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Oh YH, Lee SY, Kong X, Oh HB, Lee S. Thermodynamic Reversal and Structural Correlation of 24-Crown-8/Protonated Tryptophan and 24-Crown 8/Protonated Serine Noncovalent Complexes in the Gas Phase vs in Solution: Quantum Chemical Analysis. ACS OMEGA 2024; 9:23793-23801. [PMID: 38854571 PMCID: PMC11154897 DOI: 10.1021/acsomega.4c01782] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Revised: 05/14/2024] [Accepted: 05/17/2024] [Indexed: 06/11/2024]
Abstract
We investigate the structures of 24-crown-8/H+/l-tryptophan (CR/TrpH+) and 24-crown-8/H+/l-serine (CR/SerH+) noncovalent host-guest complex both in the gas phase and in an aqueous solution by quantum chemical methods. The Gibbs free energies of the complex in the two phases are calculated to determine the thermodynamically most favorable conformer in each phase. Our predictions indicate that both the carboxyl and the ammonium in CR/TrpH+ and the ammonium in the CR/SerH+ complexes in the lowest Gibbs free energy configurations form hydrogen bonds (H-bonds) with the CR host in the gas phase, while the conformer with the "naked" (devoid of H-bond with the CR host) -CO2H (and/or -OH) is much less favorable (Gibbs free energy higher by >3.6 kcal/mol). In the solution phase, however, a "thermodynamic reversal" occurs, making the higher Gibbs free energy gas-phase CR/TrpH+ and CR/SerH+ conformers thermodynamically more favorable under the influence of solvent molecules. Consequently, the global minimum Gibbs free energy structure in solution is structurally correlated with the thermodynamically much less gas-phase conformer. Discussions are provided concerning the possibility of elucidating host-guest-solvent interactions in solution from the gas-phase host-guest configurations in molecular detail.
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Affiliation(s)
- Young-Ho Oh
- Department
of Chemistry, Konkuk University, Seoul 05029, Republic of Korea
- Department
of Applied Chemistry, Kyung Hee University, Gyeonggi 17104, Republic of Korea
| | - So Yeon Lee
- Department
of Chemistry, Sogang University, Seoul 121-742, Republic of Korea
| | - Xianglei Kong
- State
Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center
for New Organic Matter, and Tianjin Key Laboratory of Biosensing and
Molecular Recognition, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Han Bin Oh
- Department
of Chemistry, Sogang University, Seoul 121-742, Republic of Korea
| | - Sungyul Lee
- Department
of Applied Chemistry, Kyung Hee University, Gyeonggi 17104, Republic of Korea
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2
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Kou M, Oh YH, Lee S, Kong X. Distinguishing gas phase lactose and lactulose complexed with sodiated L-arginine by IRMPD spectroscopy and DFT calculations. Phys Chem Chem Phys 2023; 25:25116-25121. [PMID: 37676638 DOI: 10.1039/d3cp03406b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/08/2023]
Abstract
We present the origin of the observed differentiation of lactose and lactulose achieved by complexation with sodiated L-arginine (ArgNa+). We find that the infrared multiphoton dissociation (IRMPD) bands in 3600-3650 and >3650 cm-1 regimes for gas phase lactose and lactulose, respectively, vanish when forming host-guest complexes with ArgNa+. We interpret these differences in the IRMPD spectra by scrutinizing the interactions between the functional groups (guanidium, -CO2-Na+) in ArgNa+ and -OHs in lactose/lactulose. Our calculated structures and infrared spectra of lactose/ArgNa+ and lactulose/ArgNa+ host-guest pairs indicate that the functional groups interact with the low- and high-frequency -OH stretch modes of lactose and lactulose, respectively, in the 3600-3720 cm-1 window.
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Affiliation(s)
- Min Kou
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, and Tianjin Key Laboratory of Biosensing and Molecular Recognition, College of Chemistry, Nankai University, Tianjin 300071, China.
| | - Young-Ho Oh
- Department of Applied Chemistry, Kyung Hee University, Gyeonggi 17104, Republic of Korea.
| | - Sungyul Lee
- Department of Applied Chemistry, Kyung Hee University, Gyeonggi 17104, Republic of Korea.
| | - Xianglei Kong
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, and Tianjin Key Laboratory of Biosensing and Molecular Recognition, College of Chemistry, Nankai University, Tianjin 300071, China.
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3
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Le Barbu-Debus K, Pérez-Mellor A, Lepère V, Zehnacker A. How change in chirality prevents β-amyloid type interaction in a protonated cyclic dipeptide dimer. Phys Chem Chem Phys 2022; 24:19783-19791. [PMID: 35969161 DOI: 10.1039/d2cp03110h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
The protonated dimers of the diketopiperazine dipeptide cyclo (LPhe-LHis) and cyclo (LPhe-DHis) are studied by laser spectroscopy combined with mass spectrometry to shed light on the influence of stereochemistry on the clustering propensity of cyclic dipeptides. The marked spectroscopic differences experimentally observed in the hydride stretch region are well accounted for by the results of DFT calculations. Both diastereomeric protonated dimers involve a strong ionic hydrogen bond from the protonated imidazole ring of one monomer to the neutral imidazole nitrogen of the other. While this strong interaction is accompanied by a single NH⋯O hydrogen bond between the amide functions of the two moieties for the protonated dimer of cyclo (LPhe-DHis), that of cyclo (LPhe-LHis) involves two NH⋯O interactions, forming the motif of an antiparallel β sheet. Therefore, a change in chirality of the residue prevents the formation of the β sheet pattern observed in the amyloid type aggregation. These results emphasize the peculiar role of the histidine residue in peptide structure and interaction.
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Affiliation(s)
- Katia Le Barbu-Debus
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Saclay, F-91405 Orsay, France.
| | - Ariel Pérez-Mellor
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Saclay, F-91405 Orsay, France.
| | - Valéria Lepère
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Saclay, F-91405 Orsay, France.
| | - Anne Zehnacker
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Saclay, F-91405 Orsay, France.
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4
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Quesada-Moreno MM, Fatima M, Medel R, Pérez C, Schnell M. Sniffing out camphor: the fine balance between hydrogen bonding and London dispersion in the chirality recognition with α-fenchol. Phys Chem Chem Phys 2022; 24:12849-12859. [PMID: 35532923 DOI: 10.1039/d2cp00308b] [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
Binary complexes between the chiral monoterpenoids camphor and α-fenchol were explored with vibrational and rotational jet spectroscopy as well as density functional theory in order to explore how chirality can influence the binding preferences in gas-phase complexes. The global minimum structures of the two diastereomers were assigned. It is found that chirality recognition leads to different compromises in the fine balance between intermolecular interactions. While one isomer features a stronger hydrogen bond, the other one is more tightly arranged and stabilized by larger London dispersion interactions. These new spectroscopic results help understand the influence of chirality in molecular aggregation and unveil the kind of interactions involved between a chiral alcohol and a chiral ketone with large dispersion contributions.
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Affiliation(s)
- María Mar Quesada-Moreno
- Deutsches Elektronen-Synchrotron DESY, Notkestraße 85, 22607 Hamburg, Germany. .,Departamento de Química Inorgánica, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071, Granada, Spain
| | - Mariyam Fatima
- Deutsches Elektronen-Synchrotron DESY, Notkestraße 85, 22607 Hamburg, Germany. .,I. Institute of Physics, Universität zu Köln, Zülpicher Straße 77, 50937 Köln, Germany
| | - Robert Medel
- Institut für Physikalische Chemie, Universität Göttingen, Tammannstr. 6, D-37077 Göttingen, Germany.
| | - Cristóbal Pérez
- Deutsches Elektronen-Synchrotron DESY, Notkestraße 85, 22607 Hamburg, Germany. .,Departamento de Química Física y Química Inorgánica, Facultad de Ciencias & I.U. CINQUIMA, Universidad de Valladolid, E-47011 Valladolid, Spain
| | - Melanie Schnell
- Deutsches Elektronen-Synchrotron DESY, Notkestraße 85, 22607 Hamburg, Germany. .,Christian-Albrechts-Universität zu Kiel, Institut für Physikalische Chemie, Max-Eyth-Straße 1, 24118 Kiel, Germany.
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5
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Unveiling host-guest-solvent interactions in solution by identifying highly unstable host-guest configurations in thermal non-equilibrium gas phase. Sci Rep 2022; 12:8169. [PMID: 35581255 PMCID: PMC9114120 DOI: 10.1038/s41598-022-12226-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Accepted: 05/05/2022] [Indexed: 11/09/2022] Open
Abstract
We propose a novel scheme of examining the host-guest-solvent interactions in solution from their gas phase structures. By adopting the permethylated β-cyclodextrin (perm β-CD)-protonated L-Lysine non-covalent complex as a prototypical system, we present the infrared multiple photon dissociation (IRMPD) spectrum of the gas phase complex produced by electrospray ionization technique. In order to elucidate the structure of perm β-CD)/LysH+ complex in the gas phase, we carry out quantum chemical calculations to assign the two strong peaks at 3,340 and 3,560 cm-1 in the IRMPD spectrum, finding that the carboxyl forms loose hydrogen bonding with the perm β-CD, whereas the ammonium group of L-Lysine is away from the perm β-CD unit. By simulating the structures of perm β-CD/H+/L-Lysine complex in solution using the supramolecule/continuum model, we find that the extremely unstable gas phase structure corresponds to the most stable conformer in solution.
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6
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Hirata K, Mori Y, Ishiuchi SI, Fujii M, Zehnacker A. Chiral discrimination between tyrosine and β-cyclodextrin revealed by cryogenic ion trap infrared spectroscopy. Phys Chem Chem Phys 2020; 22:24887-24894. [PMID: 32914820 DOI: 10.1039/d0cp02968h] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Complexes of permethylated β-cyclodextrin (β-MCD) with the two enantiomers of protonated tyrosine (l- and d-TyrH+) are studied by cryogenic ion trap infrared photo-dissociation spectroscopy. The vibrational spectra in the OH/NH stretch and fingerprint regions are assigned based on density functional theory calculations. The spectrum of both l- and d-TyrH+ complexes contains features characteristic of a first structure with ammonium and acid groups of the amino acid simultaneously interacting with the β-MCD, the phenolic OH remaining free. A second structure involving additional interaction between the phenolic OH and the β-MCD is observed only for the complex with d-TyrH+. The larger abundance of the d-TyrH+ complex in the mass spectrum is tentatively explained in terms of (1) better insertion of d-TyrH+ within the cavity with the hydrophobic aromatic moiety less exposed to hydrophilic solvent molecules and (2) a stiff structure involving three interaction points, namely the ammonium, the phenolic OH and the carboxylic acid OH, which is not possible for the complex with l-TyrH+. The recognition process does not occur through size effects that induce complementarity to the host molecule but specific interactions. These results provide a comprehensive understanding of how the cyclodextrin recognises a chiral biomolecule.
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Affiliation(s)
- Keisuke Hirata
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259, Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.
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7
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Homochiral vs. heterochiral sodium core dimers of tartaric acid esters: A mass spectrometry and vibrational spectroscopy study. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2019.127583] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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8
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Poline M, Rebrov O, Larsson M, Zhaunerchyk V. Theoretical studies of infrared signatures of proton-bound amino acid dimers with homochiral and heterochiral moieties. Chirality 2020; 32:359-369. [PMID: 31943359 DOI: 10.1002/chir.23165] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2019] [Revised: 11/14/2019] [Accepted: 12/16/2019] [Indexed: 01/23/2023]
Abstract
Proton-bound homochiral and heterochiral dimers, X-H+ -X, of five amino acids (X = Ser, Ala, Thr, Phe, and Arg) are investigated theoretically using quantum chemical density functional theory (DFT) calculations and molecular dynamics simulations with the aim to unveil diastereomer-specific mid-infrared (mid-IR) absorption bands in the spectral range of 1000 to 1800 cm-1 . The theoretical calculations performed in this work imply that all systems, except Ala2 H+ , have distinct mid-IR absorption bands in homochiral and heterochiral configurations, which make them appropriate systems to be studied experimentally with mid-IR spectroscopy. We show that intermolecular interaction with the side chain, in the form of hydrogen bonding or cation-π interaction, is necessary for chiral effects to be present in the mid-IR spectra of proton-bound dimers of amino acids. We also report new conformers for Ala2 H+ , Thr2 H+ , Phe2 H+ , and Arg2 H+ , which were not found in earlier studies of these dimers.
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Affiliation(s)
- Mathias Poline
- Department of Physics, Stockholm University, Stockholm, Sweden
| | - Oleksii Rebrov
- Department of Physics, Stockholm University, Stockholm, Sweden
| | - Mats Larsson
- Department of Physics, Stockholm University, Stockholm, Sweden
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9
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Lee SS, Lee JU, Oh JH, Park S, Hong Y, Min BK, Lee HHL, Kim HI, Kong X, Lee S, Oh HB. Chiral differentiation of d- and l-isoleucine using permethylated β-cyclodextrin: infrared multiple photon dissociation spectroscopy, ion-mobility mass spectrometry, and DFT calculations. Phys Chem Chem Phys 2018; 20:30428-30436. [PMID: 30499999 DOI: 10.1039/c8cp05617j] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Chiral differentiation of protonated isoleucine (Ile) using permethylated β-cyclodextrin (perCD) in the gas-phase was studied using infrared multiple photon dissociation (IRMPD) spectroscopy, ion-mobility, and density functional theory (DFT) calculations. The gaseous protonated non-covalent complexes of perCD and d-Ile or l-Ile produced by electrospray ionization were interrogated by laser pulses in the wavenumber region of 2650 to 3800 cm-1. The IRMPD spectra showed remarkably different IR spectral features for the d-Ile or l-Ile and perCD non-covalent complexes. However, drift-tube ion-mobility experiments provided only a small difference in their collision cross-sections, and thus a limited separation of the d- and l-Ile complexes. DFT calculations revealed that the chiral distinction of the d- and l-complexes by IRMPD spectroscopy resulted from local interactions of the protonated Ile with perCD. Furthermore, the theoretical results showed that the IR absorption spectra of higher energy conformers (by ∼13.7 kcal mol-1) matched best with the experimentally observed IRMPD spectra. These conformers are speculated to be formed from kinetic-trapping of the solution-phase conformers. This study demonstrated that IRMPD spectroscopy provides an excellent platform for differentiating the subtle chiral difference of a small amino acid in a cyclodextrin-complexation environment; however, drift-tube ion-mobility did not have sufficient resolution to distinguish the chiral difference.
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Affiliation(s)
- Sung-Sik Lee
- Department of Applied Chemistry, Kyung Hee University, Gyeonggi 17104, Republic of Korea.
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10
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Chen X, Kang Y, Zeng S. Analysis of stereoisomers of chiral drug by mass spectrometry. Chirality 2018; 30:609-618. [DOI: 10.1002/chir.22833] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Revised: 01/02/2018] [Accepted: 01/15/2018] [Indexed: 01/07/2023]
Affiliation(s)
- Xiaolei Chen
- Institute of Drug Metabolism and Pharmaceutical Analysis, Zhejiang Province Key Laboratory of Anti-Cancer Drug Research; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou Zhejiang China
| | - Yu Kang
- Institute of Drug Metabolism and Pharmaceutical Analysis, Zhejiang Province Key Laboratory of Anti-Cancer Drug Research; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou Zhejiang China
| | - Su Zeng
- Institute of Drug Metabolism and Pharmaceutical Analysis, Zhejiang Province Key Laboratory of Anti-Cancer Drug Research; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou Zhejiang China
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11
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Lee SS, Park S, Hong Y, Lee JU, Kim JH, Yoon D, Kong X, Lee S, Oh HB. Chiral differentiation of d- and l-alanine by permethylated β-cyclodextrin: IRMPD spectroscopy and DFT methods. Phys Chem Chem Phys 2018; 19:14729-14737. [PMID: 28540941 DOI: 10.1039/c7cp01085k] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The gaseous chiral differentiation of alanine by permethylated β-cyclodextrin was studied using IRMPD spectroscopy and density functional theory calculations. The protonated non-covalent complexes of permethylated β-cyclodextrin and d- or l-alanine were mass-selected and investigated by IR laser pulses in the wavelength region of 2650-3800 cm-1. The remarkably different features of the IRMPD spectra for d- and l-alanine are described, and their origin is elucidated by quantum chemical calculations. We show that the differentiation of the experimentally observed spectral features is the result of different local interactions of d- and l-alanine with permethylated β-cyclodextrin. We also assign the extremely high-frequency (>3700 cm-1) bands in the observed spectra to the stretch motions of completely isolated alanine -OH groups.
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Affiliation(s)
- Sung-Sik Lee
- Department of Applied Chemistry, Kyung Hee University, Gyeonggi 446-701, Republic of Korea.
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12
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Klyne J, Bouchet A, Ishiuchi SI, Fujii M, Schneider M, Baldauf C, Dopfer O. Probing chirality recognition of protonated glutamic acid dimers by gas-phase vibrational spectroscopy and first-principles simulations. Phys Chem Chem Phys 2018; 20:28452-28464. [DOI: 10.1039/c8cp05855e] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
We characterize stereospecific aspects of homochiral and heterochiral dimers of glutamic acid by infrared spectroscopy and first-principles molecular dynamics simulations.
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Affiliation(s)
- Johanna Klyne
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
| | - Aude Bouchet
- Laboratory for Chemistry and Life Science
- Institute of Innovation Research
- Tokyo Institute of Technology
- Yokohama
- Japan
| | - Shun-ichi Ishiuchi
- Laboratory for Chemistry and Life Science
- Institute of Innovation Research
- Tokyo Institute of Technology
- Yokohama
- Japan
| | - Masaaki Fujii
- Laboratory for Chemistry and Life Science
- Institute of Innovation Research
- Tokyo Institute of Technology
- Yokohama
- Japan
| | | | - Carsten Baldauf
- Fritz-Haber-Institut der MPG
- 14195 Berlin
- Germany
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie
- Universität Leipzig
| | - Otto Dopfer
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
- Tokyo Tech World Research Hub Initiative (WRHI)
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13
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Yu X, Yao ZP. Chiral recognition and determination of enantiomeric excess by mass spectrometry: A review. Anal Chim Acta 2017; 968:1-20. [DOI: 10.1016/j.aca.2017.03.021] [Citation(s) in RCA: 60] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2016] [Revised: 03/15/2017] [Accepted: 03/16/2017] [Indexed: 10/19/2022]
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14
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Rebrov O, Kulyk K, Ryding M, Thomas RD, Uggerud E, Larsson M. Chirally sensitive collision induced dissociation of proton-bound diastereomeric complexes of tryptophan and 2-butanol. Chirality 2017; 29:115-119. [PMID: 28332282 DOI: 10.1002/chir.22679] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2016] [Revised: 10/01/2017] [Accepted: 10/02/2017] [Indexed: 02/05/2023]
Abstract
In this work we report the stereo-dependent collision-induced dissociation (CID) of proton-bound complexes of tryptophan and 2-butanol. The dissociation efficiency was measured as a function of collision energy in single collision mode. The homochiral complex was found to be less stable against CID than a heterochiral one. Additional gas dependence measurements were performed with diastereomeric complexes that confirm the findings.
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Affiliation(s)
- Oleksii Rebrov
- Department of Physics, AlbaNova University Center, Stockholm University, Stockholm, Sweden
| | - Kostiantyn Kulyk
- Department of Physics, AlbaNova University Center, Stockholm University, Stockholm, Sweden
| | - Mauritz Ryding
- Department of Chemistry, University of Oslo, Oslo, Norway
| | - Richard D Thomas
- Department of Physics, AlbaNova University Center, Stockholm University, Stockholm, Sweden
| | - Einar Uggerud
- Department of Chemistry, University of Oslo, Oslo, Norway
| | - Mats Larsson
- Department of Physics, AlbaNova University Center, Stockholm University, Stockholm, Sweden
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15
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Kumar S, Lucas B, Fayeton J, Scuderi D, Alata I, Broquier M, Barbu-Debus KL, Lepère V, Zehnacker A. Photofragmentation mechanisms in protonated chiral cinchona alkaloids. Phys Chem Chem Phys 2016; 18:22668-77. [DOI: 10.1039/c6cp04041a] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Photo-fragmentation of protonated alkaloids results in C8–C9 cleavage accompanied or not by hydrogen migration, with a stereochemistry-dependent branching ratio.
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Affiliation(s)
- Sunil Kumar
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
| | - Bruno Lucas
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
| | - Jacqueline Fayeton
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
| | - Debora Scuderi
- Univ. Paris-Sud
- Laboratoire de Chimie Physique
- UMR8000, and CNRS
- Orsay
- France
| | - Ivan Alata
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
| | - Michel Broquier
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
| | - Katia Le Barbu-Debus
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
| | - Valeria Lepère
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
| | - Anne Zehnacker
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- France
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16
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Lepere V, Le Barbu-Debus K, Clavaguéra C, Scuderi D, Piani G, Simon AL, Chirot F, MacAleese L, Dugourd P, Zehnacker A. Chirality-dependent structuration of protonated or sodiated polyphenylalanines: IRMPD and ion mobility studies. Phys Chem Chem Phys 2015; 18:1807-17. [PMID: 26679547 DOI: 10.1039/c5cp06768e] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Ion mobility experiments are combined with Infra-Red Multiple Photon Dissociation (IRMPD) spectroscopy and quantum chemical calculations for assessing the role of chirality in the structure of protonated and sodiated di- or tetra-peptides. Sodiated systems show a strong chirality dependence of the competition between Na(+)O and Na(+)π interactions. Chirality effects are more subtle in protonated systems and manifest themselves by differences in the secondary interactions such hydrogen bonds between neutral groups or those involving the aromatic rings.
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Affiliation(s)
- Valeria Lepere
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91405 Orsay, France.
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17
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Salpin JY, Scuderi D. Structure of protonated thymidine characterized by infrared multiple photon dissociation and quantum calculations. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2015; 29:1898-1904. [PMID: 26411511 DOI: 10.1002/rcm.7296] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Revised: 07/23/2015] [Accepted: 07/29/2015] [Indexed: 06/05/2023]
Abstract
RATIONALE Many fundamental studies are motivated by the probable relationship between the presence of rare enol tautomers of nucleobases and point mutation developing during nucleic acid replication. The evaluation of the tautomeric behaviour of nucleobases is therefore of fundamental importance. This can be probed in the gas phase by combining action spectroscopy and mass spectrometry. METHODS Experimental Infrared Multiple Photon Dissociation spectra in the fingerprint region of electrospray-generated and subsequently selected ions were recorded at the CLIO free electron laser (FEL) facility, by coupling the FEL to a quadrupole ion trap, and compared to calculated harmonic vibrational infrared spectra of the different low-lying isomers computed at the B3LYP/6-31++G(d,p) level. Relative energies were refined using the extended basis set 6-311++G(3df,2p). RESULTS The Density Functional Theory (DFT) study shows that, as for protonated thymine, the global energy minimum of protonated thymidine corresponds to an enol tautomer, whose infrared absorption spectrum is found to be in very good agreement with the experimental IRMPD spectrum. A very weak IRMPD signal observed at ~1780 cm(-1) is very likely the signature of an oxo tautomer. Consequently, as for thymine, protonated thymidine generated by electrospray corresponds to a mixture of at least two tautomeric forms. CONCLUSIONS Tautomerization can be characterized by IRMPD spectroscopy. Interestingly, the dominant enolic tautomeric form(s) presently observed cannot be directly generated from the most stable neutral tautomer of the thymine residue.
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Affiliation(s)
- Jean-Yves Salpin
- Université d'Evry Val d'Essonne, Laboratoire Analyse et Modélisation pour la Biologie et l'Environnement, Boulevard François Mitterrand, 91025, Evry, France
- CNRS-UMR 8587
| | - Debora Scuderi
- Université Paris Sud Orsay, Laboratoire de Chimie Physique, Bâtiment 350, 91405, Orsay, France
- CNRS - UMR 8000
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18
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Alata I, Scuderi D, Lepere V, Steinmetz V, Gobert F, Thiao-Layel L, Le Barbu-Debus K, Zehnacker-Rentien A. Exotic Protonated Species Produced by UV-Induced Photofragmentation of a Protonated Dimer: Metastable Protonated Cinchonidine. J Phys Chem A 2015; 119:10007-15. [DOI: 10.1021/acs.jpca.5b06506] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Ivan Alata
- Institut des Sciences
Moléculaires d’Orsay (ISMO), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
| | - Debora Scuderi
- Laboratoire de
Chimie Physique (LCP), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
| | - Valeria Lepere
- Institut des Sciences
Moléculaires d’Orsay (ISMO), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
| | - Vincent Steinmetz
- Laboratoire de
Chimie Physique (LCP), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
| | - Fabrice Gobert
- Laboratoire de
Chimie Physique (LCP), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
| | - Loïc Thiao-Layel
- Laboratoire de
Chimie Physique (LCP), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
| | - Katia Le Barbu-Debus
- Institut des Sciences
Moléculaires d’Orsay (ISMO), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
| | - Anne Zehnacker-Rentien
- Institut des Sciences
Moléculaires d’Orsay (ISMO), CNRS, Univ Paris-Sud, Université Paris Saclay, F-91405 Orsay, France
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Calvo F. Atomistic Modeling of IR Action Spectra Under Circularly Polarized Electromagnetic Fields: Toward Action VCD Spectra. Chirality 2015; 27:253-61. [DOI: 10.1002/chir.22421] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2014] [Revised: 11/06/2014] [Accepted: 11/28/2014] [Indexed: 11/12/2022]
Affiliation(s)
- Florent Calvo
- Laboratoire Interdisciplinaire de Physique; Université Joseph Fourier; Grenoble France
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20
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Bouchet A, Klyne J, Piani G, Dopfer O, Zehnacker A. Diastereo-specific conformational properties of neutral, protonated and radical cation forms of (1R,2S)-cis- and (1R,2R)-trans-amino-indanol by gas phase spectroscopy. Phys Chem Chem Phys 2015; 17:25809-21. [DOI: 10.1039/c5cp00576k] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The effects of ionisation and protonation on the geometric and electronic structure of a prototypical aromatic amino-alcohol with two chiral centres are revealed by IR and UV spectroscopy.
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Affiliation(s)
- Aude Bouchet
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | - Johanna Klyne
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | - Giovanni Piani
- CNRS
- Institut des Sciences Moléculaires d’Orsay (ISMO/UMR8214) and Univ. Paris Sud
- Orsay
- France
- CLUPS (Centre Laser de l’Université Paris Sud/LUMAT FR 2764)
| | - Otto Dopfer
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | - Anne Zehnacker
- CNRS
- Institut des Sciences Moléculaires d’Orsay (ISMO/UMR8214) and Univ. Paris Sud
- Orsay
- France
- CLUPS (Centre Laser de l’Université Paris Sud/LUMAT FR 2764)
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