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Dezalay J, Grégoire G, Broquier M, Soorkia S. IR and UV Spectroscopy of Gas-Phase Monohydrated Protonated Guanine. J Phys Chem A 2024; 128:8457-8465. [PMID: 39297670 DOI: 10.1021/acs.jpca.4c04976] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/04/2024]
Abstract
We use UV and infrared photodissociation spectroscopy to study monohydrated protonated guanine in a dual cryogenic ion trap spectrometer. The monohydrated complexes are formed through helium-mediated collisions between bare electrosprayed protonated guanine and low-pressure water vapor in a clustering trap maintained at 180 K, before being transferred to a quadrupole ion trap at 10 K. The spectrum of the monohydrated complex exhibits sharp vibronic transitions at the band origin and becomes broader and higher in intensity further in blue, which is very similar to protonated guanine but with a notable blue shift of ∼1850 cm-1 (∼0.23 eV). The UV hole-burning experiments showed that the vibronic bands recorded in the region of the band origin belong to a single conformer under our experimental conditions. The IR photodissociation spectrum in the 3000-3600 cm-1 range, with the aid of theoretical calculations (SCS-CC2/aug-cc-pVDZ), allowed us to assign the structure to the lowest energy N7-O conformer.
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Affiliation(s)
- J Dezalay
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
| | - G Grégoire
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
| | - M Broquier
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
| | - S Soorkia
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
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2
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Harville PA, Moss OC, Rana A, Snowden EA, Johnson MA. Demonstration of Capture, Cooling, Tagging, and Spectroscopic Characterization of UV Photoproduct Ions in a Cryogenic Ion Trap: Application to 266 nm Photofragment Ions from Rhodamine 6G. J Phys Chem A 2024; 128:7714-7719. [PMID: 39194345 DOI: 10.1021/acs.jpca.4c04283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/29/2024]
Abstract
We demonstrate a method to determine the structures of the primary photodissociation products from a cryogenically cooled parent ion. In this approach, a target ion is cooled by a pulse of buffer gas and tagged in a 20 K Paul trap. The cold ion is then photodissociated by pulsed (∼5 ns) UV laser excitation, and the ionic products are trapped, cooled, and tagged by introduction of a second buffer gas pulse in the same trap. The tagged fragments are then ejected into a triple focusing, UV/vis/IR time-of-flight photofragmentation mass spectrometer which yields vibrational and electronic spectra of the mass-selected photofragments. These methods are demonstrated by application to the 266 nm photodissociation of the Rhodamine 6G cation to yield the R575 fragment ion based on loss of ethene as well as to a weaker secondary fragment arising from loss of m/z 43.
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Affiliation(s)
- Payten A Harville
- Sterling Chemistry Laboratory, Department of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Olivia C Moss
- Sterling Chemistry Laboratory, Department of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Abhijit Rana
- Sterling Chemistry Laboratory, Department of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Elizabeth A Snowden
- Sterling Chemistry Laboratory, Department of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Mark A Johnson
- Sterling Chemistry Laboratory, Department of Chemistry, Yale University, New Haven, Connecticut 06520, United States
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3
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Kubo M, Goda R, Muramatsu S, Inokuchi Y. Conformation and Photodissociation Process of Benzo-15-Crown-5 and Benzo-18-Crown-6 Complexes with Ammonium Ions Investigated by Cold UV and IR Spectroscopy in the Gas Phase. J Phys Chem A 2024; 128:7353-7363. [PMID: 39167726 DOI: 10.1021/acs.jpca.4c02121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/23/2024]
Abstract
We examined the conformation of benzo-15-crown-5 (B15C5) and benzo-18-crown-6 (B18C6) complexes with ammonium ions, NH4+, CH3NH3+ (MeNH3+), CH3CH2NH3+ (EtNH3+), and CH3CH2CH2NH3+ (PrNH3+), using cold UV and IR spectroscopy in the gas phase. We measured the UV photodissociation (UVPD) spectra of the ammonium complexes and compared them with those of the K+(B15C5) and K+(B18C6) complexes in order to identify the conformation on the basis of the band position. The number of possible conformations for the ammonium complexes of B15C5 is limited compared with alkali metal ions with similar ionic radii. The NH4+(B15C5), MeNH3+(B15C5), and EtNH3+(B15C5) complexes show two conformers, whereas the K+(B15C5) complex has three stable conformers. In the case of the PrNH3+(B15C5) complex, one conformer was found predominantly in the UVPD spectrum. The ammonium complexes of B15C5 prefer to adopt crown conformations with large dihedral angles on the C-O-C-C atoms around the benzene moiety. In the case of the ammonium complexes of B18C6, two or three conformers were found in the UVPD spectra. One conformation of the B18C6 complexes is similar to that of the K+(B18C6) complex, which has a planar form on the C-O-C-C atoms around the benzene moiety. The other but dominant conformations of the ammonium complexes could be attributed to those with large C-O-C-C dihedral angles. These conformational findings for the ammonium complexes suggest that the benzo-crown ethers tend to adopt nonplanar conformations around the benzene moiety to encapsulate the ammonium ions. The IR-UV double-resonance (DR) spectra of the B15C5 and B18C6 complexes were compared to those of benzo-12-crown-4 (B12C4) and dibenzo-18-crown-6 (DB18C6) complexes. The N-H···O hydrogen bond (H-bond) is weaker with increasing ring size from B12C4 to B18C6, although the calculated binding energy is smaller for B12C4 than for B18C6. This result indicates that cooperative H-bonds with three N-H groups can strengthen the intermolecular bond between the ammonium ions and B18C6. The difference in the conformational preference between the ammonium and K+ complexes is attributed to directed N-H···O H-bonds in the ammonium complexes. Proton transfer and dissociation of the crown ring were also observed for the photoexcitation of the NH4+(B15C5) and NH4+(B18C6) complexes.
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Affiliation(s)
- Mayuko Kubo
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Ryosuke Goda
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
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4
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Capek GO, Howdieshell CJ, Garand E. Square Parametric Excitation: A Digital Resonant Method for the Quadrupole Ion Trap. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2024; 35:1846-1853. [PMID: 39012076 DOI: 10.1021/jasms.4c00169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/17/2024]
Abstract
Digital ion trap technology is an alternate method for driving quadrupole ion traps and mass filters using variable frequency, fixed amplitude RF square waves in place of variable amplitude, fixed frequency RF sine waves. This technique offers some advantages such as an increase in the high mass analysis range by varying frequency and lower overall voltage requirements. Here, we present a complex square waveform developed for resonant parametric excitation in a quadrupole linear ion trap. Unlike traditional resonance methods, the driving RF square wave and auxiliary square wave are coupled using the same digital circuitry without the need for transformer coupling. In this work, we use this complex waveform to selectively excite the first order parametric resonances of ion motion. The square parametric excitation method presented here employs a simple and repetitive circuit design consisting of a low-voltage waveform generator followed by a series of high-voltage MOSFET switches. This design allows for resonance methods to be easily implemented in the all-digital quadrupole. The complex square waveform can perform the same useful functions as sine wave auxiliary signals, such as selective mass elimination and mass isolation. We also demonstrate that the mass resolution performance and S/N of our digital mass spectrometer is improved by applying the complex square waveform during ion ejection.
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Affiliation(s)
- Grace O Capek
- Department of Chemistry, University of Wisconsin─Madison, 1101 University Ave, Madison, Wisconsin 53706, United States
| | - Casey J Howdieshell
- Department of Chemistry, University of Wisconsin─Madison, 1101 University Ave, Madison, Wisconsin 53706, United States
| | - Etienne Garand
- Department of Chemistry, University of Wisconsin─Madison, 1101 University Ave, Madison, Wisconsin 53706, United States
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5
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Yoo IT, Jeong J, Eun HJ, Yun J, Heo J, Kim NJ. Conformation-Selective Ultraviolet-Ultraviolet Hole Burning Spectra of Ubiquitin Ions in a Cryogenic Ion Trap. J Phys Chem Lett 2024; 15:7398-7402. [PMID: 38995855 DOI: 10.1021/acs.jpclett.4c01385] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/14/2024]
Abstract
Understanding the structural variations of conformational isomers in proteins is crucial for elucidating protein folding mechanisms. Here, we present a novel method for obtaining conformation-selective ultraviolet (UV)-UV hole burning (HB) spectra of ubiquitin ions ((Ubi+zH)+z, z = 7-10) produced via electrospray ionization. Our approach involves binding multiple N2 molecules to ubiquitin ions ((Ubi+zH)+z(N2)m, m = 1-55) within a cryogenic ion trap. Upon exposure to UV irradiation, efficient fragmentation of (Ubi+zH)+z(N2)m occurs, primarily yielding bare (Ubi+zH)+z ions as fragments. The significant mass difference between the parent and fragment ions facilitates the acquisition of UV-UV HB spectra, which reveal the presence of at least two distinct conformers. Molecular dynamics simulations suggest that these conformers correspond to A-state structures, differing only in the interactions of a tyrosine residue with neighboring residues. Our findings underscore UV-UV HB spectroscopy of protein ions as a powerful tool for exploring diverse protein isomers.
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Affiliation(s)
- Il Tae Yoo
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea
| | - Jinho Jeong
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea
| | - Han Jun Eun
- Gas Metrology Group, Division of Chemical and Biological Metrology, Korea Research Institute of Standards and Science (KRISS), Daejeon 34113, Korea
| | - Jiyeon Yun
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea
| | - Jiyoung Heo
- Department of Green Chemical Engineering, Sangmyung University, Chungnam 31066, Korea
| | - Nam Joon Kim
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea
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6
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Molina FL, Broquier M, Soorkia S, Grégoire G, Pino GA. Selective Tautomer Production and Cryogenic Ion Spectroscopy of Radical Cations: The Uracil and Thymine Cases. J Phys Chem A 2024. [PMID: 38656804 DOI: 10.1021/acs.jpca.4c02199] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/26/2024]
Abstract
The vibrational and electronic spectroscopy of the radical cations of two nucleobases (NB) (uracil and thymine) was studied by cryogenic ion photodissociation spectroscopy. The radical cations have been generated from the photodissociation of NB-Ag+ complexes. A charge transfer process from the NB to Ag+ governs the deactivation mechanism, leading to the formation of the radical cation without further tautomerization. Single- and double-resonance spectroscopy allows for structural assignments of both the silver complexes and the radical cations by comparison with DFT-based calculations. Interestingly, a tautomer-dependent fragmentation is observed in the thymine enol form that involves the loss of NCO, a fragment which was never reported before for this NB. This selective photodissociation of silver complexes containing aromatic chromophore greatly expands the current technique to produce isomer-selected radical cations in the gas phase providing benchmark experimental data to assess calculations of open-shell species.
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Affiliation(s)
- Franco L Molina
- Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba. Haya de la Torre y Medina Allende. Pabellón Argentina, Ciudad Universitaria, Córdoba X5000HUA, Argentina
- INFIQC: Instituto de Investigaciones en Físico-Química de Córdoba (CONICET-UNC). Haya de la Torre y Medina Allende. Pabellón Argentina, Ciudad Universitaria, Córdoba X5000HUA, Argentina
- Departamento de Fisicoquímica, Fac. de Ciencias Químicas, Universidad Nacional de Córdoba. Haya de la Torre y Medina Allende. Pabellón Argentina, Ciudad Universitaria, Córdoba X5000HUA, Argentina
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
| | - Michel Broquier
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
| | - Satchin Soorkia
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
| | - Gilles Grégoire
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, Orsay F-91405, France
| | - Gustavo A Pino
- Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba. Haya de la Torre y Medina Allende. Pabellón Argentina, Ciudad Universitaria, Córdoba X5000HUA, Argentina
- INFIQC: Instituto de Investigaciones en Físico-Química de Córdoba (CONICET-UNC). Haya de la Torre y Medina Allende. Pabellón Argentina, Ciudad Universitaria, Córdoba X5000HUA, Argentina
- Departamento de Fisicoquímica, Fac. de Ciencias Químicas, Universidad Nacional de Córdoba. Haya de la Torre y Medina Allende. Pabellón Argentina, Ciudad Universitaria, Córdoba X5000HUA, Argentina
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7
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Koyama M, Muramatsu S, Hirokawa Y, Iriguchi J, Matsuyama A, Inokuchi Y. Correlation of the Charge Resonance Interaction with Cluster Conformations Probed by Electronic Spectroscopy of Dimer Radical Cations of CO 2 and CS 2 in a Cryogenic Ion Trap. J Phys Chem Lett 2024; 15:1493-1499. [PMID: 38295367 DOI: 10.1021/acs.jpclett.3c03500] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2024]
Abstract
Radical cations of dimeric clusters of carbon dioxide/disulfide, [(CX2)2]+• (X = O and S), form strong intracluster bonds through charge resonance (CR) interactions. We herein performed electronic photodissociation spectroscopy of [(CX2)2]+• while regulating the temperature under ambient and cryogenic conditions using a quadrupole ion trap. Both ions exhibited broad band absorption in the near-infrared-visible light region; it is called the "CR band", as a measure of the strength of the CR interaction. Strikingly, this band underwent a noticeable blue shift upon cryogenic cooling for [(CS2)2]+• while not for [(CO2)2]+•. On the basis of quantum chemical calculations with a coupled cluster method, the band shift was attributed to the variations in the relative population of two energetically close conformers found for [(CS2)2]+•. This study highlights a strong correlation between CR interactions and conformation of the radical dimer cations, demonstrating the exceptional significance of cryogenic cooling in the chemistry of ionic molecular clusters.
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Affiliation(s)
- Masahiro Koyama
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, 1-3-1 Kagamiyama, Higashihiroshima, Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, 1-3-1 Kagamiyama, Higashihiroshima, Hiroshima 739-8526, Japan
| | - Yasuaki Hirokawa
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, 1-3-1 Kagamiyama, Higashihiroshima, Hiroshima 739-8526, Japan
| | - Jidai Iriguchi
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, 1-3-1 Kagamiyama, Higashihiroshima, Hiroshima 739-8526, Japan
| | - Akihito Matsuyama
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, 1-3-1 Kagamiyama, Higashihiroshima, Hiroshima 739-8526, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, 1-3-1 Kagamiyama, Higashihiroshima, Hiroshima 739-8526, Japan
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8
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Cataldo PG, Iramain MA, Castillo MV, Manzur ME, Romano E, Brandán SA. Vibrational assignments of cyclic dimers and inter-monomers of adenine relating FT-IR, FT-Raman and UV spectra with SQMFF and DFT calculations. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 306:123540. [PMID: 37898058 DOI: 10.1016/j.saa.2023.123540] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 10/13/2023] [Accepted: 10/14/2023] [Indexed: 10/30/2023]
Abstract
In this work, three different cyclic dimers and a tetramer of adenine taken from the experimental structure determined by X-ray diffraction have been studied by combination of experimental FT-IR, FT-Raman and UV-Visible spectra with hybrid B3LYP/6-311++G** and scaled quantum mechanical force field (SQMFF) calculations in order to perform the complete assignments of bands observed in the vibrational spectra. The characteristics of different N-H···N interactions of those three cyclic structures together with the group of IR bands observed between 2865 and 2599 cm-1 have been elucidated considering the tetrameric structure. The cyclic dimers and the tetramer of adenine confirm that the bands observed between 2865 and 2599 cm-1 are not due to N-H···N interactions but to bands of combination, as was previously suggested. The experimental available deuterated IR and terahertz spectra have allowed the complete assignments of regions of higher and lower wavenumbers. Good correlations were acquired comparing the theoretical IR, Raman and UV spectra of three species and the tetramer with the analogous experimental ones, suggesting the presence of all species in both phases. Vibronic bands are observed in the electronic spectra when adenine concentration is increased in aqueous solution evidencing the presence of monomer, tautomers and dimers, as reported by different studies. Similar characteristics of H bonds interactions are predicted for dimers 1 and 2 but different from the dimer 3, as revealed by using NBO and AIM calculations. Different scaled force constants values were found for the cyclic dimers 1 and 2, as compared to the corresponding to dimer 3.
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Affiliation(s)
- Pablo G Cataldo
- Cátedra de Química General, Instituto de Química Inorgánica, Facultad de Bioquímica. Química y Farmacia, Universidad Nacional de Tucumán, Ayacucho 471, (4000) San Miguel de Tucumán, Tucumán, Argentina
| | - Maximiliano A Iramain
- Cátedra de Química General, Instituto de Química Inorgánica, Facultad de Bioquímica. Química y Farmacia, Universidad Nacional de Tucumán, Ayacucho 471, (4000) San Miguel de Tucumán, Tucumán, Argentina
| | - María V Castillo
- Cátedra de Química General, Instituto de Química Inorgánica, Facultad de Bioquímica. Química y Farmacia, Universidad Nacional de Tucumán, Ayacucho 471, (4000) San Miguel de Tucumán, Tucumán, Argentina
| | - María E Manzur
- Cátedra de Química General, Instituto de Química Inorgánica, Facultad de Bioquímica. Química y Farmacia, Universidad Nacional de Tucumán, Ayacucho 471, (4000) San Miguel de Tucumán, Tucumán, Argentina
| | - Elida Romano
- Cátedra de Química General, Instituto de Química Inorgánica, Facultad de Bioquímica. Química y Farmacia, Universidad Nacional de Tucumán, Ayacucho 471, (4000) San Miguel de Tucumán, Tucumán, Argentina
| | - Silvia Antonia Brandán
- Cátedra de Química General, Instituto de Química Inorgánica, Facultad de Bioquímica. Química y Farmacia, Universidad Nacional de Tucumán, Ayacucho 471, (4000) San Miguel de Tucumán, Tucumán, Argentina.
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9
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Ashworth EK, Dezalay J, Ryan CRM, Ieritano C, Hopkins WS, Chambrier I, Cammidge AN, Stockett MH, Noble JA, Bull JN. Protomers of the green and cyan fluorescent protein chromophores investigated using action spectroscopy. Phys Chem Chem Phys 2023. [PMID: 37465988 DOI: 10.1039/d3cp02661b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/20/2023]
Abstract
The photophysics of biochromophore ions often depends on the isomeric or protomeric distribution, yet this distribution, and the individual isomer contributions to an action spectrum, can be difficult to quantify. Here, we use two separate photodissociation action spectroscopy instruments to record electronic spectra for protonated forms of the green (pHBDI+) and cyan (Cyan+) fluorescent protein chromophores. One instrument allows for cryogenic (T = 40 ± 10 K) cooling of the ions, while the other offers the ability to perform protomer-selective photodissociation spectroscopy. We show that both chromophores are generated as two protomers when using electrospray ionisation, and that the protomers have partially overlapping absorption profiles associated with the S1 ← S0 transition. The action spectra for both species span the 340-460 nm range, although the spectral onset for the pHBDI+ protomer with the proton residing on the carbonyl oxygen is red-shifted by ≈40 nm relative to the lower-energy imine protomer. Similarly, the imine and carbonyl protomers are the lowest energy forms of Cyan+, with the main band for the carbonyl protomer red-shifted by ≈60 nm relative to the lower-energy imine protomer. The present strategy for investigating protomers can be applied to a wide range of other biochromophore ions.
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Affiliation(s)
- Eleanor K Ashworth
- School of Chemistry, Norwich Research Park, University of East Anglia, Norwich NR4 7TJ, UK.
| | - Jordan Dezalay
- Department of Physics, Stockholm University, SE-10691 Stockholm, Sweden
| | | | - Christian Ieritano
- Department of Chemistry, University of Waterloo, Waterloo N2L 3G1, Canada
| | - W Scott Hopkins
- Department of Chemistry, University of Waterloo, Waterloo N2L 3G1, Canada
| | - Isabelle Chambrier
- School of Chemistry, Norwich Research Park, University of East Anglia, Norwich NR4 7TJ, UK.
| | - Andrew N Cammidge
- School of Chemistry, Norwich Research Park, University of East Anglia, Norwich NR4 7TJ, UK.
| | - Mark H Stockett
- Department of Physics, Stockholm University, SE-10691 Stockholm, Sweden
| | | | - James N Bull
- School of Chemistry, Norwich Research Park, University of East Anglia, Norwich NR4 7TJ, UK.
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10
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Eun HJ, Ishiuchi SI, Yoo IT, Heo J, Park JW, Fujii M, Kim NJ. Cryogenic Ion Spectroscopy of Protonated and Sodiated Methyladenine Derivatives. J Phys Chem A 2023; 127:2472-2480. [PMID: 36895090 DOI: 10.1021/acs.jpca.2c09083] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/11/2023]
Abstract
Ultraviolet photodissociation (UVPD) spectra of protonated 9-methyladenine (H+9MA), protonated 7-methyl adenine (H+7MA), protonated 3-methyladenine (H+3MA), and sodiated 7-methyladenine (Na+7MA) near the origin bands of the S0-S1 transition were obtained using cryogenic ion spectroscopy. The UV-UV hole burning, infrared (IR) ion-dip, and IR-UV double resonance spectra showed that all the ions were present as single isomers in a cryogenic ion trap. The UVPD spectrum of H+9MA exhibited only a broad absorption band, whereas the spectra of H+7MA, H+3MA, and Na+7MA displayed moderately or well-resolved vibronic bands. Potential energy profiles were computed to understand the reason for the different bandwidths of the vibronic bands in the spectra. The broadening of the bands was correlated with the slopes between the Franck-Condon point and the conical intersection between the S1 and S0 states in the potential energy profiles, thus reflecting the deactivation rates in the S1 state.
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Affiliation(s)
- Han Jun Eun
- Gas Metrology Group, Division of Chemical and Biological Metrology, Korea Research Institute of Standards and Science (KRISS), Daejeon 34113, Korea
| | - Shun-Ichi Ishiuchi
- Department of Chemistry, Tokyo Institute of Technology, Ookayama 2-12-1, Tokyo 152-8550, Japan
| | - Il Tae Yoo
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea
| | - Jiyoung Heo
- Department of Green Chemical Engineering, Sangmyung University, Chungnam 31066, Korea
| | - Jae Woo Park
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea
| | - Masaaki Fujii
- Laboratory for Chemistry and Life Science, Tokyo Institute of Technology, Nagatsuta-cho, Yokohama 226-8503, Japan
| | - Nam Joon Kim
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea
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11
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Hirata K, Kasai KI, Yoshizawa K, Grégoire G, Ishiuchi SI, Fujii M. Excited state dynamics of protonated dopamine: hydration and conformation effects. Phys Chem Chem Phys 2022; 24:10737-10744. [PMID: 35389419 DOI: 10.1039/d2cp00543c] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Electronic and vibrational spectroscopy in a cryogenic ion trap has been applied to protonated dopamine water clusters and assigned with the help of quantum chemistry calculations performed in the ground and electronic excited states. A dramatic hydration effect is observed when dopamine is solvated by three water molecules. The broad electronic spectra recorded for the bare and small water clusters containing protonated dopamine turn to sharp, well-resolved vibronic transitions in the 1-3 complex. This reflects the change induced by hydration in the photodynamics of protonated dopamine which is initially controlled by an excited state proton transfer (ESPT) reaction from the ammonium group toward the catechol ring. Interestingly, conformer selectivity is revealed in the 1-3 complex which shows two low lying energy conformers for which the ESPT reaction is prevented or not depending on the H-bond network formed between the dopamine and water molecules.
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Affiliation(s)
- Keisuke Hirata
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsu-ta-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.
| | - Ken-Ichi Kasai
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsu-ta-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
| | - Koki Yoshizawa
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsu-ta-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
| | - Gilles Grégoire
- Tokyo Tech World Research Hub Initiative (WRHI), Institute of Innovation Research, Tokyo Institute of Technology, 4259, Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan. .,Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, F-91405 Orsay, France
| | - Shun-Ichi Ishiuchi
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsu-ta-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 Nagatsu-ta-cho, Midori-ku, Yokohama, 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. .,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, Kanagawa, 226-8503, Japan
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12
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Buntine JT, Carrascosa E, Bull JN, Jacovella U, Cotter MI, Watkins P, Liu C, Scholz MS, Adamson BD, Marlton SJP, Bieske EJ. An ion mobility mass spectrometer coupled with a cryogenic ion trap for recording electronic spectra of charged, isomer-selected clusters. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2022; 93:043201. [PMID: 35489918 DOI: 10.1063/5.0085680] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Accepted: 02/28/2022] [Indexed: 06/14/2023]
Abstract
Infrared and electronic spectra are indispensable for understanding the structural and energetic properties of charged molecules and clusters in the gas phase. However, the presence of isomers can potentially complicate the interpretation of spectra, even if the target molecules or clusters are mass-selected beforehand. Here, we describe an instrument for spectroscopically characterizing charged molecular clusters that have been selected according to both their isomeric form and their mass-to-charge ratio. Cluster ions generated by laser ablation of a solid sample are selected according to their collision cross sections with helium buffer gas using a drift tube ion mobility spectrometer and their mass-to-charge ratio using a quadrupole mass filter. The mobility- and mass-selected target ions are introduced into a cryogenically cooled, three-dimensional quadrupole ion trap where they are thermalized through inelastic collisions with an inert buffer gas (He or He/N2 mixture). Spectra of the molecular ions are obtained by tagging them with inert atoms or molecules (Ne and N2), which are dislodged following resonant excitation of an electronic transition, or by photodissociating the cluster itself following absorption of one or more photons. An electronic spectrum is generated by monitoring the charged photofragment yield as a function of wavelength. The capacity of the instrument is illustrated with the resonance-enhanced photodissociation action spectra of carbon clusters (Cn +) and polyacetylene cations (HC2nH+) that have been selected according to the mass-to-charge ratio and collision cross section with He buffer gas and of mass-selected Au2 + and Au2Ag+ clusters.
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Affiliation(s)
- Jack T Buntine
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Eduardo Carrascosa
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - James N Bull
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Ugo Jacovella
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Mariah I Cotter
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Patrick Watkins
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Chang Liu
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Michael S Scholz
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Brian D Adamson
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Samuel J P Marlton
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
| | - Evan J Bieske
- School of Chemistry, The University of Melbourne, Victoria 3010, Australia
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13
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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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14
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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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15
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Goda R, Kanazawa S, Machida S, Muramatsu S, Inokuchi Y. Conformation of Benzo-12-Crown-4 Complexes with Ammonium Ions Investigated by Cold Gas-Phase Spectroscopy. J Phys Chem A 2021; 125:10410-10418. [PMID: 34818015 DOI: 10.1021/acs.jpca.1c09091] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
In this study, we examined the conformation and intermolecular interactions of benzo-12-crown-4 (B12C4) complexes with NH4+, CH3NH3+ (MeNH3+), CH3CH2NH3+ (EtNH3+), and CH3CH2CH2NH3+ (PrNH3+) using cold gas-phase spectroscopy. All of the B12C4 complexes showed sharp vibronic features in the UV photodissociation spectra, and the position of the 0-0 band was close to that of the B12C4 complex with an isotropic K+ guest. This result suggests that the conformation of B12C4 is maintained despite oriented interactions with ammonium guests via anisotropic N-H···O interactions. Further, we measured the IR-UV double-resonance spectra of these complexes in the NH stretching region. In the IR-UV spectra of the EtNH3+ and PrNH3+ complexes, two distinct IR fingerprints were observed depending on the UV probe wavelength selected, indicating the existence of another (second) conformer for these complexes. Quantum chemical calculations clarified that the second conformer of the EtNH3+ and PrNH3+ complexes was partially stabilized by the C-H···π hydrogen bond. The conformation of B12C4 complexes with ammonium ions is strongly affected by the interaction between the alkyl chain of the ion guest and the benzene ring of the B12C4 host, although the main intermolecular interaction occurs between the NH3+ group and crown cavity through the N-H···O hydrogen bonds.
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Affiliation(s)
- Ryosuke Goda
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Saya Kanazawa
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Shiori Machida
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
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16
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Kida M, Wada K, Muramatsu S, Shang R, Yamamoto Y, Inokuchi Y. Spherand complexes with Li + and Na + ions in the gas phase: encapsulation structure and characteristic unimolecular dissociation. Phys Chem Chem Phys 2021; 23:25029-25037. [PMID: 34610066 DOI: 10.1039/d1cp03336k] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We investigated the complexes of Cram's hexa(p-anisole) spherands (SPR, 1) with Li+ and Na+ ions (1·Li+ and 1·Na+) isolated in the gas phase. Despite the small conformational difference between 1·Li+ and 1·Na+ owing to the rigid framework of 1, ultraviolet photodissociation (UVPD) spectroscopy under cryogenic (∼10 K) conditions yielded clearly distinguishable absorption edges: ∼34 000 and ∼34 500 cm-1 for 1·Li+ and 1·Na+, respectively. The spectral assignment and the preorganization characteristics of the host molecule were compared with those of dibenzo-18-crown-6-ether (DB18C6) complexes, which have more flexible frameworks. Furthermore, we revealed the characteristic unimolecular dissociation of the 1·Li+ complex using UVPD and collision-induced dissociation (CID); the formation of fragment ions with dibenzofuran moieties was detected. This dissociation pattern was ascribed to the efficient release of dimethyl ether molecule(s) from the 1·Li+ complex, which is characteristic of the cyclic skeleton formed with six methoxy groups in the SPR.
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Affiliation(s)
- Motoki Kida
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan.
| | - Kanako Wada
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan.
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan.
| | - Rong Shang
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan.
| | - Yohsuke Yamamoto
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan.
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan.
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17
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Yoo IT, Eun HJ, Min A, Jeon CW, Jeong J, Heo J, Kim NJ. Ultraviolet photodissociation circular dichroism spectroscopy of protonated L-phenylalanyl-L-alanine in a cryogenic ion trap. Phys Chem Chem Phys 2021; 23:24180-24186. [PMID: 34676382 DOI: 10.1039/d1cp04030h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
We obtained ultraviolet photodissociation (UVPD) circular dichroism (CD) spectra of protonated L-phenylalanyl-L-alanine (L-H+PheAla) near the origin band of the S0-S1 transition using cryogenic ion spectroscopy. Infrared (IR) ion-dip, IR-UV hole burning (HB) and UV-UV HB spectra showed that L-H+PheAla existed as two different conformers in a cryogenic ion trap, and they had nearly identical peptide backbones but different conformations in the Phe side chain. The UVPD CD spectra revealed that the two conformers had opposite CD signs and significantly different CD magnitudes from each other. These results demonstrate that the CD value of L-H+PheAla near the origin band is strongly influenced by the conformation of the Phe side chain.
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Affiliation(s)
- Il Tae Yoo
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea.
| | - Han Jun Eun
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea.
| | - Ahreum Min
- Department of Chemistry (BK21 +) and Research Institute of Natural Science, Gyeongsang National University, Jinju 52828, Korea
| | - Chang Wook Jeon
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea.
| | - Jinho Jeong
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea.
| | - Jiyoung Heo
- Department of Green Chemical Engineering, Sangmyung University, Chungnam 31066, Korea
| | - Nam Joon Kim
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea.
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18
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Heldmaier FV, Coughlan NJA, Haack A, Huard R, Guna M, Schneider BB, Le Blanc JCY, Campbell JL, Nooijen M, Hopkins WS. UVPD spectroscopy of differential mobility-selected prototropic isomers of protonated adenine. Phys Chem Chem Phys 2021; 23:19892-19900. [PMID: 34525152 DOI: 10.1039/d1cp02688g] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Two prototropic isomers of adenine are formed in an electrospray ion source and are resolved spatially in a differential mobility spectrometer before detection in a triple quadrupole mass spectrometer. Each isomer is gated in CV space before being trapped in the linear ion trap of the modified mass spectrometer, where they are irradiated by the tuneable output of an optical parametric oscillator and undergo photodissociation to form charged fragments with m/z 119, 109, and 94. The photon-normalised intensity of each fragmentation channel is measured and the action spectra for each DMS-gated tautomer are obtained. Our analysis of the action spectra, aided by calculated vibronic spectra and thermochemical data, allow us to assign the two signals in our measured ionograms to specific tautomers of protonated adenine.
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Affiliation(s)
- Fiorella Villanueva Heldmaier
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada. .,Waterloo Institute for Nanotechnology, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada
| | - Neville J A Coughlan
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada. .,Waterloo Institute for Nanotechnology, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada
| | - Alexander Haack
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada. .,Waterloo Institute for Nanotechnology, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada
| | - Rebecca Huard
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada. .,Waterloo Institute for Nanotechnology, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada
| | - Mircea Guna
- SCIEX, Four Valley Drive, Concord, Ontario, L4K 4V8, Canada
| | | | | | - J Larry Campbell
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada. .,Bedrock Scientific Inc., Milton, Ontario, Canada
| | - Marcel Nooijen
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada.
| | - W Scott Hopkins
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada. .,Waterloo Institute for Nanotechnology, University of Waterloo, 200 University Avenue West, Waterloo, Ontario, N2L 3G1, Canada.,Centre for Eye and Vision Research, Hong Kong Science Park, New Territories, Hong Kong.,Watermine Innovation, Waterloo, Ontario, Canada
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19
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Machida S, Kida M, Muramatsu S, Hirao T, Haino T, Inokuchi Y. Gas-Phase UV Spectroscopy of Chemical Intermediates Produced in Solution: Oxidation Reactions of Phenylhydrazines by DDQ. J Phys Chem A 2021; 125:6697-6702. [PMID: 34338532 DOI: 10.1021/acs.jpca.1c04669] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
In this study, we demonstrated cold gas-phase spectroscopy of chemical intermediates produced in solution. Herein, we combined an electrospray ion source with a T-shaped solution mixer for introducing chemical intermediates in solution into the gas phase. Specifically, the oxidation reaction of 2-(4-nitrophenyl)hydrazinecarboxaldehyde (NHCA) by 2,3-dichloro-5,6-dicyano-p-benzoquinone (DDQ) was initiated by mixing the methanol solutions of NHCA and DDQ in the T-shaped mixer, and the chemical species were injected into the vacuum apparatus for ultraviolet photodissociation (UVPD) spectroscopy. A cationic intermediate was strongly observed at m/z 150 in the mass spectrum, and the UVPD spectrum was observed under cold (∼10 K) gas-phase conditions. The UVPD spectrum showed a strong, broad absorption at ∼38,000 cm-1, accompanied by a relatively weak component at ∼34,000 cm-1. These spectral patterns can be ascribed to a diazonium cation intermediate, whose existence has been predicted in a previous study. This report indicates that cold gas-phase UV spectroscopy can be a useful method for identifying the structure of chemical intermediates produced in solution.
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Affiliation(s)
- Shiori Machida
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Motoki Kida
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Takehiro Hirao
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Takeharu Haino
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
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20
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Kitamura Y, Muramatsu S, Abe M, Inokuchi Y. Structural Investigation of Photochemical Intermediates in Solution by Cold UV Spectroscopy in the Gas Phase: Photosubstitution of Dicyanobenzenes by Allylsilanes. J Phys Chem A 2021; 125:6238-6245. [PMID: 34240866 DOI: 10.1021/acs.jpca.1c04807] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Electrospray ion sources with an in-line quartz cell were constructed to produce photochemical intermediates in solution. These ion sources can detect photochemical intermediates having lifetimes longer than a few seconds. Intermediates formed by photosubstitution of 1,4-dicyanobenzene (DCB) by allyltrimethylsilane (AMS) in acetonitrile using a Xe lamp were injected into the mass spectrometer. The cationic intermediate (C11H10N2·H+) was observed at m/z = 171, but no anionic intermediate was found, although C11H9N2- was expected based on prior studies. Theoretical studies suggested that C11H9N2- was simultaneously converted to neutral C11H10N2 and cationic C11H10N2·H+ species, which can be stable intermediates in the photosubstitution reaction. The UV photodissociation (UVPD) spectrum of C11H10N2·H+ under cold (∼10 K) gas-phase conditions determined the conformation of the C11H10N2 unit of the C11H10N2·H+ cation. This report demonstrates that cold gas-phase UV spectroscopy is a prospectively powerful tool for investigation of the electronic and geometric structures of photochemical intermediates produced in solution.
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Affiliation(s)
- Yuma Kitamura
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Manabu Abe
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Advanced Science and Engineering, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
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21
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Eun HJ, Ishiuchi SI, Baek JY, Lee S, Heo J, Fujii M, Kim NJ. Cryogenic ion spectroscopy of adenine complexes containing alkali metal cations. Phys Chem Chem Phys 2021; 23:6783-6790. [PMID: 33720244 DOI: 10.1039/d1cp00312g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Cryogenic ion spectroscopy was used to characterize adenine complexes containing alkali metal cations (M+A, M = Cs, Rb, K, Na, and Li) produced by electrospray ionization. The ultraviolet (UV) photodissociation spectra of the complexes stored in a cryogenic ion trap exhibited well-resolved vibronic bands near their origin bands of the S0-S1 transition. The UV-UV hole-burning and infrared ion-dip spectra showed that all the M+A ions in the ion trap were single isomers of M+A7a, where the M+ ion was not bound to canonical 9H-adenine (A9) but bound to a rare tautomer, 7H-adenine (A7). Density functional theory calculations showed lower tautomerization barriers for M+A9 than for bare A9 in aqueous solution. We suggest that M+ ions not only play a catalytic role in the tautomerization of A9 to A7 but also increase the tautomerization yield by forming stable M+A7a isomers.
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Affiliation(s)
- Han Jun Eun
- Department of Chemistry, Chungbuk National University, Chungbuk 28644, Korea.
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22
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Tainaka S, Ujihira T, Kubo M, Kida M, Shimoyama D, Muramatsu S, Abe M, Haino T, Ebata T, Misaizu F, Ohshimo K, Inokuchi Y. Conformation of K+(Crown Ether) Complexes Revealed by Ion Mobility–Mass Spectrometry and Ultraviolet Spectroscopy. J Phys Chem A 2020; 124:9980-9990. [DOI: 10.1021/acs.jpca.0c09068] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Sota Tainaka
- Department of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
| | - Tomoyuki Ujihira
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Mayuko Kubo
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Motoki Kida
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Daisuke Shimoyama
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Manabu Abe
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Takeharu Haino
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Takayuki Ebata
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
| | - Fuminori Misaizu
- Department of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
| | - Keijiro Ohshimo
- Department of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739-8526, Japan
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23
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Kwon JH, Lee MJ, Song G, Tsuruta K, Ishiuchi SI, Fujii M, Kang H. Cryogenic Ion Spectroscopy of a Singly Protonated Peptide DYYVVR: Locating Phosphorylation Sites of a Kinase Domain. J Phys Chem Lett 2020; 11:7103-7108. [PMID: 32787320 DOI: 10.1021/acs.jpclett.0c01802] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Cryogenic ion spectroscopy (CIS) was applied to singly protonated DYYVVR, a tryptic peptide that contains the two active tyrosine residues (Y980 and Y981) of the Janus kinase 3 (JAK3) kinase domain, together with its point mutants (Y980F and Y981F) and phosphorylated peptides (pY980, pY981, and pY980pY981). The two tyrosine chromophores showed distinguishable UV absorption bands at around 35 200 and 35 450 cm-1, respectively. By comparing with the point mutants, the lower electronic band was assigned to the absorption of Y981, and the higher one was assigned to Y980. When phosphorylated, the UV absorption of the phosphorylated chromophore shifts to higher energy above 36 500 cm-1 but the unphosphorylated chromophore gives the absorption in the same region. Conformer-specific IR spectroscopy and density functional theory (DFT) calculations were used to tentatively assign the structure of DYYVVR. Two conformations were found, where Y981 is solvated by the protonated side chain of arginine R984, and the orientation of the carboxylic OH of D979 was different between the two. It is demonstrated that CIS can be used to distinguish the two tyrosine chromophores and to locate the phosphorylation site of a kinase domain.
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Affiliation(s)
- Jang Han Kwon
- Department of Energy Systems Research, Ajou University, Suwon 16499, Korea
| | - Min Ji Lee
- Department of Energy Systems Research, Ajou University, Suwon 16499, Korea
| | - Gyeongok Song
- Department of Energy Systems Research, Ajou University, Suwon 16499, Korea
| | | | - Shun-Ichi Ishiuchi
- Department of Chemistry, School of Science, Tokyo Institute of Technology, Tokyo 152-8550, Japan
| | | | - Hyuk Kang
- Department of Chemistry, Ajou University, Suwon 16499, Korea
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24
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Omidyan R, Abedini F, Shahrokh L, Azimi G. Excited State Deactivation Mechanism in Protonated Uracil: New Insights from Theoretical Studies. J Phys Chem A 2020; 124:5089-5097. [PMID: 32469520 DOI: 10.1021/acs.jpca.0c02284] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
We have conducted here a theoretical exploration, discussing the distinct excited state lifetimes reported experimentally for the two lowest lying protonated isomers of uracil. In this regard, the first-principal computational levels as well as the nonadiabatic surface hopping dynamics have been employed. It has been revealed that relaxation of the 1ππ* state of enol-enol form (EE+) to the ground is barrier-free via out-of-plane coordinates, resulting in an ultrashort S1 lifetime of this species. For the second most stable isomer (EK+), however, a significant barrier predicted in the CASPT2 S1 potential energy profile along the twisting coordinate has been proposed to explain the relevant long lifetime reported experimentally.
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Affiliation(s)
- Reza Omidyan
- Department of Chemistry, University of Isfahan, 81746-73441 Isfahan, Iran
| | - Fatemeh Abedini
- Department of Chemistry, University of Isfahan, 81746-73441 Isfahan, Iran
| | - Leila Shahrokh
- Department of Chemistry, University of Isfahan, 81746-73441 Isfahan, Iran
| | - Gholamhassan Azimi
- Department of Chemistry, University of Isfahan, 81746-73441 Isfahan, Iran
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25
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Dezalay J, Broquier M, Soorkia S, Hirata K, Ishiuchi SI, Fujii M, Grégoire G. Excited-state proton transfer in protonated adrenaline revealed by cryogenic UV photodissociation spectroscopy. Phys Chem Chem Phys 2020; 22:11498-11507. [PMID: 32393956 DOI: 10.1039/d0cp01127d] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
We report a comprehensive study of the structures and deactivation processes of protonated adrenaline through cryogenic UV photodissociation spectroscopy. Single UV and double-resonance UV-UV hole burning spectroscopies have been performed and compared to coupled-cluster SCS-CC2 calculations performed on the ground and first electronic states. Three conformers were assigned, two lowest energy gauche conformers along with a higher energy conformer with an extended structure which is indeed the global minimum in solution. This demonstrates the kinetic trapping of this high energy gas phase conformer during the electrospray process. At the band origin of all conformers, the main fragmentation channel is the Cα-Cβ bond cleavage, triggered by an excited state proton transfer to the catechol ring. Internal conversion leading to the water loss channel competes with the direct dissociation and tends to prevail with the increase of excess energy brought by the UV laser. Picosecond time-resolved pump-probe spectroscopy was performed to measure the excited state lifetimes of the three conformers of AdH+, which decay with the increase of excess energy in the ππ* state, from 2 ns at the band origin down to few hundreds of picoseconds 0.5 eV to the blue. Finally, about 0.8 eV above the band origin, the πσ* state is directly reached, leading to the opening of the H-loss channel.
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Affiliation(s)
- Jordan Dezalay
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, F-91405 Orsay, France.
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26
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Kubo M, Kida M, Muramatsu S, Inokuchi Y. Induced Fit of Crown Cavity to Ammonium Ion Guests and Photoinduced Intracavity Reactions: Cold Gas-Phase Spectroscopy of Dibenzo-18-Crown-6 Complexes with NH 4+, CH 3NH 3+, and CH 3CH 2NH 3. J Phys Chem A 2020; 124:3228-3241. [PMID: 32255649 DOI: 10.1021/acs.jpca.0c02341] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Ultraviolet photodissociation (UVPD) spectra of dibenzo-18-crown-6 (DB18C6) complexes with NH4+, CH3NH3+ (MeNH3+), and CH3CH2NH3+ (EtNH3+) [NH4+(DB18C6), MeNH3+(DB18C6), and EtNH3+(DB18C6), respectively] were observed under cold gas-phase conditions. We also measured the infrared (IR)-UV double-resonance spectra of these complexes in the NH stretching region to examine the encapsulation structure. The UVPD and IR-UV spectra were analyzed using quantum chemical calculations. All the ammonium complexes show sharp 0-0 bands at positions close to that of the K+(DB18C6) complex; the conformation of the DB18C6 component in the ammonium complexes is similar to that in K+(DB18C6). In addition, the ammonium complexes each have another type of isomer that the K+(DB18C6) complex does not show in the gas phase. In these isomers, the conformation of the DB18C6 cavity changes, and the strength of the NH···O hydrogen bond increases. During the UVPD, the NH4+(DB18C6) complex provides various photofragment species, such as the C8H9O2+ ion, resulting from cleavage of the DB18C6 component, whereas the dominant fragment ion for the MeNH3+(DB18C6) and EtNH3+(DB18C6) complexes is the ammonium ion itself. The UVPD investigation of deuterated systems suggests that after UV excitation of the NH4+(DB18C6) complex, the dissociation process is initiated by proton transfer from NH4+ to DB18C6, followed by the migration of hydrogen atoms in the crown cavity and the cleavage of the ether ring.
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Affiliation(s)
- Mayuko Kubo
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Motoki Kida
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
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27
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Otsuka R, Hirata K, Sasaki Y, Lisy JM, Ishiuchi S, Fujii M. Alkali and Alkaline Earth Metal Ions Complexes with a Partial Peptide of the Selectivity Filter in K
+
Channels Studied by a Cold Ion Trap Infrared Spectroscopy. Chemphyschem 2020; 21:712-724. [DOI: 10.1002/cphc.202000033] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2020] [Revised: 02/12/2020] [Indexed: 12/15/2022]
Affiliation(s)
- Remina Otsuka
- Laboratory for Chemistry and Life ScienceInstitute of Innovative Research, Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama, Kanagawa 226-8503 Japan
| | - Keisuke Hirata
- Laboratory for Chemistry and Life ScienceInstitute of Innovative Research, Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama, Kanagawa 226-8503 Japan
| | - Yuta Sasaki
- Laboratory for Chemistry and Life ScienceInstitute of Innovative Research, Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama, Kanagawa 226-8503 Japan
| | - James M. Lisy
- 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 ChemistryUniversity of Illinois at Urbana-Champaign Urbana IL 61801 USA
| | - Shun‐ichi Ishiuchi
- Laboratory for Chemistry and Life ScienceInstitute of Innovative Research, Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama, Kanagawa 226-8503 Japan
| | - Masaaki Fujii
- Laboratory for Chemistry and Life ScienceInstitute of Innovative Research, Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo 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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28
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Noble JA, Marceca E, Dedonder C, Jouvet C. Influence of the N atom and its position on electron photodetachment of deprotonated indole and azaindole. Phys Chem Chem Phys 2020; 22:27290-27299. [DOI: 10.1039/d0cp03609a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Dipole bound state and its vibrational structure observed in deprotonated 7-azaindole by recording the signal of 7-azaindolyl stable neutral radical.
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Affiliation(s)
- Jennifer A. Noble
- CNRS
- Aix Marseille Univ
- PIIM
- Physique des Interactions Ioniques et Moléculaires
- UMR 7345
| | - Ernesto Marceca
- INQUIMAE (CONICET – Universidad de Buenos Aires)
- DQIAQF (Facultad de Ciencias Exactas y Naturales
- Universidad de Buenos Aires)
- Ciudad Universitaria
- 1428 Buenos Aires
| | - Claude Dedonder
- CNRS
- Aix Marseille Univ
- PIIM
- Physique des Interactions Ioniques et Moléculaires
- UMR 7345
| | - Christophe Jouvet
- CNRS
- Aix Marseille Univ
- PIIM
- Physique des Interactions Ioniques et Moléculaires
- UMR 7345
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29
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Zhu GZ, Wang LS. High-resolution photoelectron imaging and resonant photoelectron spectroscopy via noncovalently bound excited states of cryogenically cooled anions. Chem Sci 2019; 10:9409-9423. [PMID: 32055317 PMCID: PMC6984392 DOI: 10.1039/c9sc03861b] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2019] [Accepted: 09/16/2019] [Indexed: 01/12/2023] Open
Abstract
Valence-bound anions with polar neutral cores (μ > ∼2.5 D) can support dipole-bound excited states below the detachment threshold. These dipole-bound states (DBSs) are highly diffuse and the weakly bound electron in the DBS can be readily autodetached via vibronic coupling. Excited DBSs can be observed in photodetachment spectroscopy using a tunable laser. Tuning the detachment laser to above-threshold vibrational resonances yields vibrationally enhanced resonant photoelectron spectra, which are highly non-Franck-Condon with much richer vibrational information. This perspective describes recent advances in the studies of excited DBSs of cryogenically cooled anions using high-resolution photoelectron imaging (PEI) and resonant photoelectron spectroscopy (rPES). The basic features of dipole-bound excited states and highly non-Franck-Condon resonant photoelectron spectra will be discussed. The power of rPES to yield rich vibrational information beyond conventional PES will be highlighted, especially for low-frequency and Franck-Condon-inactive vibrational modes, which are otherwise not accessible from non-resonant conventional PES. Mode-selectivity and intra-molecular rescattering have been observed during the vibrationally induced autodetachment. Conformer-specific rPES is possible due to the different dipole-bound excited states of molecular conformers with polar neutral cores. For molecules with μ ≪ 2.5 D or without dipole moments, but large quadrupole moments, excited quadrupole-bound states can exist, which can also be used to conduct rPES.
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Affiliation(s)
- Guo-Zhu Zhu
- Department of Chemistry , Brown University , Providence , RI 02912 , USA .
| | - Lai-Sheng Wang
- Department of Chemistry , Brown University , Providence , RI 02912 , USA .
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30
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Kitamura Y, Muramatsu S, Kida M, Ebata T, Inokuchi Y. Geometric and Electronic Structures of Ag +(benzo-18-crown-6), Ag +(dibenzo-18-crown-6), and Ag +(dibenzo-15-crown-5) Complexes Investigated by Cold Gas-Phase Spectroscopy. J Phys Chem A 2019; 123:9185-9192. [DOI: 10.1021/acs.jpca.9b06991] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Yuma Kitamura
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Satoru Muramatsu
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Motoki Kida
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Takayuki Ebata
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
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31
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Ishiuchi SI, Wako H, Xantheas SS, Fujii M. Probing the selectivity of Li + and Na + cations on noradrenaline at the molecular level. Faraday Discuss 2019; 217:396-413. [PMID: 31115392 DOI: 10.1039/c8fd00186c] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Although several mechanisms concerning the biological function of lithium salts, drugs having tranquilizing abilities, have been proposed so far, the key mechanism for its selectivity and subsequent interaction with neurotransmitters has not been established yet. We report ultraviolet (UV) and infrared (IR) spectra under ultra-cold conditions of Li+ and Na+ complexes of noradrenaline (NAd, norepinephrine), a neurotransmitter responsible for the body's response to stress or danger, in an effort to provide a molecular level understanding of the conformational changes of NAd due to its interactions with these two cations. A detailed analysis of the IR spectra, aided by quantum chemical calculations, reveals that the Li+-noradrenaline (NAd-Li+) complex forms only an extended structure, while the NAd-Na+ and protonated (NAd-H+) complexes form both folded and extended structures. This conformational preference of the NAd-Li+ complex is further explained by considering specific conformational distributions in solution. Our results clearly discern the unique structural motifs that NAd adopts when interacting with Li+ compared with other abundant cations in the human body (Na+) and can form the basis of a molecular level understanding of the selectivity of Li+ in biological systems.
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Affiliation(s)
- 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.
| | - Hiromichi Wako
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259, Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.
| | - Sotiris S Xantheas
- Advanced Computing, Mathematics and Data Division, Pacific Northwest National Laboratory, 902 Battelle Boulevard, P.O. Box 999, MS K1-83, Richland, WA 99352, USA. and Department of Chemistry, University of Washington, Seattle, WA 98195, USA
| | - 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.
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32
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Ben Nasr F, Alata I, Scuderi D, Lepère V, Brenner V, Jaïdane NE, Zehnacker A. Effects of complexation with sulfuric acid on the photodissociation of protonated Cinchona alkaloids in the gas phase. Phys Chem Chem Phys 2019; 21:15439-15451. [PMID: 31257399 DOI: 10.1039/c9cp01518c] [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
The effect of complexation with sulfuric acid on the photo-dissociation of protonated Cinchona alkaloids, namely cinchonidine (Cd), quinine (Qn) and quinidine (Qd), is studied by combining laser spectroscopy with quantum chemical calculations. The protonated complexes are structurally characterized in a room-temperature ion trap by means of infra-red multiple photon dissociation (IRMPD) spectroscopy in the fingerprint and the ν(XH) (X = C, N, O) stretch regions. Comparison with density functional theory calculations including dispersion (DFT-D) unambiguously shows that the complex consists of a doubly protonated Cinchona alkaloid strongly bound to a bisulfate HSO4- anion, which bridges the two protonated sites of the Cinchona alkaloid. UV excitation of the complex does not induce loss of specific photo fragments, in contrast to the protonated monomer or dimer, for which photo-specific fragments were observed. Indeed the UV-induced fragmentation pattern is identical to that observed in collision-induced dissociation experiments. Analysis of the nature of the first electronic transitions at the second order approximate coupled-cluster level (CC2) explains the difference in the behavior of the complex relative to the monomer or dimer towards UV excitation.
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Affiliation(s)
- Feriel Ben Nasr
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91405 Orsay, France. and Laboratoire de Spectroscopie Atomique, Moléculaire et Applications (LSAMA) Université de Tunis El Manar, LSAMA, Tunis 1060, Tunisia
| | - Ivan Alata
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91405 Orsay, France.
| | - Debora Scuderi
- Univ. Paris-Sud, Laboratoire de Chimie Physique, UMR 8000, and CNRS, Orsay, F-91405, France
| | - Valeria Lepère
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91405 Orsay, France.
| | | | - Nejm-Eddine Jaïdane
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications (LSAMA) Université de Tunis El Manar, LSAMA, Tunis 1060, Tunisia
| | - Anne Zehnacker
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91405 Orsay, France.
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33
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Ishiuchi SI, Sasaki Y, Lisy JM, Fujii M. Ion-peptide interactions between alkali metal ions and a termini-protected dipeptide: modeling a portion of the selectivity filter in K + channels. Phys Chem Chem Phys 2019; 21:561-571. [PMID: 30351321 DOI: 10.1039/c8cp05839c] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Potassium channels have the unique ability to allow the selective passage of potassium ions at near diffusion-free rates while inhibiting the passage of more abundant sodium ions. Local interactions between chemical functional groups and the ions are responsible for both selectivity and transport. As an initial step in characterizing these interactions, the structures of Na+ and K+ complexed to the Ac-Tyr-NHMe peptide have been determined from infrared laser spectroscopy and supporting ab initio calculations. Ac-Tyr-NHMe, a termini-protected peptide sequence, replicates the GYG portion of one of the four peptide chains comprising the selectivity filter of a K+ channel. This peptide contains two carbonyl groups, among the eight C[double bond, length as m-dash]O groups forming the S1 binding site of the selectivity filter. Three conformations have been identified for both ions by laser IR-IR double resonance methods. Two conformations have the ion bound to the two C[double bond, length as m-dash]O groups. The third conformation has, in addition, a cation-π interaction with the aromatic ring of tyrosine, i.e. tridentate binding. The relative contributions of the three conformers are approximately the same for K+Ac-Tyr-NHMe, while the tridentate conformer is preferred for Na+Ac-Tyr-NHMe. These differences will be discussed in the context of ion mobility and selectivity.
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Affiliation(s)
- Shun-Ichi Ishiuchi
- Laboratory for Chemistry and Life Science, Tokyo Institute of Technology, Yokohama 226-8503, Japan.
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34
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Wada K, Kida M, Muramatsu S, Ebata T, Inokuchi Y. Conformation of alkali metal ion-calix[4]arene complexes investigated by IR spectroscopy in the gas phase. Phys Chem Chem Phys 2019; 21:17082-17086. [DOI: 10.1039/c9cp03194d] [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
The OH bands of M+·C4A shift to the red from K+ to Cs+, indicating reduction of conformer distortion.
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Affiliation(s)
- Kozue Wada
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Hiroshima 739-8526
| | - Motoki Kida
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Hiroshima 739-8526
| | - Satoru Muramatsu
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Hiroshima 739-8526
| | - Takayuki Ebata
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Hiroshima 739-8526
| | - Yoshiya Inokuchi
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Hiroshima 739-8526
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35
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Salehi M, Heidari Z, Omidyan R. Photophysics of Protonated and Microhydrated 2-Aminobenzaldehyde: Theoretical Insights into Photoswitchability of Protonated Systems. J Phys Chem A 2018; 122:8849-8857. [PMID: 30365896 DOI: 10.1021/acs.jpca.8b09930] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
The photoswitchability of a protonated aromatic compound (2-aminobenzaldehyde, 2ABZH+) in its individual and microhydrated states has been addressed based on the RI-MP2/RI-CC2 theoretical methods. Our calculated results give insight into the ultrafast nonradiative deactivation mechanism of the 2ABZH+, driven by a conical intersection between the S1/ S0 potential energy surfaces. Also, it has been predicted that protonation accompanies a significant blue shift effect on the first 1ππ* excited state of 2ABZ by 0.87 eV (at least 50 nm).
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Affiliation(s)
- Mohammad Salehi
- Department of Chemistry , University of Isfahan , 81746-73441 , Isfahan , Iran
| | - Zahra Heidari
- Department of Chemistry , University of Isfahan , 81746-73441 , Isfahan , Iran
| | - Reza Omidyan
- Department of Chemistry , University of Isfahan , 81746-73441 , Isfahan , Iran
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36
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Kida M, Kubo M, Ujihira T, Ebata T, Abe M, Inokuchi Y. Selective Probing of Potassium Ion in Solution by Intramolecular Excimer Fluorescence of Dibenzo-Crown Ethers. Chemphyschem 2018. [DOI: 10.1002/cphc.201800163] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Motoki Kida
- Department of Chemistry, Graduate School of Science; Hiroshima University; Higashi-Hiroshima, Hiroshima 739-8526 Japan
| | - Mayuko Kubo
- Department of Chemistry, Graduate School of Science; Hiroshima University; Higashi-Hiroshima, Hiroshima 739-8526 Japan
| | - Tomoyuki Ujihira
- Department of Chemistry, Graduate School of Science; Hiroshima University; Higashi-Hiroshima, Hiroshima 739-8526 Japan
| | - Takayuki Ebata
- Department of Chemistry, Graduate School of Science; Hiroshima University; Higashi-Hiroshima, Hiroshima 739-8526 Japan
| | - Manabu Abe
- Department of Chemistry, Graduate School of Science; Hiroshima University; Higashi-Hiroshima, Hiroshima 739-8526 Japan
| | - Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Science; Hiroshima University; Higashi-Hiroshima, Hiroshima 739-8526 Japan
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37
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Nieuwjaer N, Desfrançois C, Lecomte F, Manil B, Soorkia S, Broquier M, Grégoire G. Photodissociation Spectroscopy of Cold Protonated Synephrine: Surprising Differences between IR–UV Hole-Burning and IR Photodissociation Spectroscopy of the O–H and N–H Modes. J Phys Chem A 2018; 122:3798-3804. [DOI: 10.1021/acs.jpca.8b01422] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- N. Nieuwjaer
- Laboratoire de Physique des Lasers, CNRS, Université Paris 13, Sorbonne Paris Cité, 93430 Villetaneuse, France
| | - C. Desfrançois
- Laboratoire de Physique des Lasers, CNRS, Université Paris 13, Sorbonne Paris Cité, 93430 Villetaneuse, France
| | - F. Lecomte
- Laboratoire de Physique des Lasers, CNRS, Université Paris 13, Sorbonne Paris Cité, 93430 Villetaneuse, France
| | - B. Manil
- Laboratoire de Physique des Lasers, CNRS, Université Paris 13, Sorbonne Paris Cité, 93430 Villetaneuse, France
| | - S. Soorkia
- Institut des Sciences Moléculaires d’Orsay (ISMO), CNRS, Univ. Paris Sud, Université Paris-Saclay, F-91405 Orsay, France
- Centre Laser de l’Université Paris-Sud (CLUPS/LUMAT), Univ. Paris-Sud, CNRS, IOGS, Université Paris-Saclay, F-91405 Orsay, France
| | - M. Broquier
- Institut des Sciences Moléculaires d’Orsay (ISMO), CNRS, Univ. Paris Sud, Université Paris-Saclay, F-91405 Orsay, France
- Centre Laser de l’Université Paris-Sud (CLUPS/LUMAT), Univ. Paris-Sud, CNRS, IOGS, Université Paris-Saclay, F-91405 Orsay, France
| | - G. Grégoire
- Institut des Sciences Moléculaires d’Orsay (ISMO), CNRS, Univ. Paris Sud, Université Paris-Saclay, F-91405 Orsay, France
- Centre Laser de l’Université Paris-Sud (CLUPS/LUMAT), Univ. Paris-Sud, CNRS, IOGS, Université Paris-Saclay, F-91405 Orsay, France
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38
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Noble JA, Broquier M, Grégoire G, Soorkia S, Pino G, Marceca E, Dedonder-Lardeux C, Jouvet C. Tautomerism and electronic spectroscopy of protonated 1- and 2-aminonaphthalene. Phys Chem Chem Phys 2018; 20:6134-6145. [DOI: 10.1039/c8cp00218e] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Protonation sites can be controlled by the electrospray source as written in the figure.
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Affiliation(s)
- Jennifer A. Noble
- CNRS
- Aix Marseille Université
- Physique des Interactions Ioniques et Moléculaires
- UMR 7345
- Marseille
| | - Michel Broquier
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- Institut des Sciences Moléculaires d’Orsay (ISMO)
- F-91405 Orsay
| | - Gilles Grégoire
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- Institut des Sciences Moléculaires d’Orsay (ISMO)
- F-91405 Orsay
| | - Satchin Soorkia
- CNRS
- Univ. Paris-Sud
- Université Paris-Saclay
- Institut des Sciences Moléculaires d’Orsay (ISMO)
- F-91405 Orsay
| | - Gustavo Pino
- INFIQC (CONICET – Universidad Nacional de Cordoba)
- Ciudad Universitaria
- X5000HUA Cordoba
- Argentina
- Dpto. de Fisicoquimica
| | - Ernesto Marceca
- INQUIMAE (CONICET – Universidad de Buenos Aires)
- DQIAQF – Facultad de Ciencias Exactas y Naturales
- Universidad de Buenos Aires
- 1428 Buenos Aires
- Argentina
| | - Claude Dedonder-Lardeux
- CNRS
- Aix Marseille Université
- Physique des Interactions Ioniques et Moléculaires
- UMR 7345
- Marseille
| | - Christophe Jouvet
- CNRS
- Aix Marseille Université
- Physique des Interactions Ioniques et Moléculaires
- UMR 7345
- Marseille
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39
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Fujii A, Sugawara N, Hsu PJ, Shimamori T, Li YC, Hamashima T, Kuo JL. Hydrogen bond network structures of protonated short-chain alcohol clusters. Phys Chem Chem Phys 2018; 20:14971-14991. [DOI: 10.1039/c7cp08072g] [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
Protonated alcohol clusters enable extraction of the physical essence of the nature of hydrogen bond networks.
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Affiliation(s)
- Asuka Fujii
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Natsuko Sugawara
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Po-Jen Hsu
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617
- Taiwan
| | - Takuto Shimamori
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Ying-Cheng Li
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617
- Taiwan
| | - Toru Hamashima
- Department of Chemistry
- Graduate School of Science
- Tohoku University
- Sendai 980-8578
- Japan
| | - Jer-Lai Kuo
- Institute of Atomic and Molecular Sciences
- Academia Sinica
- Taipei 10617
- Taiwan
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40
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Kida M, Shimoyama D, Ikeda T, Sekiya R, Haino T, Ebata T, Jouvet C, Inokuchi Y. Pseudorotaxanes in the gas phase: structure and energetics of protonated dibenzylamine–crown ether complexes. Phys Chem Chem Phys 2018; 20:18678-18687. [DOI: 10.1039/c8cp02707b] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Barrier in the “slippage” process with 24C8 and dBAMH+ is lower than the dissociation threshold in the gas phase.
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Affiliation(s)
- Motoki Kida
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Daisuke Shimoyama
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Toshiaki Ikeda
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Ryo Sekiya
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Takeharu Haino
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Takayuki Ebata
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Christophe Jouvet
- CNRS
- Aix-Marseille Université
- Physique des Interactions Ioniques et Moléculaires (PIIM)
- UMR-7345
- Marseille
| | - Yoshiya Inokuchi
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
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41
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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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42
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Bull JN, Coughlan NJA, Bieske EJ. Protomer-Specific Photochemistry Investigated Using Ion Mobility Mass Spectrometry. J Phys Chem A 2017; 121:6021-6027. [DOI: 10.1021/acs.jpca.7b05800] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- James N. Bull
- School of Chemistry, University of Melbourne, Parkville, VIC 3010, Australia
| | | | - Evan J. Bieske
- School of Chemistry, University of Melbourne, Parkville, VIC 3010, Australia
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43
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Omidyan R, Amanollahi Z, Azimi G. Protonated serotonin: Geometry, electronic structures and photophysical properties. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017; 182:8-16. [PMID: 28388475 DOI: 10.1016/j.saa.2017.03.069] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2016] [Revised: 03/25/2017] [Accepted: 03/30/2017] [Indexed: 06/07/2023]
Abstract
The geometry and electronic structures of protonated serotonin have been investigated by the aim of MP2 and CC2 methods. The relative stabilities, transition energies and geometry of sixteen different protonated isomers of serotonin have been presented. It has been predicted that protonation does not exhibit essential alteration on the S1←S0 electronic transition energy of serotonin. Instead, more complicated photophysical nature in respect to its neutral analogue is suggested for protonated system owing to radiative and non-radiative deactivation pathways. In addition to hydrogen detachment (HD), hydrogen/proton transfer (H/PT) processes from ammonium to indole ring along the NH+⋯π hydrogen bond have been predicted as the most important photophysical consequences of SERH+ at S1 excited state. The PT processes is suggested to be responsible for fluorescence of SERH+ while the HD driving coordinate is proposed for elucidation of its nonradiative deactivation mechanism.
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Affiliation(s)
- Reza Omidyan
- Department of Chemistry, University of Isfahan, 81746-73441, Isfahan, Iran.
| | - Zohreh Amanollahi
- Department of Chemistry, University of Isfahan, 81746-73441, Isfahan, Iran
| | - Gholamhassan Azimi
- Department of Chemistry, University of Isfahan, 81746-73441, Isfahan, Iran
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44
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Ishikawa H, Kurusu I, Yagi R, Kato R, Kasahara Y. Quantitative Temperature Dependence of the Microscopic Hydration Structures Investigated by Ultraviolet Photodissociation Spectroscopy of Hydrated Phenol Cations. J Phys Chem Lett 2017; 8:2541-2546. [PMID: 28530816 DOI: 10.1021/acs.jpclett.7b01165] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
To discuss the temperature effect on microscopic hydration structures in clusters, relative populations of the isomers having different hydration structures at well-defined temperatures are quite important. In the present study, we measured ultraviolet photodissociation spectra of the temperature-controlled hydrated phenol cation [PhOH(H2O)5]+ trapped in the 22-pole ion trap. Two isomers having a distinct hydration motif with each other are identified in the spectra, and a clear change in the relative populations is observed in the temperature range from 30 to 150 K. This behavior is quantitatively interpreted by statistical mechanical estimation based on density functional theory calculations. A ring with tail-type hydration motif is dominant in cold conditions, whereas a chain-like motif is dominant in hot conditions. The present study provides very quantitative information about the temperature effect on the microscopic hydration structures.
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Affiliation(s)
- Haruki Ishikawa
- Department of Chemistry, School of Science, Kitasato University , Minami-ku, Sagamihara 252-0373, Japan
| | - Itaru Kurusu
- Department of Chemistry, School of Science, Kitasato University , Minami-ku, Sagamihara 252-0373, Japan
| | - Reona Yagi
- Department of Chemistry, School of Science, Kitasato University , Minami-ku, Sagamihara 252-0373, Japan
| | - Ryota Kato
- Department of Chemistry, School of Science, Kitasato University , Minami-ku, Sagamihara 252-0373, Japan
| | - Yasutoshi Kasahara
- Department of Chemistry, School of Science, Kitasato University , Minami-ku, Sagamihara 252-0373, Japan
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45
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Noble JA, Dedonder-Lardeux C, Mascetti J, Jouvet C. Electronic Spectroscopy of Protonated 1-Aminopyrene in a Cold Ion Trap. Chem Asian J 2017; 12:1523-1531. [DOI: 10.1002/asia.201700327] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2017] [Revised: 03/31/2017] [Indexed: 12/28/2022]
Affiliation(s)
- Jennifer Anna Noble
- Institut des Sciences Moléculaires (ISM, UMR 5255); Université de Bordeaux and CNRS; 351 Cours de la Libération F-33405 Talence France
| | - Claude Dedonder-Lardeux
- CNRS, Aix-Marseille Université, PIIM UMR 7345; Avenue Escadrille Normandie-Niémen 13397 Marseille Cedex 20 France
| | - Joëlle Mascetti
- Institut des Sciences Moléculaires (ISM, UMR 5255); Université de Bordeaux and CNRS; 351 Cours de la Libération F-33405 Talence France
| | - Christophe Jouvet
- CNRS, Aix-Marseille Université, PIIM UMR 7345; Avenue Escadrille Normandie-Niémen 13397 Marseille Cedex 20 France
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46
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Féraud G, Domenianni L, Marceca E, Dedonder-Lardeux C, Jouvet C. Photodissociation Electronic Spectra of Cold Protonated Quinoline and Isoquinoline in the Gas Phase. J Phys Chem A 2017; 121:2580-2587. [DOI: 10.1021/acs.jpca.7b01301] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Géraldine Féraud
- CNRS, Aix-Marseille Université, PIIM UMR 7365, Avenue Escadrille Normandie-Niémen, 13397 Marseille Cedex 20, France
| | - Luis Domenianni
- Facultad
de Ciencias Exactas y Naturales, DQIAF, Universidad de Buenos Aires, Ciudad Universitaria, 1er piso, Pab. II, C1428EGA, Buenos Aires, Argentina
- Instituto
de Química Física de los Materiales, Medio Ambiente
y Energía (INQUIMAE), CONICET-UBA, Ciudad Universitaria, 3er piso,
Pab. II, C1428EGA, Buenos Aires, Argentina
| | - Ernesto Marceca
- Facultad
de Ciencias Exactas y Naturales, DQIAF, Universidad de Buenos Aires, Ciudad Universitaria, 1er piso, Pab. II, C1428EGA, Buenos Aires, Argentina
- Instituto
de Química Física de los Materiales, Medio Ambiente
y Energía (INQUIMAE), CONICET-UBA, Ciudad Universitaria, 3er piso,
Pab. II, C1428EGA, Buenos Aires, Argentina
| | - Claude Dedonder-Lardeux
- CNRS, Aix-Marseille Université, PIIM UMR 7365, Avenue Escadrille Normandie-Niémen, 13397 Marseille Cedex 20, France
| | - Christophe Jouvet
- CNRS, Aix-Marseille Université, PIIM UMR 7365, Avenue Escadrille Normandie-Niémen, 13397 Marseille Cedex 20, France
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47
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Inokuchi Y, Kida M, Ebata T. Geometric and Electronic Structures of Dibenzo-15-Crown-5 Complexes with Alkali Metal Ions Studied by UV Photodissociation and UV–UV Hole-Burning Spectroscopy. J Phys Chem A 2017; 121:954-962. [DOI: 10.1021/acs.jpca.6b09653] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yoshiya Inokuchi
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Motoki Kida
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Takayuki Ebata
- Department of Chemistry, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526, Japan
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48
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Garcia RL, Nieuwjaer N, Desfrançois C, Lecomte F, Leite SD, Manil B, Broquier M, Grégoire G. Vibronic spectra of protonated hydroxypyridines: contributions of prefulvenic and planar structures. Phys Chem Chem Phys 2017; 19:8258-8268. [DOI: 10.1039/c6cp08623c] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The UV photofragmentation spectra of cold protonated hydroxypyridines display well resolved vibrational structures, interpreted with calculations at the CC2 level.
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Affiliation(s)
- R. Lozada Garcia
- Laboratoire de Physique des Lasers
- CNRS
- Université Paris 13
- Sorbonne Paris Cité
- France
| | - N. Nieuwjaer
- Laboratoire de Physique des Lasers
- CNRS
- Université Paris 13
- Sorbonne Paris Cité
- France
| | - C. Desfrançois
- Laboratoire de Physique des Lasers
- CNRS
- Université Paris 13
- Sorbonne Paris Cité
- France
| | - F. Lecomte
- Laboratoire de Physique des Lasers
- CNRS
- Université Paris 13
- Sorbonne Paris Cité
- France
| | - S. D. Leite
- Laboratoire de Physique des Lasers
- CNRS
- Université Paris 13
- Sorbonne Paris Cité
- France
| | - B. Manil
- Laboratoire de Physique des Lasers
- CNRS
- Université Paris 13
- Sorbonne Paris Cité
- France
| | - M. Broquier
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris Sud
- Université Paris-Saclay
- F-91405 Orsay
| | - G. Grégoire
- Institut des Sciences Moléculaires d'Orsay (ISMO)
- CNRS
- Univ. Paris Sud
- Université Paris-Saclay
- F-91405 Orsay
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49
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Inokuchi Y, Hirai K, Ebata T. Electronic structure and conformational conversion of calix[4]arene complexes with alkali metal ions. Phys Chem Chem Phys 2017; 19:12857-12867. [DOI: 10.1039/c7cp01580a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The UV spectra of M+·(calix[4]arene) complexes under cold gas-phase conditions suggest an interaction between two of the four benzene rings in the M = Na and K complexes.
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Affiliation(s)
- Yoshiya Inokuchi
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Kenta Hirai
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
| | - Takayuki Ebata
- Department of Chemistry
- Graduate School of Science
- Hiroshima University
- Higashi-Hiroshima
- Japan
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50
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Wako H, Ishiuchi SI, Kato D, Féraud G, Dedonder-Lardeux C, Jouvet C, Fujii M. A conformational study of protonated noradrenaline by UV–UV and IR dip double resonance laser spectroscopy combined with an electrospray and a cold ion trap method. Phys Chem Chem Phys 2017; 19:10777-10785. [DOI: 10.1039/c6cp08426e] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
In protonated noradrenaline, 3 folded and 2 extended conformers were identified under the ultra-cold condition.
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Affiliation(s)
- Hiromichi Wako
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
| | - Shun-ichi Ishiuchi
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
| | - Daichi Kato
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
| | - Géraldine Féraud
- CNRS
- Aix-Marseille Université
- PIIM UMR 7365
- Avenue Escadrille Normandie-Niémen
- 13397 Marseille Cedex 20
| | - Claude Dedonder-Lardeux
- CNRS
- Aix-Marseille Université
- PIIM UMR 7365
- Avenue Escadrille Normandie-Niémen
- 13397 Marseille Cedex 20
| | - Christophe Jouvet
- CNRS
- Aix-Marseille Université
- PIIM UMR 7365
- Avenue Escadrille Normandie-Niémen
- 13397 Marseille Cedex 20
| | - Masaaki Fujii
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
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