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Sun X, Xie M, Qiu W, Wei C, Chen X, Hu Y. Spectroscopic evidence of S∴N and S∴O hemibonds in heterodimer cations. Phys Chem Chem Phys 2022; 24:19354-19361. [PMID: 35686608 DOI: 10.1039/d2cp00904h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Computational and condensed phase experimental evidence for the existence of S∴N and S∴O hemibonded structures has been reported previously, but no gas phase experimental evidence has been reported. To experimentally explore the existence of the S∴N and S∴O hemibonds in the gas phase, we recorded the infrared photodissociation action spectra of four cationic clusters: [CH3SH-NH3]+, [CH3SCH3-NH3]+, [CH3SCH3-H2O]+, and [CH3OCH3-H2O]+. Combined with the calculation results, it is found that the S∴N hemibonded structure is competitive with the S⋯HN H-bonded structure, though only the latter structure is actually observed in [CH3SH-NH3]+. The spectral and theoretical results show that hemibonds can form between the second- (oxygen or nitrogen) and the third-period elements (sulfur) in the heterodimer clusters of [CH3SCH3-NH3]+ and [CH3SCH3-H2O]+. However, the S∴N and S∴O hemibonded structures are found competitive with the C⋯HN and CH⋯O H-bonded structures, respectively, and both the structures coexist. On the other hand, the O∴O hemibonded structure is much less stable than other hydrogen bonded (H-bonded) structures in [CH3OCH3-H2O]+, and it shows no clear contribution to the observed spectrum. This study provides direct spectroscopic evidence for the existence of S∴N and S∴O hemibonds in the gas phase and their competition with the H-bonds, which may be also fundamentally important in biological processes.
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Affiliation(s)
- Xiaonan Sun
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, China.
| | - Min Xie
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, China.
| | - Wei Qiu
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, China.
| | - Chengcheng Wei
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, China.
| | - Xujian Chen
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, China.
| | - Yongjun Hu
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, China.
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Hattori K, Wang D, Fujii A. Influence of the microsolvation on hemibonded and protonated hydrogen sulfide: infrared spectroscopy of [(H 2S) n(X) 1] + and H +(H 2S) n(X) 1 (n = 1 and 2, X = water, methanol, and ethanol). Phys Chem Chem Phys 2019; 21:16064-16074. [PMID: 31259331 DOI: 10.1039/c9cp03159f] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Changes of the excess charge accommodation motif in hemibonded and protonated hydrogen sulfide by microsolvation are studied by infrared spectroscopy of [(H2S)n(X)1]+ and H+(H2S)n(X)1 (n = 1 and 2, X = water, methanol, and ethanol) clusters. While the hemibond in the (H2S)2+ ion core is stable to the microhydration by a single water molecule, the hemibond is broken by the proton transfer with the microsolvation by a single methanol or ethanol molecule. Hetero hemibond formation between hydrogen sulfide and these solvent molecules is not observed. On the other hand, the excess proton in H+(H2S)n can be easily transferred to the solvent molecule, even though the proton affinity of the solvent molecule is lower than that of hydrogen sulfide. Implications of these results to the charge accommodation by sulfur under the biological conditions are discussed.
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Affiliation(s)
- Keigo Hattori
- Department of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan.
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Xie M, Shen Z, Wang D, Fujii A, Lee YP. Spectral Characterization of Three-Electron Two-Center (3e-2c) Bonds of Gaseous CH 3S∴S(H)CH 3 and (CH 3SH) 2+ and Enhancement of the 3e-2c Bond upon Protonation. J Phys Chem Lett 2018; 9:3725-3730. [PMID: 29920092 DOI: 10.1021/acs.jpclett.8b01491] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The three-electron two-center (3e-2c) bond plays an important role in structures and electron communication in biological systems involving cationic sulfur compounds. Although the nature of 3e-2c bonds and their theoretical formalism have attracted great interest, direct spectral identifications of 3e-2c-bound molecules are scarce. We observed the infrared spectra of the weakly 3e-2c-bound CH3S∴S(H)CH3 and the strongly 3e-2c-bound (CH3SH)2+ in a supersonic jet using infrared (IR) dissociation with vacuum-ultraviolet photoionization and time-of-flight detection. Protonation of CH3S∴S(H)CH3 to form [CH3(H)S∴S(H)CH3]+ significantly enhances the 3e-2c bond, characterized by a large red shift of the SH-stretching band with enhanced IR intensity, shortening of the calculated S-S distance from 3.00 to 2.86 Å, and a dissociation energy increased from ∼23 to 162 kJ mol-1.
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Affiliation(s)
- Min Xie
- Department of Applied Chemistry and Institute of Molecular Science , National Chiao Tung University , 1001 Ta-Hsueh Road , Hsinchu 30010 , Taiwan
| | - Zhitao Shen
- Department of Applied Chemistry and Institute of Molecular Science , National Chiao Tung University , 1001 Ta-Hsueh Road , Hsinchu 30010 , Taiwan
| | - Dandan Wang
- Department of Chemistry , Graduate School of Science, Tohoku University , Sendai 980-8578 , Japan
| | - Asuka Fujii
- Department of Chemistry , Graduate School of Science, Tohoku University , Sendai 980-8578 , Japan
| | - Yuan-Pern Lee
- Department of Applied Chemistry and Institute of Molecular Science , National Chiao Tung University , 1001 Ta-Hsueh Road , Hsinchu 30010 , Taiwan
- Center for Emergent Functional Matter Science , National Chiao Tung University , Hsinchu 30010 , Taiwan
- Institute of Atomic and Molecular Sciences , Academia Sinica , Taipei 10617 , Taiwan
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Danovich D, Foroutan-Nejad C, Hiberty PC, Shaik S. Nature of the Three-Electron Bond. J Phys Chem A 2018; 122:1873-1885. [PMID: 29338261 DOI: 10.1021/acs.jpca.7b11919] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We analyze the properties of 15 3-electron bonds, which include σ-3-electron-bonds, such as dihalide radical anions and di-noble gas radical cations, π-3-electron-bonds as in hydrazine radical cations, and doubly-π-(3e)-bonded species such as O2, FeO+, S2, etc. The primary analytical tool is the breathing-orbital valence-bond (BOVB) method, which enables us to quantify the charge shift resonance energy (RECS) of the three electrons, and the bond dissociation energies (De). BOVB is tested reliable against MRCI calculations. Our findings show that in all 3-electron bonds, none of the VB structures have by themselves any bonding. In fact, in each VB structure, the three electrons maintain Pauli repulsion, while the entire bonding energy arises from resonance due to the charge shift between the two or more constituent VB structures. Hence, 3e-bonds are charge shift bonds (CSBs). The CSB character is probed by calculating the Laplacian (L) of the 3e-bond. Thus, much like the CSBs in electron-pair bonds, such as F2 or the central bond in [1.1.1]propellane, here too L is positive, thus showing the excess kinetic energy of the shared density due to the Pauli repulsion in the 3-electron VB structures. The RECS values for 3-electron bonds are invariably larger than the corresponding bond energies. For the doubly-π-(3e)-bonded species, RECS is very large, exceeding 100 kcal mol-1. As such, it is fitting to conclude that σ- and π-3-electron-bonds find their natural place in the CSB family along with two-electron CSBs, with which they share identical energetic and topological characteristics. Experimental manifestations/tests of 3e-CSBs are proposed.
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Affiliation(s)
- David Danovich
- Institute of Chemistry, Hebrew University of Jerusalem , 9190401 Jerusalem, Israel
| | - Cina Foroutan-Nejad
- CEITEC - Central European Institute of Technology, Masaryk University , Kamenice 5/A4, CZ-62500 Brno, Czech Republic
| | - Philippe C Hiberty
- Laboratoire de Chimie Physique, UMR CNRS 8000, Groupe Théosim, Université de Paris-Sud , 91405 Orsay Cédex, France
| | - Sason Shaik
- Institute of Chemistry, Hebrew University of Jerusalem , 9190401 Jerusalem, Israel
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Wang D, Fujii A. Spectroscopic observation of two-center three-electron bonded (hemi-bonded) structures of (H 2S) n+ clusters in the gas phase. Chem Sci 2017; 8:2667-2670. [PMID: 28553502 PMCID: PMC5433515 DOI: 10.1039/c6sc05361k] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2016] [Accepted: 01/09/2017] [Indexed: 11/22/2022] Open
Abstract
A two-center three-electron 2c-3e bond (hemi-bond) is a non-classical chemical bond, and its existence has been supposed in radical cation clusters with lone pairs. Though the nature of the hemi-bond and its role in the reactivity of radical cations have attracted great interest, spectroscopic observations of hemi-bonded structures have been very scarce. In the present study, the presence of a stable hemi-bonded core (H2S∴SH2)+ in (H2S) n+ (n = 3-6) in the gas phase is demonstrated by infrared spectroscopy combined with quantum chemical calculations. The spectral features of the free SH stretch of the ion core show that the hemi-bond motif of the ion core is maintained up to the completion of the first H-bonded solvation shell. All of the observed spectra are well reproduced by the minimum energy hemi-bonded isomers, and no sign of the proton-transferred ion core type H3S+-SH, which is estimated to have a much higher energy, is found. Spin density calculations show that the excess charge is almost equally delocalized over the two H2S molecules in the cluster for n = 3 to 6. This also indicates the hemi-bond nature of the (H2S∴SH2)+ ion core and the small impact of the formation of a solvation shell on the ion core.
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Affiliation(s)
- Dandan Wang
- Department of Chemistry , Graduate School of Science , Tohoku University , Sendai 980-8578 , Japan .
| | - Asuka Fujii
- Department of Chemistry , Graduate School of Science , Tohoku University , Sendai 980-8578 , Japan .
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Codorniu-Hernández E, Hall KW, Boese AD, Ziemianowicz D, Carpendale S, Kusalik PG. Mechanism of O(3P) Formation from a Hydroxyl Radical Pair in Aqueous Solution. J Chem Theory Comput 2015; 11:4740-8. [DOI: 10.1021/acs.jctc.5b00783] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
| | | | - A. Daniel Boese
- Department
of Chemistry, Physical and Theoretical Chemistry, University of Graz, Heinrichstraße 28/IV, 8010 Graz, Austria
- Department
of Chemistry, University of Potsdam, Karl-Liebknecht-Straße 24-25, 14476 Potsdam, Germany
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Dupont C, Dumont É, Jacquemin D. Superior performance of range-separated hybrid functionals for describing σ* ← σ UV-vis signatures of three-electron two-center anions. J Phys Chem A 2012; 116:3237-46. [PMID: 22376324 DOI: 10.1021/jp211875r] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
We assess the efficiency of density functionals for the description of UV-vis signatures of temporary anions featuring a three-electron two-center bond, along a representative set of systems ranging from (pseudo)dihalides to disulfide radical anions (dimethyl disulfide and lipoate). While BH&HLYP and B3LYP have been predominantly applied to perform such simulations so far, we outline the significantly improved performance of several recently proposed functionals, including range-separated hybrids for the computation of these specific vertical transitions.
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Affiliation(s)
- Céline Dupont
- Université de Lyon, Institut de Chimie de Lyon, CNRS, Ecole normale supérieure de Lyon, 46 allée d'Italie, 69364 Lyon Cedex 07, France
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Dumont É, Laurent AD, Assfeld X, Jacquemin D. Performances of recently-proposed functionals for describing disulfide radical anions and similar systems. Chem Phys Lett 2011. [DOI: 10.1016/j.cplett.2010.11.062] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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9
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How does microhydration impact on structure, spectroscopy and formation of disulfide radical anions? An ab initio investigation on dimethyldisulfide. Chem Phys Lett 2009. [DOI: 10.1016/j.cplett.2009.09.079] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Dumont É, Laurent AD, Loos PF, Assfeld X. Analyzing the Selectivity and Successiveness of a Two-Electron Capture on a Multiply Disulfide-Linked Protein. J Chem Theory Comput 2009; 5:1700-8. [DOI: 10.1021/ct900093h] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
- Élise Dumont
- Laboratoire de Chimie, UMR 5182 CNRS École Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon Cedex 07, France, and Équipe de Chimie et Biochimie Théoriques, UMR 7565 CNRS-UHP, Institut Jean Barriol (FR CNRS 2843), Faculté des Sciences et Techniques, Nancy-Université, B.P. 70239, 54506 Vandoeuvre-lès-Nancy, France
| | - Adèle D. Laurent
- Laboratoire de Chimie, UMR 5182 CNRS École Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon Cedex 07, France, and Équipe de Chimie et Biochimie Théoriques, UMR 7565 CNRS-UHP, Institut Jean Barriol (FR CNRS 2843), Faculté des Sciences et Techniques, Nancy-Université, B.P. 70239, 54506 Vandoeuvre-lès-Nancy, France
| | - Pierre-François Loos
- Laboratoire de Chimie, UMR 5182 CNRS École Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon Cedex 07, France, and Équipe de Chimie et Biochimie Théoriques, UMR 7565 CNRS-UHP, Institut Jean Barriol (FR CNRS 2843), Faculté des Sciences et Techniques, Nancy-Université, B.P. 70239, 54506 Vandoeuvre-lès-Nancy, France
| | - Xavier Assfeld
- Laboratoire de Chimie, UMR 5182 CNRS École Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon Cedex 07, France, and Équipe de Chimie et Biochimie Théoriques, UMR 7565 CNRS-UHP, Institut Jean Barriol (FR CNRS 2843), Faculté des Sciences et Techniques, Nancy-Université, B.P. 70239, 54506 Vandoeuvre-lès-Nancy, France
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Gauduel Y, Glinec Y, Malka V. Femtoradical events in aqueous molecular environments: the tenuous borderline between direct and indirect radiation damages. ACTA ACUST UNITED AC 2008. [DOI: 10.1088/1742-6596/101/1/012004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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12
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Fourré I, Silvi B. What can we learn from two-center three-electron bonding with the topological analysis of ELF? HETEROATOM CHEMISTRY 2007. [DOI: 10.1002/hc.20325] [Citation(s) in RCA: 48] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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