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Marlton SJP, Trevitt A. Laser Photodissocation, Action Spectroscopy and Mass Spectrometry Unite to Detect and Separate Isomers. Chem Commun (Camb) 2022; 58:9451-9467. [DOI: 10.1039/d2cc02101c] [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
The separation and detection of isomers remains a challenge for many areas of mass spectrometry. This article highlights laser photodissociation and ion mobility strategies that have been deployed to tackle...
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Takeda N, Hirata K, Tsuruta K, Santis GD, Xantheas SS, Ishiuchi SI, Fujii M. Gas phase protonated nicotine is a mixture of pyridine- and pyrrolidine-protonated conformers: implications for its native structure in the nicotinic acetylcholine receptor. Phys Chem Chem Phys 2021; 24:5786-5793. [PMID: 34939632 DOI: 10.1039/d1cp05175j] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
The infrared (IR) spectra of gas phase protonated nicotine has been measured in the never-before probed N-H "fingerprint region" (3200-3500 cm-1). The protonated molecules generated by an electrospray source are thermalized in the first ion trap with water vapor and He gas at a pre-determined temperature prior to being probed by IR spectroscopy in the second ion trap at 4 K. The IR spectra exhibit two N-H stretching bands which are assigned to the pyridine and pyrrolidine protomers with the aid of high-level electronic structure calculations. This finding is in sharp contrast to previous spectroscopic studies that suggested a single population of the pyridine protomer. The relative populations of the two protomers vary by changing the temperature of the thermalizing trap from 180-300 K. The relative conformer populations at 240 K and 300 K are well reproduced by the theoretical calculations, unequivocally determining that gas phase nicotine is a 3 : 2 mixture of both pyridine and pyrrolidine protomers at room temperature. The thermalizing anhydrous vapor does not result in any population change. It rather demonstrates the catalytic role of water in achieving equilibrium between the two protomers. The combination of IR spectroscopy and electronic structure calculations establish the small energy difference between the pyridine and pyrrolidine protomers in nicotine. One of the gas phase nicotine pyrrolidine protomers has the closest conformational resemblance among all low-lying energy isomers with the X-ray structure of nicotine in the nicotinic acetylcholine receptor (nAChR).
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Affiliation(s)
- Naoya Takeda
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan. .,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, Kanagawa, 226-8503, Japan
| | - 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. .,Department of Chemistry, School of Science, Tokyo Institute of Technology, 2-12-1 4259 Ookayama, Meguro-ku, Tokyo, 152-8550, Japan. .,Tokyo Tech World Research Hub Initiative (WRHI), Institute of Innovation Research, Tokyo Institute of Technology, 4259, Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.
| | - Kazuya Tsuruta
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan. .,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, Kanagawa, 226-8503, Japan
| | - Garrett D Santis
- Department of Chemistry, University of Washington, Seattle, WA 98195, USA
| | - Sotiris S Xantheas
- Tokyo Tech World Research Hub Initiative (WRHI), Institute of Innovation Research, Tokyo Institute of Technology, 4259, Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan. .,Department of Chemistry, University of Washington, Seattle, WA 98195, USA.,Advanced Computing, Mathematics and Data Division, Pacific Northwest National Laboratory, 902 Battelle Boulevard, P.O. Box 999, MS K1-83, Richland, WA 99352, USA
| | - Shun-Ichi Ishiuchi
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan. .,Department of Chemistry, School of Science, Tokyo Institute of Technology, 2-12-1 4259 Ookayama, Meguro-ku, Tokyo, 152-8550, Japan. .,Tokyo Tech World Research Hub Initiative (WRHI), Institute of Innovation Research, Tokyo Institute of Technology, 4259, Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.
| | - Masaaki Fujii
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan. .,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, Kanagawa, 226-8503, Japan.,Tokyo Tech World Research Hub Initiative (WRHI), Institute of Innovation Research, Tokyo Institute of Technology, 4259, Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.
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Menard KJ, Martens J, Fridgen TD. A vibrational spectroscopic and computational study of the structures of protonated imidacloprid and its fragmentation products in the gas phase. Phys Chem Chem Phys 2021; 23:3377-3388. [PMID: 33506235 DOI: 10.1039/d0cp06069k] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Infrared multiple photon dissociation (IRMPD) spectroscopy experiments in the 600-2000 cm-1 region and computational chemistry studies were combined with the aim of elucidating the structures of protonated imidacloprid (pIMI), and its unimolecular decomposition products. The computed IR spectra for the lowest energy structures for pIMI as well as for protonated desnitrosoimidacloprid, corresponding to the loss of NO radical (pIMI-NO), and protonated imidacloprid urea corresponding to the loss of N2O (pIMIU) were found to reproduce the experimental IRMPD spectrum quite well. The complex IRMPD spectrum for protonated desnitroimidaclpride (pDIMI), resulting from the loss of NO2 radical from pIMI, was explained as a contribution from several computed structures, including those involving simple loss of NO2 radical and some isomerization. However, based on a comparison of the computed IR spectrum for the lowest energy structure of pDIMI and the IRMPD spectrum, it was concluded that the lowest energy structure is a minor contributor to the experimental spectrum. This observation is rationalized as being due to the energy requirement for isomerization to the lowest energy structure, being substantially higher than that for simple loss of NO2 radical. Experimental mass spectrometry fragmentation results indicated that the loss of N, O2, H was the result of a loss of NO radical followed by loss of OH radical. A comparison of the experimental IRMPD and computed IR spectra revealed that following NO radical loss, the structure entailing a hydride shift from the methylene bridge to the guanidine moiety followed by OH radical elimination, generated the best match with the experimental IRMPD spectrum. This was consistent with the computed potential energy surfaces showing this structure as having the lowest energy requirement.
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Affiliation(s)
- Kelsey J Menard
- Department of Chemistry, Memorial University of Newfoundland Faculty of Science, Canada.
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Suzuki K, Katayama K, Sumii Y, Nakagita T, Suno R, Tsujimoto H, Iwata S, Kobayashi T, Shibata N, Kandori H. Vibrational analysis of acetylcholine binding to the M 2 receptor. RSC Adv 2021; 11:12559-12567. [PMID: 35423811 PMCID: PMC8696876 DOI: 10.1039/d1ra01030a] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2021] [Accepted: 03/13/2021] [Indexed: 01/14/2023] Open
Abstract
The M2 muscarinic acetylcholine receptor (M2R) is a prototypical G protein-coupled receptor (GPCR) that responds to acetylcholine (ACh) and mediates various cellular responses in the nervous system. We recently established Attenuated Total Reflection-Fourier Transform Infrared (ATR-FTIR) spectroscopy for ligand binding to M2R reconstituted in lipid membranes, paving the way to understand the mechanism in atomic detail. However, the obtained difference FTIR spectra upon ligand binding contained ligand, protein, lipid, and water signals, so a vibrational assignment was needed for a thorough understanding. In the present study, we compared difference FTIR spectra between unlabeled and 2-13C labeled ACh, and assigned the bands at 1741 and 1246 cm−1 as the C
Created by potrace 1.16, written by Peter Selinger 2001-2019
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O and C–O stretches of ACh, respectively. The CO stretch of ACh in M2R is close to that in aqueous solution (1736 cm−1), and much lower in frequency than the free CO stretch (1778–1794 cm−1), indicating a strong hydrogen bond, which probably formed with N4046.52. We propose that a water molecule bridges ACh and N4046.52. The other ACh terminal is positively charged, and it interacts with negatively charged D1033.32. The present study revealed that D1033.32 is deprotonated (negatively charged) in both ACh-bound and free states, a suggested mechanism to stabilize the negative charge of D1033.32 in the free M2R. We recently reported difference FTIR spectra upon binding of Ach to M2R.![]()
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Bilonda MK, Mammino L. Computational studies of biologically active alkaloids of plant origin: an overview. PHYSICAL SCIENCES REVIEWS 2020. [DOI: 10.1515/psr-2019-0132] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Computational studies nowadays constitute a crucial source of information for drug development, because they provide information on many molecular properties and also enable predictions of the properties of not-yet-synthesized compounds. Alkaloids are a vast group of natural products exhibiting a variety of biological activities, many of which are interesting for drug development. On the other hand, computational studies of biologically active alkaloids have so far mostly focused on few particularly relevant or “popular” molecules, such as quinine, caffeine, or cocaine, with only few works on the other molecules. The present work offers an overview of existing computational studies on alkaloid molecules, from the earliest ones to the most recent, and considering all the theoretical approaches with which studies have been performed (both quantum mechanics and molecular dynamics). The considered studies are grouped according to their objectives and outcomes, such as conformational analysis of alkaloid molecules, effects of selected solvents on their properties, docking studies aimed at better understanding of the interactions between alkaloid molecules and biological targets, studies focusing on structure activity relationships, and computational studies performed to confirm experimental results. It is concluded that it would be important that computational studies on many other alkaloid molecules are performed and their results made available, covering their different classes as well as the variety of their biological activities, to attain better understanding of the properties not only of individual molecules, but also of groups of related molecules and of the overall alkaloids family.
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Affiliation(s)
- Mireille K. Bilonda
- School of Mathematical and Natural Sciences, University of Venda , Thohoyandou , South Africa
- Faculty of Science, University of Kinshasa , Kinshasa , Democratic Republic of Congo
| | - Liliana Mammino
- School of Mathematical and Natural Sciences, University of Venda , Thohoyandou , South Africa
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Robertson PA, Villani L, Robertson EG. Conformer Specific Ultraviolet and Infrared Detection of Nicotine in the Vapor Phase. J Phys Chem A 2019; 123:10152-10157. [PMID: 31644291 DOI: 10.1021/acs.jpca.9b09113] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A gas-phase electronic spectrum of nicotine in a supersonic expansion has been recorded using two-color resonant two-photon ionization spectroscopy. Efficient photoionization was achievable only via the pyridine chromophore owing to poor Franck-Condon overlap in the N-methylpyrrolidine moiety. Two conformers of nicotine have been characterized and assigned by infrared-ultraviolet (IR-UV) ion depletion and IR-UV hole-burning spectroscopy, in combination with quantum chemical techniques. Trans-A with nitrogen atoms further apart is more stable by 2 kJ mol-1 and the most populated conformer in the supersonic jet, owing this stability to a stronger inter-ring CH···N hydrogen bond than the trans-B counterpart.
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Affiliation(s)
- Patrick A Robertson
- Department of Chemistry and Physics, La Trobe Institute for Molecular Science , La Trobe University , Melbourne , Victoria 3086 , Australia.,School of Chemistry , University of Bristol , Cantock's Close , Bristol BS8 1TS , United Kingdom
| | - Luigi Villani
- Department of Chemistry and Physics, La Trobe Institute for Molecular Science , La Trobe University , Melbourne , Victoria 3086 , Australia
| | - Evan G Robertson
- Department of Chemistry and Physics, La Trobe Institute for Molecular Science , La Trobe University , Melbourne , Victoria 3086 , Australia
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Park YS, Kim Y, Paek K. Specific Encapsulation of Acetylcholine Chloride by a Self-Assembled Molecular Capsule with Sulfonamido Moiety. Org Lett 2019; 21:8300-8303. [PMID: 31560557 DOI: 10.1021/acs.orglett.9b03013] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
New molecular capsule 12, which encapsulates only acetylcholine chloride in the ion-pair form, has been developed. Cavitand 1 with four sulfonamido moieties on the upper rim of tetraimino-cavitand self-assembled to form a stable molecular capsule in the presence of an acetylcholine chloride guest through eight intermolecular -NH···O═S hydrogen bonds, two from each of the four paired sulfonamide units.
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Affiliation(s)
- Yeon Sil Park
- Department of Chemistry , Soongsil University , Seoul 06978 , Korea
| | - Yangryeong Kim
- Department of Chemistry , Soongsil University , Seoul 06978 , Korea
| | - Kyungsoo Paek
- Department of Chemistry , Soongsil University , Seoul 06978 , Korea
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Theoretical modeling of the hydrated serotonin in solution: Insight into intermolecular hydrogen bonding dynamics and spectral shift in the electronic excited states. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2019.111093] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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9
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Marlton SJP, McKinnon BI, Ucur B, Maccarone AT, Donald WA, Blanksby SJ, Trevitt AJ. Selecting and identifying gas-phase protonation isomers of nicotineH+ using combined laser, ion mobility and mass spectrometry techniques. Faraday Discuss 2019; 217:453-475. [DOI: 10.1039/c8fd00212f] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Protonation isomers of gas-phase nicotineH+ are separated and assigned using a combination of FAIMS and UV photodissociation action spectroscopy.
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Affiliation(s)
| | | | - Boris Ucur
- School of Chemistry
- University of Wollongong
- Wollongong
- Australia
| | | | | | - Stephen J. Blanksby
- Central Analytical Research Facility
- Institute for Future Environments
- Queensland University of Technology
- Brisbane
- Australia
| | - Adam J. Trevitt
- School of Chemistry
- University of Wollongong
- Wollongong
- Australia
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Jašíková L, Roithová J. Infrared Multiphoton Dissociation Spectroscopy with Free-Electron Lasers: On the Road from Small Molecules to Biomolecules. Chemistry 2018; 24:3374-3390. [PMID: 29314303 DOI: 10.1002/chem.201705692] [Citation(s) in RCA: 54] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2017] [Indexed: 01/07/2023]
Abstract
Infrared multiphoton dissociation (IRMPD) spectroscopy is commonly used to determine the structure of isolated, mass-selected ions in the gas phase. This method has been widely used since it became available at free-electron laser (FEL) user facilities. Thus, in this Minireview, we examine the use of IRMPD/FEL spectroscopy for investigating ions derived from small molecules, metal complexes, organometallic compounds and biorelevant ions. Furthermore, we outline new applications of IRMPD spectroscopy to study biomolecules.
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Affiliation(s)
- Lucie Jašíková
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 2030, Prague 2, 128 43, Czech Republic
| | - Jana Roithová
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 2030, Prague 2, 128 43, Czech Republic
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Affiliation(s)
- Jae Shin Lee
- Department of Chemistry; Ajou University; Suwon 443-749 Republic of Korea
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12
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Nieto P, Günther A, Berden G, Oomens J, Dopfer O. IRMPD Spectroscopy of Metalated Flavins: Structure and Bonding of Lumiflavin Complexes with Alkali and Coinage Metal Ions. J Phys Chem A 2016; 120:8297-8308. [PMID: 27690438 DOI: 10.1021/acs.jpca.6b08281] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Flavins are a fundamental class of biomolecules, whose photochemical properties strongly depend on their environment and their redox and metalation state. Infrared multiphoton dissociation (IRMPD) spectra of mass-selected isolated metal-lumiflavin ionic complexes (M+LF) are analyzed in the fingerprint range (800-1830 cm-1) to determine the bonding of lumiflavin with alkali (M = Li, Na, K, Cs) and coinage (M = Cu, Ag) metal ions. The complexes are generated in an electrospray ionization source coupled to an ion cyclotron resonance mass spectrometer and the IR free electron laser FELIX. Vibrational and isomer assignments of the IRMPD spectra are accomplished by comparison to quantum chemical calculations at the B3LYP/cc-pVDZ level, yielding structure, binding energy, bonding mechanism, and spectral properties of the complexes. The most stable binding sites identified in the experiments involve metal bonding to the oxygen atoms of the two available CO groups of LF. Hence, CO stretching frequencies are a sensitive indicator of both the metal binding site and the metal bond strength. More than one isomer is observed for M = Li, Na, and K, and the preferred CO binding site changes with the size of the alkali ion. For Cs+LF, only one isomer is identified, although the energies of the two most stable structures differ by less than 7 kJ/mol. While the M+-LF bonds for alkali ions are mainly based on electrostatic forces, substantial covalent contributions lead to stronger bonds for the coinage metal ions. Comparison between lumiflavin and lumichrome reveals substantial differences in the metal binding motifs and interactions due to the different flavin structures.
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Affiliation(s)
- Pablo Nieto
- Institut für Optik und Atomare Physik, Technische Universität Berlin , Hardenbergstrasse 36, D-10623 Berlin, Germany
| | - Alan Günther
- Institut für Optik und Atomare Physik, Technische Universität Berlin , Hardenbergstrasse 36, D-10623 Berlin, Germany
| | - Giel Berden
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory , Toernooiveld 7c, 6525 ED Nijmegen, The Netherlands
| | - Jos Oomens
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory , Toernooiveld 7c, 6525 ED Nijmegen, The Netherlands.,van't Hoff Institute for Molecular Sciences, University of Amsterdam , Science Park 904, 1098XH Amsterdam, The Netherlands
| | - Otto Dopfer
- Institut für Optik und Atomare Physik, Technische Universität Berlin , Hardenbergstrasse 36, D-10623 Berlin, Germany
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Schütz M, Bouchet A, Chiavarino B, Crestoni ME, Fornarini S, Dopfer O. Effects of Aromatic Fluorine Substitution on Protonated Neurotransmitters: The Case of 2-Phenylethylamine. Chemistry 2016; 22:8124-36. [DOI: 10.1002/chem.201600798] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Markus Schütz
- Institut für Optik und Atomare Physik; Technische Universität Berlin; Hardenbergstr. 36 10623 Berlin Germany
| | - Aude Bouchet
- Institut für Optik und Atomare Physik; Technische Universität Berlin; Hardenbergstr. 36 10623 Berlin Germany
| | - Barbara Chiavarino
- Dipartimento di Chimica e Tecnologie del Farmaco; Sapienza Università di Roma “La Sapienza”; P. le A. Moro 5 00185 Roma Italy
| | - Maria Elisa Crestoni
- Dipartimento di Chimica e Tecnologie del Farmaco; Sapienza Università di Roma “La Sapienza”; P. le A. Moro 5 00185 Roma Italy
| | - Simonetta Fornarini
- Dipartimento di Chimica e Tecnologie del Farmaco; Sapienza Università di Roma “La Sapienza”; P. le A. Moro 5 00185 Roma Italy
| | - Otto Dopfer
- Institut für Optik und Atomare Physik; Technische Universität Berlin; Hardenbergstr. 36 10623 Berlin Germany
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Rodríguez Ortega PG, Montejo M, Márquez F, López González JJ. Conformational properties of chiral tobacco alkaloids by DFT calculations and vibrational circular dichroism: (-)-S-anabasine. J Mol Graph Model 2015; 60:169-79. [PMID: 26059478 DOI: 10.1016/j.jmgm.2015.05.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2015] [Revised: 05/15/2015] [Accepted: 05/22/2015] [Indexed: 12/12/2022]
Abstract
A thorough DFT and MM study of the conformational landscape, molecular and electronic structures of (-)-S-anabasine is reported aimed to reveal the mechanism controlling its conformational preference. Although the conformational flexibility and diversity of this system is quite extensive, only two structures are populated both in gas-phase and solution (CCl4 and DMSO). NBO-aided electronic structure analyses performed for the eight conformers representing minima in the potential energy surface of (-)-S-anabasine indicate that both steric and electrostatic factors are determinant in the conformational distribution of the sample in gas phase. Nonetheless, hyperconjugative effects are the key force tipping the balance in the conformational equilibrium between the two main rotamers. Increasing the polarity of the medium (using the IEF-PCM formalism) barely affect the conformational energy profile, although a slight increase in the theoretical population of those structures more affected by electrostatic interactions is predicted. The validity of the theoretical models and calculated conformers populations are endorsed by the accurate reproduction of the IR and VCD spectra (recorded in pure liquid and in CCl4 solution) of the sample (that have been firstly recorded and assigned in the present work) which are consistent with the occurrence of a 2:1 conformational ratio.
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Affiliation(s)
- P G Rodríguez Ortega
- Physical and Analytical Chemistry Department, Experimental Science Faculty, University of Jaén, Campus "Las Lagunillas", Ed. B3, Jaén E-23071, Spain
| | - M Montejo
- Physical and Analytical Chemistry Department, Experimental Science Faculty, University of Jaén, Campus "Las Lagunillas", Ed. B3, Jaén E-23071, Spain.
| | - F Márquez
- Physical and Analytical Chemistry Department, Experimental Science Faculty, University of Jaén, Campus "Las Lagunillas", Ed. B3, Jaén E-23071, Spain
| | - J J López González
- Physical and Analytical Chemistry Department, Experimental Science Faculty, University of Jaén, Campus "Las Lagunillas", Ed. B3, Jaén E-23071, Spain
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Rodríguez Ortega PG, Montejo M, Márquez F, López González JJ. DFT-Aided Vibrational Circular Dichroism Spectroscopy Study of (−)-S-cotinine. Chemphyschem 2015; 16:1416-27. [DOI: 10.1002/cphc.201500018] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2015] [Indexed: 11/07/2022]
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16
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Ly NH, Cho KH, Joo SW. Gold Nanoparticle-based Surface-enhanced Raman Scattering Fe(III) Ion Sensor. B KOREAN CHEM SOC 2015. [DOI: 10.1002/bkcs.10058] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Nguyen Hoang Ly
- Department of Chemistry; Soongsil University; Seoul 156-743 South Korea
| | - Kwang-Hwi Cho
- School of Systems Biomedical Science; Seoul 156-743 Korea
| | - Sang-Woo Joo
- Department of Chemistry; Soongsil University; Seoul 156-743 South Korea
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Ortega PGR, Montejo M, González JJL. Vibrational circular dichroism and theoretical study of the conformational equilibrium in (-)-S-nicotine. Chemphyschem 2014; 16:342-52. [PMID: 25421493 DOI: 10.1002/cphc.201402652] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2014] [Indexed: 11/09/2022]
Abstract
We report an extensive study of the molecular and electronic structure of (-)-S-nicotine, to deduce the phenomenon that controls its conformational equilibrium and to solve its solution-state conformer population. Density functional theory, ab initio, and molecular mechanics calculations were used together with vibrational circular dichroism (VCD) and Fourier transform infrared spectroscopies. Calculations and experiments in solution show that the structure and the conformational energy profile of (-)-S-nicotine are not strongly dependent on the medium, thus suggesting that the conformational equilibrium is dominated by hyperconjugative interactions rather than repulsive electronic effects. The analysis of the first recorded VCD spectra of (-)-S-nicotine confirmed the presence of two main conformers at room temperature. Our results provide further evidence of the hypersensitivity of vibrational optical activity spectroscopies to the three-dimensional structure of chiral samples and prove their suitability for the elucidation of solution-state conformer distribution.
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Langer J, Günther A, Seidenbecher S, Berden G, Oomens J, Dopfer O. Probing protonation sites of isolated flavins using IR spectroscopy: from lumichrome to the cofactor flavin mononucleotide. Chemphyschem 2014; 15:2550-62. [PMID: 24895155 DOI: 10.1002/cphc.201402146] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2014] [Indexed: 11/06/2022]
Abstract
Infrared spectra of the isolated protonated flavin molecules lumichrome, lumiflavin, riboflavin (vitamin B2), and the biologically important cofactor flavin mononucleotide are measured in the fingerprint region (600-1850 cm(-1)) by means of IR multiple-photon dissociation (IRMPD) spectroscopy. Using density functional theory calculations, the geometries, relative energies, and linear IR absorption spectra of several low-energy isomers are calculated. Comparison of the calculated IR spectra with the measured IRMPD spectra reveals that the N10 substituent on the isoalloxazine ring influences the protonation site of the flavin. Lumichrome, with a hydrogen substituent, is only stable as the N1-protonated tautomer and protonates at N5 of the pyrazine ring. The presence of the ribityl unit in riboflavin leads to protonation at N1 of the pyrimidinedione moiety, and methyl substitution in lumiflavin stabilizes the tautomer that is protonated at O2. In contrast, flavin mononucleotide exists as both the O2- and N1-protonated tautomers. The frequencies and relative intensities of the two C=O stretch vibrations in protonated flavins serve as reliable indicators for their protonation site.
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Affiliation(s)
- Judith Langer
- Technische Universität Berlin, Institut für Optik und Atomare Physik, Hardenbergstraße 36, D-10623 Berlin (Germany); Current address: Parque Tecnologico de San Sebastian, Paseo Miramon 182, Edif C, 20009 San Sebastian (Spain)
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Yoshida T, Farone WA, Xantheas SS. Isomers and conformational barriers of gas-phase nicotine, nornicotine, and their protonated forms. J Phys Chem B 2014; 118:8273-85. [PMID: 24654683 DOI: 10.1021/jp501646p] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report extensive conformational searches of the gas-phase neutral nicotine, nornicotine, and their protonated analogs and the pathways and barriers for the interconversion between their various isomers that are based on ab initio second-order Møller-Plesset perturbation (MP2) electronic structure calculations. Initial searches were performed with the 6-31G(d,p), and the energetics of the most important structures were further refined from geometry optimizations with the larger aug-cc-pVTZ basis set. On the basis of the calculated free energies at T = 298 K for the gas-phase molecules, neutral nicotine has two dominant trans conformers, whereas neutral nornicotine is a mixture of several conformers. For nicotine, the protonation on both the pyridine and the pyrrolidine sites is energetically competitive, whereas nornicotine prefers protonation on the pyridine nitrogen. The protonated form of nicotine is mainly a mixture of two pyridine-protonated trans conformers and two pyrrolidine-protonated trans conformers, whereas the protonated form of nornicotine is a mixture of four pyridine-protonated trans conformers. Nornicotine is conformationally more flexible than nicotine; however, it is less protonated at the biologically important pyrrolidine nitrogen site. The lowest energy isomers for each case were found to interconvert via low (<6 kcal/mol) rotational barriers around the pyridine-pyrrolidine bond. These barriers are much lower than previous estimates based on lower levels of theory obtained without relaxation of the structure along the path. Nicotine was found to bind more strongly to tryptophan (Trp) than nornicotine, a finding that is consistent with nicotine's enhanced affinity in the nicotinic acetylcholide receptor.
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Affiliation(s)
- Tomoki Yoshida
- Center for Quantum Life Sciences and Department of Chemistry, Graduate School of Science, Hiroshima University , 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8526, Japan
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21
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Seydou M, Teyssandier J, Battaglini N, Kenfack GT, Lang P, Tielens F, Maurel F, Diawara B. Characterization of NTCDI supra-molecular networks on Au(111); combining STM, IR and DFT calculations. RSC Adv 2014. [DOI: 10.1039/c4ra02717e] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
In this paper, we investigate the self-organization of NTCDI molecules on Au(111) surface by combining Density Functional Theory (DFT) and experiments based on scanning tunneling microscopy (STM) and infrared spectroscopy measurements.
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Affiliation(s)
- Mahamadou Seydou
- Université Paris Diderot
- Sorbonne Paris Cité
- ITODYS
- UMR 7086 CNRS
- 75205 Paris Cedex 13, France
| | - Joan Teyssandier
- Université Paris Diderot
- Sorbonne Paris Cité
- ITODYS
- UMR 7086 CNRS
- 75205 Paris Cedex 13, France
| | - Nicolas Battaglini
- Université Paris Diderot
- Sorbonne Paris Cité
- ITODYS
- UMR 7086 CNRS
- 75205 Paris Cedex 13, France
| | | | - Philippe Lang
- Université Paris Diderot
- Sorbonne Paris Cité
- ITODYS
- UMR 7086 CNRS
- 75205 Paris Cedex 13, France
| | - Frederik Tielens
- Sorbonne Université
- UPMC Univ Paris 06
- UMR 7574
- Laboratoire Chimie de la Matière Condensée
- Collège de France
| | - François Maurel
- Université Paris Diderot
- Sorbonne Paris Cité
- ITODYS
- UMR 7086 CNRS
- 75205 Paris Cedex 13, France
| | - Boubakar Diawara
- Département Moissan
- FR 3203
- CNRS-ENSCP
- École Nationale Supérieure de Chimie de Paris
- 75005 Paris, France
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22
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Nonose S, Yamashita K, Sudo A, Kawashima M. Proton transfer and complex formation of angiotensin I ions with gaseous molecules at various temperature. Chem Phys 2013. [DOI: 10.1016/j.chemphys.2013.07.013] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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23
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Infrared multiple photon dissociation spectroscopy of ciprofloxacin: Investigation of the protonation site. Chem Phys 2012. [DOI: 10.1016/j.chemphys.2011.05.018] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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24
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Kim J, Kim SK, Grégoire G, Manil B, Schermann JP. Infrared Study of the Bacterial Autoinducer N-Hexanoyl-Homoserine Lactone (C6-HSL) in the Gas-Phase, Water, and Octanol Solutions. J Phys Chem A 2011; 115:9199-206. [DOI: 10.1021/jp205025p] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
| | | | - Gilles Grégoire
- Laboratoire de Physique des Lasers, CNRS UMR 7528, Institut Galilée, Université Paris 13, Villetaneuse, 93430, France
| | - Bruno Manil
- Laboratoire de Physique des Lasers, CNRS UMR 7528, Institut Galilée, Université Paris 13, Villetaneuse, 93430, France
| | - Jean Pierre Schermann
- Laboratoire de Physique des Lasers, CNRS UMR 7528, Institut Galilée, Université Paris 13, Villetaneuse, 93430, France
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25
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Lee SY. Proton Transfer in Biomolecules Facilitated by Water: Quantum Chemical Investigations. B KOREAN CHEM SOC 2011. [DOI: 10.5012/bkcs.2011.32.4.1117] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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26
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Atkinson AP, Planchat A, Graton J, Renault E, Grégoire G, Le Questel JY. Structural features and protonation site of epibatidine in the gas phase: an investigation through infrared multiphoton dissociation spectroscopy and computational chemistry. Phys Chem Chem Phys 2011; 13:2272-7. [PMID: 21135942 DOI: 10.1039/c0cp01605e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The gas phase structures of epibatidine, one of the most potent agonists of nicotinic acetylcholine receptors (nAChRs), are determined by means of infrared multiphoton dissociation (IRMPD) spectroscopy and quantum chemistry calculations. Comparison of the experimental and theoretical spectra provides evidence that about 15% of epibatidine is protonated on the Nsp(2) nitrogen in the gas phase. In contrast, the computational study of deschloroepibatidine shows that in the gas phase, the molecule is present only protonated on the Nsp(2) nitrogen. The main minima of the Nsp(2) protonated forms of the two molecules are strongly stabilized by intramolecular CH···Nsp(3) hydrogen bonds. The fundamental insights obtained in the present study on these two important nAChRs agonists show how subtle chemical modifications can have a deep impact on important physicochemical properties.
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Affiliation(s)
- Alexandre P Atkinson
- Laboratoire CEISAM, UMR CNRS 6230, Faculté des Sciences et des Techniques, Université de Nantes, 2, rue de la Houssinière, BP 92208, Nantes F-44322 Cedex 3, France
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27
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Grabow JU, Mata S, Alonso JL, Peña I, Blanco S, López JC, Cabezas C. Rapid probe of the nicotine spectra by high-resolution rotational spectroscopy. Phys Chem Chem Phys 2011; 13:21063-9. [DOI: 10.1039/c1cp22197c] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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29
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Lagutschenkov A, Langer J, Berden G, Oomens J, Dopfer O. Infrared spectra of protonated neurotransmitters: dopamine. Phys Chem Chem Phys 2011; 13:2815-23. [DOI: 10.1039/c0cp02133d] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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30
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Ishiuchi SI, Mitsuda H, Asakawa T, Miyazaki M, Fujii M. Conformational reduction of DOPA in the gas phase studied by laser desorption supersonic jet laser spectroscopy. Phys Chem Chem Phys 2011; 13:7812-20. [DOI: 10.1039/c0cp02695f] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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31
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Lagutschenkov A, Langer J, Berden G, Oomens J, Dopfer O. Infrared spectra of the protonated neurotransmitter histamine: competition between imidazolium and ammonium isomers in the gas phase. Phys Chem Chem Phys 2011; 13:15644-56. [DOI: 10.1039/c1cp21681c] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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Gaigeot MP, Cimas A, Seydou M, Kim JY, Lee S, Schermann JP. Proton Transfer from the Inactive Gas-Phase Nicotine Structure to the Bioactive Aqueous-Phase Structure. J Am Chem Soc 2010; 132:18067-77. [DOI: 10.1021/ja103759v] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Marie-Pierre Gaigeot
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE UMR8587 CNRS, Université d’Evry val d’Essonne, boulevard F. Mitterrand, Bat. Maupertuis, 91025 Evry Cedex, France, Institut Universitaire de France IUF, 103 boulevard St Michel, 75005 Paris, France, Subatech, Ecole des Mines de Nantes, 4 rue Alfred Kastler, 44307 Nantes, France, Department of Applied Chemistry, Kyunghee University, Kyungki 446-701, South Korea, Department of Biophysics and Biochemical Chemistry, WCU, Seoul
| | - Alvaro Cimas
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE UMR8587 CNRS, Université d’Evry val d’Essonne, boulevard F. Mitterrand, Bat. Maupertuis, 91025 Evry Cedex, France, Institut Universitaire de France IUF, 103 boulevard St Michel, 75005 Paris, France, Subatech, Ecole des Mines de Nantes, 4 rue Alfred Kastler, 44307 Nantes, France, Department of Applied Chemistry, Kyunghee University, Kyungki 446-701, South Korea, Department of Biophysics and Biochemical Chemistry, WCU, Seoul
| | - Mahamadou Seydou
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE UMR8587 CNRS, Université d’Evry val d’Essonne, boulevard F. Mitterrand, Bat. Maupertuis, 91025 Evry Cedex, France, Institut Universitaire de France IUF, 103 boulevard St Michel, 75005 Paris, France, Subatech, Ecole des Mines de Nantes, 4 rue Alfred Kastler, 44307 Nantes, France, Department of Applied Chemistry, Kyunghee University, Kyungki 446-701, South Korea, Department of Biophysics and Biochemical Chemistry, WCU, Seoul
| | - Ju-Young Kim
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE UMR8587 CNRS, Université d’Evry val d’Essonne, boulevard F. Mitterrand, Bat. Maupertuis, 91025 Evry Cedex, France, Institut Universitaire de France IUF, 103 boulevard St Michel, 75005 Paris, France, Subatech, Ecole des Mines de Nantes, 4 rue Alfred Kastler, 44307 Nantes, France, Department of Applied Chemistry, Kyunghee University, Kyungki 446-701, South Korea, Department of Biophysics and Biochemical Chemistry, WCU, Seoul
| | - Sungyul Lee
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE UMR8587 CNRS, Université d’Evry val d’Essonne, boulevard F. Mitterrand, Bat. Maupertuis, 91025 Evry Cedex, France, Institut Universitaire de France IUF, 103 boulevard St Michel, 75005 Paris, France, Subatech, Ecole des Mines de Nantes, 4 rue Alfred Kastler, 44307 Nantes, France, Department of Applied Chemistry, Kyunghee University, Kyungki 446-701, South Korea, Department of Biophysics and Biochemical Chemistry, WCU, Seoul
| | - Jean-Pierre Schermann
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE UMR8587 CNRS, Université d’Evry val d’Essonne, boulevard F. Mitterrand, Bat. Maupertuis, 91025 Evry Cedex, France, Institut Universitaire de France IUF, 103 boulevard St Michel, 75005 Paris, France, Subatech, Ecole des Mines de Nantes, 4 rue Alfred Kastler, 44307 Nantes, France, Department of Applied Chemistry, Kyunghee University, Kyungki 446-701, South Korea, Department of Biophysics and Biochemical Chemistry, WCU, Seoul
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33
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Lagutschenkov A, Langer J, Berden G, Oomens J, Dopfer O. Infrared Spectra of Protonated Neurotransmitters: Serotonin. J Phys Chem A 2010; 114:13268-76. [DOI: 10.1021/jp109337a] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Anita Lagutschenkov
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623 Berlin, Germany, FOM Institute for Plasma Physics Rijnhuizen, Edisonbaan 14, 3439 MN Nieuwegein, The Netherlands, and University of Amsterdam, Science Park 904, Amsterdam 1098XH, The Netherlands
| | - Judith Langer
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623 Berlin, Germany, FOM Institute for Plasma Physics Rijnhuizen, Edisonbaan 14, 3439 MN Nieuwegein, The Netherlands, and University of Amsterdam, Science Park 904, Amsterdam 1098XH, The Netherlands
| | - Giel Berden
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623 Berlin, Germany, FOM Institute for Plasma Physics Rijnhuizen, Edisonbaan 14, 3439 MN Nieuwegein, The Netherlands, and University of Amsterdam, Science Park 904, Amsterdam 1098XH, The Netherlands
| | - Jos Oomens
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623 Berlin, Germany, FOM Institute for Plasma Physics Rijnhuizen, Edisonbaan 14, 3439 MN Nieuwegein, The Netherlands, and University of Amsterdam, Science Park 904, Amsterdam 1098XH, The Netherlands
| | - Otto Dopfer
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623 Berlin, Germany, FOM Institute for Plasma Physics Rijnhuizen, Edisonbaan 14, 3439 MN Nieuwegein, The Netherlands, and University of Amsterdam, Science Park 904, Amsterdam 1098XH, The Netherlands
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34
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Sohn WY, Lee JS. Structure and Conformational Stability of Protonated Dialanine. J Phys Chem A 2010; 114:7537-43. [DOI: 10.1021/jp100380c] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Woon Yong Sohn
- Division of Energy Systems Research and Department of Chemistry, Ajou University, Suwon, Korea, 443-749
| | - Jae Shin Lee
- Division of Energy Systems Research and Department of Chemistry, Ajou University, Suwon, Korea, 443-749
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35
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Petrick L, Destaillats H, Zouev I, Sabach S, Dubowski Y. Sorption, desorption, and surface oxidative fate of nicotine. Phys Chem Chem Phys 2010; 12:10356-64. [DOI: 10.1039/c002643c] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
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36
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Givelet C, Buffeteau T, Arnaud-Neu F, Hubscher-Bruder V, Bibal B. A Hydrosoluble Triphenylene That Preferentially Binds Acetylcholine, Epibatidine, and Nicotine. J Org Chem 2009; 74:5059-62. [DOI: 10.1021/jo900683x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Affiliation(s)
- Cécile Givelet
- Université de Bordeaux, Institut des Sciences Moléculaires, CNRS UMR 5255, 351 cours de la Libération, 33405 Talence, France, and Laboratoire de Chimie Physique, DSA, IPHC, UMR UDS-CNRS 7178, 25 rue Becquerel, 67087 Strasbourg, France
| | - Thierry Buffeteau
- Université de Bordeaux, Institut des Sciences Moléculaires, CNRS UMR 5255, 351 cours de la Libération, 33405 Talence, France, and Laboratoire de Chimie Physique, DSA, IPHC, UMR UDS-CNRS 7178, 25 rue Becquerel, 67087 Strasbourg, France
| | - Françoise Arnaud-Neu
- Université de Bordeaux, Institut des Sciences Moléculaires, CNRS UMR 5255, 351 cours de la Libération, 33405 Talence, France, and Laboratoire de Chimie Physique, DSA, IPHC, UMR UDS-CNRS 7178, 25 rue Becquerel, 67087 Strasbourg, France
| | - Véronique Hubscher-Bruder
- Université de Bordeaux, Institut des Sciences Moléculaires, CNRS UMR 5255, 351 cours de la Libération, 33405 Talence, France, and Laboratoire de Chimie Physique, DSA, IPHC, UMR UDS-CNRS 7178, 25 rue Becquerel, 67087 Strasbourg, France
| | - Brigitte Bibal
- Université de Bordeaux, Institut des Sciences Moléculaires, CNRS UMR 5255, 351 cours de la Libération, 33405 Talence, France, and Laboratoire de Chimie Physique, DSA, IPHC, UMR UDS-CNRS 7178, 25 rue Becquerel, 67087 Strasbourg, France
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37
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Martin DE, Robertson EG, MacLellan JG, Godfrey PD, Thompson CD, Morrison RJS. A Spectroscopic Study of Nicotine Analogue 2-Phenylpyrrolidine (PPD) Using Resonant Two-Photon Ionization (R2PI), Microwave, and 2D NMR Techniques. J Am Chem Soc 2009; 131:2638-46. [DOI: 10.1021/ja807995n] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Affiliation(s)
| | | | | | - Peter D. Godfrey
- School of Chemistry, Monash University, Victoria 3800, Australia
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38
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Lioe H, Barlow CK, O'Hair RAJ. How does acetylcholine lose trimethylamine? A density functional theory study of four competing mechanisms. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2009; 20:238-246. [PMID: 18974009 DOI: 10.1016/j.jasms.2008.09.017] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2008] [Revised: 09/12/2008] [Accepted: 09/13/2008] [Indexed: 05/27/2023]
Abstract
Low-energy collision-induced dissociation (CID) of acetylcholine (ACh) yields only two fragment ions: the dominant C(4)H(7)O(2)(+) ion at m/z 87, arising from trimethylamine loss; and protonated trimethylamine at m/z 60. Since the literature is replete with conflicting mechanisms for the loss of trimethylamine from ACh, in this article density functional theory (DFT) calculations are used to assess four competing mechanisms: (1) Path A involves a neighboring group attack to form a five-membered ring product, 2-methyl-1,3-dioxolan-2-ylium cation; (2) Path B is a neighboring group attack to form a three-membered ring product, 1-methyl-oxiranium ion; (3) Path C involves an intramolecular elimination reaction to form CO protonated vinylacetate; and (4) Path D is a 1,2-hydride migration reaction forming CH(2)-protonated vinylacetate. At the MP2/6-311++G(2d,p)//B3-LYP/6-31+G(d,p) level of theory path A is the kinetically favored pathway, with a transition-state energy barrier of 37.7 kcal mol(-1) relative to the most stable conformer of ACh. The lowest energy pathway for the formation of protonated trimethylamine was also calculated to proceed via path A, involving proton transfer within the ion-molecule complex intermediate, with the exocylic methyl group being the proton donor. To confirm the site of proton transfer, low-energy CID of acetyl-d(3)-choline (d(3)-ACh) was carried out, which revealed loss of trimethylamine and the formation of Me(3)ND(+).
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Affiliation(s)
- Hadi Lioe
- School of Chemistry, University of Melbourne, Victoria, Australia
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39
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Bouteiller Y, Gillet JC, Grégoire G, Schermann JP. Transferable Specific Scaling Factors for Interpretation of Infrared Spectra of Biomolecules from Density Functional Theory. J Phys Chem A 2008; 112:11656-60. [DOI: 10.1021/jp805854q] [Citation(s) in RCA: 56] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Yves Bouteiller
- Laboratoire de Physique des Lasers, UMR CNRS 7538, Institut Galilée, Université Paris 13, 93430, Villetaneuse, France
| | - Jean-Christophe Gillet
- Laboratoire de Physique des Lasers, UMR CNRS 7538, Institut Galilée, Université Paris 13, 93430, Villetaneuse, France
| | - Gilles Grégoire
- Laboratoire de Physique des Lasers, UMR CNRS 7538, Institut Galilée, Université Paris 13, 93430, Villetaneuse, France
| | - Jean Pierre Schermann
- Laboratoire de Physique des Lasers, UMR CNRS 7538, Institut Galilée, Université Paris 13, 93430, Villetaneuse, France
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