Ryunosuke Shishido
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Ying-Cheng Li
- Department of Physics
- National Taiwan University
- Taipei 10617
- Taiwan
- Institute of Atomic and Molecular Sciences
| | - Chen-Wei Tsai
- Department of Physics
- National Taiwan University
- Taipei 10617
- Taiwan
- Institute of Atomic and Molecular Sciences
| | - Dan Bing
- Pujiang Institute
- Nanjing Tech University
- Nanjing
- China
| | - Asuka Fujii
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Jer-Lai Kuo
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei
- Taiwan
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42
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Abstract
A proton transfer process is usually dominant in several biological phenomena such as the energy relaxation of photo-excited DNA base pairs and a charge relay process in Ser-His-Glu.
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Affiliation(s)
- Hiroto Tachikawa
- Division of Materials Chemistry
- Graduate School of Engineering
- Hokkaido University
- Sapporo 060-8628
- Japan
| | - Tomoya Takada
- Department of Material Chemistry
- Asahikawa National College of Technology
- Asahikawa 071-8142
- Japan
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43
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Lee HM, Youn IS, Kim KS. CO Capture and Conversion to HOCO Radical by Ionized Water Clusters. J Phys Chem A 2014; 118:7274-9. [DOI: 10.1021/jp410927a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
- Han Myoung Lee
- Department
of Chemistry, School of Natural Science, Ulsan National Institute of Science and Technology (UNIST), Ulsan 689-798, Korea
- Center for Superfunctional Materials, Department of Chemistry, Pohang University of Science and Technology, Pohang 790-784, Korea
| | - Il-Seung Youn
- Department
of Chemistry, School of Natural Science, Ulsan National Institute of Science and Technology (UNIST), Ulsan 689-798, Korea
- Center for Superfunctional Materials, Department of Chemistry, Pohang University of Science and Technology, Pohang 790-784, Korea
| | - Kwang S. Kim
- Department
of Chemistry, School of Natural Science, Ulsan National Institute of Science and Technology (UNIST), Ulsan 689-798, Korea
- Center for Superfunctional Materials, Department of Chemistry, Pohang University of Science and Technology, Pohang 790-784, Korea
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Shao Y, Gan Z, Epifanovsky E, Gilbert AT, Wormit M, Kussmann J, Lange AW, Behn A, Deng J, Feng X, Ghosh D, Goldey M, Horn PR, Jacobson LD, Kaliman I, Khaliullin RZ, Kuś T, Landau A, Liu J, Proynov EI, Rhee YM, Richard RM, Rohrdanz MA, Steele RP, Sundstrom EJ, Woodcock HL, Zimmerman PM, Zuev D, Albrecht B, Alguire E, Austin B, Beran GJO, Bernard YA, Berquist E, Brandhorst K, Bravaya KB, Brown ST, Casanova D, Chang CM, Chen Y, Chien SH, Closser KD, Crittenden DL, Diedenhofen M, DiStasio RA, Do H, Dutoi AD, Edgar RG, Fatehi S, Fusti-Molnar L, Ghysels A, Golubeva-Zadorozhnaya A, Gomes J, Hanson-Heine MW, Harbach PH, Hauser AW, Hohenstein EG, Holden ZC, Jagau TC, Ji H, Kaduk B, Khistyaev K, Kim J, Kim J, King RA, Klunzinger P, Kosenkov D, Kowalczyk T, Krauter CM, Lao KU, Laurent AD, Lawler KV, Levchenko SV, Lin CY, Liu F, Livshits E, Lochan RC, Luenser A, Manohar P, Manzer SF, Mao SP, Mardirossian N, Marenich AV, Maurer SA, Mayhall NJ, Neuscamman E, Oana CM, Olivares-Amaya R, O’Neill DP, Parkhill JA, Perrine TM, Peverati R, Prociuk A, Rehn DR, Rosta E, Russ NJ, Sharada SM, Sharma S, Small DW, Sodt A, Stein T, Stück D, Su YC, Thom AJ, Tsuchimochi T, Vanovschi V, Vogt L, Vydrov O, Wang T, Watson MA, Wenzel J, White A, Williams CF, Yang J, Yeganeh S, Yost SR, You ZQ, Zhang IY, Zhang X, Zhao Y, Brooks BR, Chan GK, Chipman DM, Cramer CJ, Goddard WA, Gordon MS, Hehre WJ, Klamt A, Schaefer HF, Schmidt MW, Sherrill CD, Truhlar DG, Warshel A, Xu X, Aspuru-Guzik A, Baer R, Bell AT, Besley NA, Chai JD, Dreuw A, Dunietz BD, Furlani TR, Gwaltney SR, Hsu CP, Jung Y, Kong J, Lambrecht DS, Liang W, Ochsenfeld C, Rassolov VA, Slipchenko LV, Subotnik JE, Van Voorhis T, Herbert JM, Krylov AI, Gill PM, Head-Gordon M. Advances in molecular quantum chemistry contained in the Q-Chem 4 program package. Mol Phys 2014. [DOI: 10.1080/00268976.2014.952696] [Citation(s) in RCA: 1769] [Impact Index Per Article: 176.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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Lv ZL, Xu K, Cheng Y, Chen XR, Cai LC. Ab initioinvestigation of the lower energy candidate structures for (H2O)5+water cluster. J Chem Phys 2014; 141:054309. [DOI: 10.1063/1.4891721] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Zhen-Long Lv
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University, Chengdu 610064, China
- School of Physics and Engineering, Henan University of Science and Technology, Luoyang 471023, China
| | - Kai Xu
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University, Chengdu 610064, China
| | - Yan Cheng
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University, Chengdu 610064, China
| | - Xiang-Rong Chen
- Institute of Atomic and Molecular Physics, College of Physical Science and Technology, Sichuan University, Chengdu 610064, China
| | - Ling-Cang Cai
- National Key Laboratory for Shock Wave and Detonation Physics Research, Institute of Fluid Physics, Chinese Academy of Engineering Physics, Mianyang 621900, China
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46
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Apicella B, Li X, Passaro M, Spinelli N, Wang X. Multiphoton ionization of large water clusters. J Chem Phys 2014; 140:204313. [DOI: 10.1063/1.4878663] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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48
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Lu EP, Pan PR, Li YC, Tsai MK, Kuo JL. Structural evolution and solvation of the OH radical in ionized water radical cations (H2O)n+, n = 5–8. Phys Chem Chem Phys 2014; 16:18888-95. [DOI: 10.1039/c4cp02293a] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Structural evolution of ionized water radical cations (H2O)n+, n = 5–8, is studied by ab intio methods.
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Affiliation(s)
- En-Ping Lu
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617, Taiwan
| | - Piin-Ruey Pan
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617, Taiwan
| | - Ying-Cheng Li
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617, Taiwan
| | - Ming-Kang Tsai
- Department of Chemistry
- National Taiwan Normal University
- Taipei 10677, Taiwan
| | - Jer-Lai Kuo
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617, Taiwan
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Matsuda Y, Nakayama Y, Mikami N, Fujii A. Isomer-selective infrared spectroscopy of the cationic trimethylamine dimer to reveal its charge sharing and enhanced acidity of the methyl groups. Phys Chem Chem Phys 2014; 16:9619-24. [DOI: 10.1039/c4cp00659c] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
The isomer-selective infrared spectroscopy revealed the charge-shared (hemibond) and the C⋯HN hydrogen-bond structures of the trimethylamine dimer cation.
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Affiliation(s)
- Yoshiyuki Matsuda
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai, Japan
- Center for the Advancement of Higher Education
| | - Yuichiro Nakayama
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai, Japan
| | - Naohiko Mikami
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai, Japan
| | - Asuka Fujii
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai, Japan
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50
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Marciante M, Calvo F. Modelling infrared action spectra of protonated water clusters. MOLECULAR SIMULATION 2013. [DOI: 10.1080/08927022.2013.844804] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- M. Marciante
- ILM, CNRS UMR 5306, Université Lyon 1, Bâtiment Kastler, 43 Bd du 11 Novembre 1918, F69622, Villeurbanne Cedex, France
| | - F. Calvo
- ILM, CNRS UMR 5306, Université Lyon 1, Bâtiment Kastler, 43 Bd du 11 Novembre 1918, F69622, Villeurbanne Cedex, France
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