1
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Wang Y, Zhan S, Hu Y, Chen X, Yin S. Understanding the Formation and Growth of New Atmospheric Particles at the Molecular Level through Laboratory Molecular Beam Experiments. Chempluschem 2024:e202400108. [PMID: 38497136 DOI: 10.1002/cplu.202400108] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2024] [Revised: 03/15/2024] [Accepted: 03/15/2024] [Indexed: 03/19/2024]
Abstract
Atmospheric new particle formation (NPF), which exerts comprehensive implications for climate, air quality and human health, has received extensive attention. From molecule to cluster is the initial and most important stage of the nucleation process of atmospheric new particles. However, due to the complexity of the nucleation process and limitations of experimental characterization techniques, there is still a great uncertainty in understanding the nucleation mechanism at the molecular level. Laboratory-based molecular beam methods can experimentally implement the generation and growth of typical atmospheric gas-phase nucleation precursors to nanoscale clusters, characterize the key physical and chemical properties of clusters such as structure and composition, and obtain a series of their physicochemical parameters, including association rate coefficients, electron binding energy, pickup cross section and pickup probability and so on. These parameters can quantitatively illustrate the physicochemical properties of the cluster, and evaluate the effect of different gas phase nucleation precursors on the formation and growth of atmospheric new particles. We review the present literatures on atmospheric cluster formation and reaction employing the experimental method of laboratory molecular beam. The experimental apparatuses were classified and summarized from three aspects of cluster generation, growth and detection processes. Focus of this review is on the properties of nucleation clusters involving different precursor molecules of water, sulfuric acid, nitric acid and NxOy, respectively. We hope this review will provide a deep insight for effects of cluster physicochemical properties on nucleation, and reveal the formation and growth mechanism of atmospheric new particle at the molecular level.
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Affiliation(s)
- Yadong Wang
- MOE & Guangdong Province Key Laboratory of Laser Life Science & Institute of Laser Life Science & Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, P. R. China
| | - Shiyu Zhan
- MOE & Guangdong Province Key Laboratory of Laser Life Science & Institute of Laser Life Science & Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, P. R. China
| | - Yongjun Hu
- MOE & Guangdong Province Key Laboratory of Laser Life Science & Institute of Laser Life Science & Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, P. R. China
| | - Xi Chen
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, P. R. China
| | - Shi Yin
- MOE & Guangdong Province Key Laboratory of Laser Life Science & Institute of Laser Life Science & Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, P. R. China
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2
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Molina F, Dezalay J, Tabata JI, Soorkia S, Broquier M, Hirata K, Ishiuchi SI, Fujii M, Grégoire G. Conformer-selective Photodynamics of TrpH + -H 2 O. Chemphyschem 2023; 24:e202200561. [PMID: 36177693 PMCID: PMC10092157 DOI: 10.1002/cphc.202200561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 09/06/2022] [Indexed: 01/20/2023]
Abstract
The photodynamics of protonated tryptophan and its mono hydrated complex TrpH+ -H2 O has been revisited. A combination of steady-state IR and UV cryogenic ion spectroscopies with picosecond pump-probe photodissociation experiments sheds new lights on the deactivation processes of TrpH+ and conformer-selected TrpH+ -H2 O complex, supported by quantum chemistry calculations at the DFT and coupled-cluster levels for the ground and excited states, respectively. TrpH+ excited at the band origin exhibits a transient of less than 100 ps, assigned to the lifetime of the excited state proton transfer (ESPT) structure. The two experimentally observed conformers of TrpH+ -H2 O have been assigned. A striking result arises from the conformer-selective photodynamics of TrpH+ -H2 O, in which a single water molecule inserted in between the ammonium and the indole ring hinders the barrierless ESPT reaction responsible for the ultra-fast deactivation process observed in the other conformer and in bare TrpH+ .
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Affiliation(s)
- Franco Molina
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, 91405, Orsay, France.,INFIQC (CONICET-UNC). Departamento de Fisicoquímica, Fac. de Ciencias Químicas. Centro Láser de Ciencias Moleculares., Universidad Nacional de Córdoba, Ciudad Universitaria Pabellón Argentina, X5000HUA, Córdoba, Argentina
| | - Jordan Dezalay
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, 91405, Orsay, France
| | - Jun-Ichi Tabata
- 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 Nagatsu-ta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Satchin Soorkia
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, 91405, Orsay, France
| | - Michel Broquier
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, 91405, Orsay, France
| | - 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
| | - 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 Nagatsu-ta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Gilles Grégoire
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, 91405, Orsay, France.,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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3
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McGrogan A, Byrne EL, Guiney R, Headen TF, Youngs TGA, Chrobok A, Holbrey JD, Swadźba-Kwaśny M. The structure of protic ionic liquids based on sulfuric acid, doped with excess of sulfuric acid or with water. Phys Chem Chem Phys 2023; 25:9785-9795. [PMID: 36647728 DOI: 10.1039/d2cp04292d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
Neutron scattering with isotopic substitution was used to study the structure of concentrated sulfuric acid, and two protic ionic liquids (PILs): a Brønsted-acidic PIL, synthesised using pyridine and excess of sulfuric acid, [Hpy][HSO4]·H2SO4, and a hydrated PIL, in which an equimolar mixture of sulfuric acid and pyridine has been doped with water, [Hpy][HSO4]·2H2O. Brønsted acidic PILs are excellent solvents/catalysts for esterifications, driving reaction to completion by phase-separating water and ester products. Water-doped PILs are efficient solvents/antisolvents in biomass fractionation. This study was carried out to provide an insight into the relationship between the performance of PILs in the two respective processes and their liquid structure. It was found that a persistent sulfate/sulfuric acid/water network structure was retained through the transition from sulfuric acid to PILs, even in the presence of 2 moles (∼17 wt%) of water. Hydrogen sulfate PILs have the propensity to incorporate water into hydrogen-bonded anionic chains, with strong and directional hydrogen bonds, which essentially form a new water-in-salt solvent system, with its own distinct structure and physico-chemical properties. It is the properties of this hydrated PIL that can be credited both for the good performance in esterification and beneficial solvent/antisolvent behaviour in biomass fractionation.
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Affiliation(s)
- Anne McGrogan
- The QUILL Research Centre, School of Chemistry and Chemical Engineering, Queen's University Belfast, Belfast, BT9 5AG, UK.
| | - Emily L Byrne
- The QUILL Research Centre, School of Chemistry and Chemical Engineering, Queen's University Belfast, Belfast, BT9 5AG, UK.
| | - Robert Guiney
- The QUILL Research Centre, School of Chemistry and Chemical Engineering, Queen's University Belfast, Belfast, BT9 5AG, UK.
| | - Thomas F Headen
- Rutherford Appleton Laboratory, Chilton, Didcot, OX11 0QX, UK
| | | | - Anna Chrobok
- Department of Chemical Organic Technology and Petrochemistry, Silesian University of Technology, Krzywoustego 4, 44-100, Gilwice, Poland
| | - John D Holbrey
- The QUILL Research Centre, School of Chemistry and Chemical Engineering, Queen's University Belfast, Belfast, BT9 5AG, UK.
| | - Małgorzata Swadźba-Kwaśny
- The QUILL Research Centre, School of Chemistry and Chemical Engineering, Queen's University Belfast, Belfast, BT9 5AG, UK.
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4
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Zviagin A, Kopysov V, Nagornova NS, Boyarkin OV. Tracking local and global structural changes in a protein by cold ion spectroscopy. Phys Chem Chem Phys 2022; 24:8158-8165. [PMID: 35332911 DOI: 10.1039/d2cp00217e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Characterization of native structures of proteins in the gas phase remains challenging due to the unpredictable conformational changes the molecules undergo during desolvation and ionization. We spectroscopically studied cryogenically cooled protonated protein ubiquitin and its microhydrated complexes prepared in the gas phase in a range of charge states under different ionization conditions. The UV spectra appear vibrationally resolved for the unfolded protein, but become redshifted and smooth for the native-like structures of ubiquitin. This spectroscopic change results from the H-bonding of the hydroxyl of Tyr to the amide group of Glu-51 in the compact structures; the minimum length of this bond was estimated to be ∼1.7 Å. IR spectroscopy reflects the global structural change by observing redshifts of free NH/OH-stretch vibrational transitions. Evaporative cooling of microhydrated complexes of ubiquitin keeps the protein chilly during ionization, enabling native-like conformers with up to eight protons to survive in the gas phase.
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Affiliation(s)
- Andrei Zviagin
- Laboratoire de Chimie Physique Moléculaire, École Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland.
| | - Vladimir Kopysov
- Laboratoire de Chimie Physique Moléculaire, École Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland.
| | - Natalia S Nagornova
- Laboratoire de Chimie Physique Moléculaire, École Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland.
| | - Oleg V Boyarkin
- Laboratoire de Chimie Physique Moléculaire, École Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland.
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5
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Harrilal CP, DeBlase AF, McLuckey SA, Zwier TS. Two-Color IRMPD Applied to Conformationally Complex Ions: Probing Cold Ion Structure and Hot Ion Unfolding. J Phys Chem A 2021; 125:9394-9404. [PMID: 34644093 DOI: 10.1021/acs.jpca.1c08388] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Two-color infrared multiphoton dissociation (2C-IRMPD) spectroscopy is a technique that mitigates spectral distortions due to nonlinear absorption that is inherent to one-color IRMPD. We use a 2C-IRMPD scheme that incorporates two independently tunable IR sources, providing considerable control over the internal energy content and type of spectrum obtained by varying the trap temperature, the time delays and fluences of the two infrared lasers, and whether the first or second laser wavelength is scanned. In this work, we describe the application of this variant of 2C-IRMPD to conformationally complex peptide ions. The 2C-IRMPD technique is used to record near-linear action spectra of both cations and anions with temperatures ranging from 10 to 300 K. We also determine the conditions under which it is possible to record IR spectra of single conformers in a conformational mixture. Furthermore, we demonstrate the capability of the technique to explore conformational unfolding by recording IR spectra with widely varying internal energy in the ion. The protonated peptide ions YGGFL (NH3+-Tyr-Gly-Gly-Phe-Leu, Leu-enkephalin) and YGPAA (NH3+-Tyr-Gly-Pro-Ala-Ala) are used as model systems for exploring the advantages and disadvantages of the method when applied to conformationally complex ions.
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Affiliation(s)
- Christopher P Harrilal
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084, United States
| | - Andrew F DeBlase
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084, United States
| | - Scott A McLuckey
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084, United States
| | - Timothy S Zwier
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084, United States.,Combustion Research Facility, Sandia National Laboratories, Livermore, California 94550, United States
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6
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Zeng HJ, Johnson MA. Demystifying the Diffuse Vibrational Spectrum of Aqueous Protons Through Cold Cluster Spectroscopy. Annu Rev Phys Chem 2021; 72:667-691. [PMID: 33646816 DOI: 10.1146/annurev-physchem-061020-053456] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The ease with which the pH is routinely determined for aqueous solutions masks the fact that the cationic product of Arrhenius acid dissolution, the hydrated proton, or H+(aq), is a remarkably complex species. Here, we review how results obtained over the past 30 years in the study of H+⋅(H2O)n cluster ions isolated in the gas phase shed light on the chemical nature of H+(aq). This effort has also revealed molecular-level aspects of the Grotthuss relay mechanism for positive-charge translocation in water. Recently developed methods involving cryogenic cooling in radiofrequency ion traps and the application of two-color, infrared-infrared (IR-IR) double-resonance spectroscopy have established a clear picture of how local hydrogen-bond topology drives the diverse spectral signatures of the excess proton. This information now enables a new generation of cluster studies designed to unravel the microscopic mechanics underlying the ultrafast relaxation dynamics displayed by H+(aq).
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Affiliation(s)
- Helen J Zeng
- Sterling Chemistry Laboratory, Yale University, New Haven, Connecticut 06520, USA;
| | - Mark A Johnson
- Sterling Chemistry Laboratory, Yale University, New Haven, Connecticut 06520, USA;
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7
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Becker D, Dierking CW, Suchan J, Zurheide F, Lengyel J, Fárník M, Slavíček P, Buck U, Zeuch T. Temperature evolution in IR action spectroscopy experiments with sodium doped water clusters. Phys Chem Chem Phys 2021; 23:7682-7695. [PMID: 33496289 DOI: 10.1039/d0cp05390b] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The combination of supersonic expansions with IR action spectroscopy techniques is the basis of many successful approaches to study cluster structure and dynamics. The effects of temperature and temperature evolution are important with regard to both the cluster synthesis and the cluster dynamics upon IR excitation. In the past the combination of the sodium doping technique with IR excitation enhanced near threshold photoionization has been successfully applied to study neutral, especially water clusters. In this work we follow an overall examination approach for inspecting the interplay of cluster temperature and cluster structure in the initial cooling process and in the IR excitation induced heating of the clusters. In molecular simulations, we study the temperature dependent photoionization spectra of the sodium doped clusters and the evaporative cooling process by water molecule ejection at the cluster surface. We present a comprehensive analysis that provides constraints for the temperature evolution from the nozzle to cluster detection in the mass spectrometer. We attribute the IR action effect to the strong temperature dependence of sodium solvation in the IR excited clusters and we discuss the effects of geometry changes during the IR multi-photon absorption process with regard to application prospects of the method.
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Affiliation(s)
- Daniel Becker
- Universität Göttingen, Institut für Physikalische Chemie, Tammannstr. 6, 37077 Göttingen, Germany.
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8
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Fárník M, Fedor J, Kočišek J, Lengyel J, Pluhařová E, Poterya V, Pysanenko A. Pickup and reactions of molecules on clusters relevant for atmospheric and interstellar processes. Phys Chem Chem Phys 2021; 23:3195-3213. [PMID: 33524089 DOI: 10.1039/d0cp06127a] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
In this perspective, we review experiments with molecules picked up on large clusters in molecular beams with the focus on the processes in atmospheric and interstellar chemistry. First, we concentrate on the pickup itself, and we discuss the pickup cross sections. We measure the uptake of different atmospheric molecules on mixed nitric acid-water clusters and determine the accommodation coefficients relevant for aerosol formation in the Earth's atmosphere. Then the coagulation of the adsorbed molecules on the clusters is investigated. In the second part of this perspective, we review examples of different processes triggered by UV-photons or electrons in the clusters with embedded molecules. We start with the photodissociation of hydrogen halides and Freon CF2Cl2 on ice nanoparticles in connection with the polar stratospheric ozone depletion. Next, we mention reactions following the excitation and ionization of the molecules adsorbed on clusters. The first ionization-triggered reaction observed between two different molecules picked up on the cluster was the proton transfer between methanol and formic acid deposited on large argon clusters. Finally, negative ion reactions after slow electron attachment are illustrated by two examples: mixed nitric acid-water clusters, and hydrogen peroxide deposited on large ArN and (H2O)N clusters. The selected examples are discussed from the perspective of the atmospheric and interstellar chemistry, and several future directions are proposed.
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Affiliation(s)
- Michal Fárník
- J. Heyrovský Institute of Physical Chemistry, v.v.i., The Czech Academy of Sciences, Dolejškova 2155/3, 182 23 Prague, Czech Republic.
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9
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Khuu T, Yang N, Johnson MA. Vibrational spectroscopy of the cryogenically cooled O- and N-protomers of 4-Aminobenzoic acid: Tag effects, isotopic labels, and identification of the E,Z isomer of the O-protomer. INTERNATIONAL JOURNAL OF MASS SPECTROMETRY 2020; 457:116427. [PMID: 32982573 PMCID: PMC7511085 DOI: 10.1016/j.ijms.2020.116427] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
4-Aminobenzoic acid (4ABA) is a biologically relevant, small organic molecule with two protonation sites: the amino group (N-protomer) and the carboxyl group (O-protomer). The O-protomer is energetically preferred in the gas-phase, while the higher energy N-protomer can be trapped using aprotic solvents such as acetonitrile during electrospray ionization. Here, we focus on the structure of the O-protomer, which can occur in three low-lying isomeric forms that result from different orientations of the OH groups relative to the benzene ring. We report the vibrational spectra of both N- and O-protomers of the cryogenically cooled ions in the gas phase over the spectral range 800-4000 cm-1. The bands arising from the OH stretches are isolated from the nearby NH stretching fundamentals using isotopic labeling as well as by analysis of the shifts in these fundamentals upon attachment of D2 and N2 molecules to the OH groups of the O-protomer. The spectra of isomers derived from the different locations of the adducts were isolated using two-color, IR-IR photofragmentation spectroscopy. The docking motifs by which the O-protomer binds to another 4ABA molecule is also explored and found to feature a bifurcated arrangement involving attachment of both OH groups of the protonated head group to the carbonyl group of the neutral partner.
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Affiliation(s)
- Thien Khuu
- Sterling Chemistry Laboratory, Yale University, New Haven, CT, 06520
| | - Nan Yang
- Sterling Chemistry Laboratory, Yale University, New Haven, CT, 06520
| | - Mark A Johnson
- Sterling Chemistry Laboratory, Yale University, New Haven, CT, 06520
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10
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Cruz‐Ortiz AF, Taccone MI, Maitre P, Rossa M, Pino GA. On the Interaction between Deprotonated Cytosine [C
(−H)
]
−
and Ba
2+
: Infrared Multiphoton Spectroscopy and Dynamics. Chemphyschem 2020; 21:2571-2582. [DOI: 10.1002/cphc.202000696] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2020] [Revised: 09/21/2020] [Indexed: 01/11/2023]
Affiliation(s)
- Andrés F. Cruz‐Ortiz
- INFIQC (CONICET-UNC) Ciudad Universitaria Pabellón Argentina 5000 Córdoba Argentina
- Departamento de Fisicoquímica Fac. de Ciencias Químicas Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
- Centro Láser de Ciencias Moleculares Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
| | - Martín I. Taccone
- INFIQC (CONICET-UNC) Ciudad Universitaria Pabellón Argentina 5000 Córdoba Argentina
- Departamento de Fisicoquímica Fac. de Ciencias Químicas Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
- Centro Láser de Ciencias Moleculares Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
| | - Philippe Maitre
- Université Paris-Saclay CNRS, Institut de Chimie Physique 91405 Orsay France
| | - Maximiliano Rossa
- INFIQC (CONICET-UNC) Ciudad Universitaria Pabellón Argentina 5000 Córdoba Argentina
- Departamento de Fisicoquímica Fac. de Ciencias Químicas Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
- Centro Láser de Ciencias Moleculares Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
| | - Gustavo A. Pino
- INFIQC (CONICET-UNC) Ciudad Universitaria Pabellón Argentina 5000 Córdoba Argentina
- Departamento de Fisicoquímica Fac. de Ciencias Químicas Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
- Centro Láser de Ciencias Moleculares Universidad Nacional de Córdoba Ciudad Universitaria, Pabellón Argentina X5000HUA Córdoba Argentina
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11
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Zhang H, Zuo Q, Wei C, Lin X, Dong J, Liao C, Xu A. Closed-circulating CO 2 sequestration process evaluation utilizing wastes in steelmaking plant. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 738:139747. [PMID: 32531592 DOI: 10.1016/j.scitotenv.2020.139747] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2020] [Revised: 05/25/2020] [Accepted: 05/25/2020] [Indexed: 06/11/2023]
Abstract
The wastes network system exploration in metallurgical process imposes of great significance for advancing green circular economy in steel plant. This paper originally proposes a closed-circulating CO2 sequestering process for wastes appreciation and harmless disposal, and the effect of two circulation strategy, i.e. Slag circulation strategy and cold-rolling waste water(CRW) circulation strategy, on the CO2 uptake efficiency, carbonation degree and desalination rate were systemically discussed. Then, their kinetics are analyzed by model and molecular simulation in detail, respectively. In addition, the energy consumption and the cost are simulated for comprehensively evaluating its superiority. The experimental and molecular simulation results all show that the peak values for both strategies could be achieved when circulation times is in the range of three to five. CRW circulation strategy has a better CO2 uptake efficiency than slag circulation strategy, the CO2 uptake efficiency is about 487kgCO2/tslag and corresponding desalination rate is 48.9%, when CRW is circulated for five times at 60 °C and 20 L/g for 90 min. Adopting CRW circulation strategy, the CO2 sequestration efficiency is averagely doubled comparing to previous results. 129%-183% energy consumption and 35.6% cost would be reduced, which represents that the proposed routine is economical to step forward to industrial application.
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Affiliation(s)
- Huining Zhang
- Faculty of Materials, Metallurgy and Chemistry, Jiangxi University of Science and Technology, Ganzhou 341000, China.
| | - Quanqin Zuo
- Faculty of Materials, Metallurgy and Chemistry, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Chao Wei
- Faculty of Materials, Metallurgy and Chemistry, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Xin Lin
- Faculty of Materials, Metallurgy and Chemistry, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Jianping Dong
- Faculty of Materials, Metallurgy and Chemistry, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Chunfa Liao
- Faculty of Materials, Metallurgy and Chemistry, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Anjun Xu
- School of Metallurgy and Ecological Engineering, University of Science and Technology Beijing, Beijing 100083, China
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12
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Ghorai S, Naskar P, Chaudhury P. An investigation on the structure, spectroscopy, and thermodynamic aspects of clusters: A combined Parallel tempering and
DFT
based study. INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY 2020; 120. [DOI: 10.1002/qua.26270] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2019] [Accepted: 04/21/2020] [Indexed: 07/19/2023]
Affiliation(s)
- Sankar Ghorai
- Department of ChemistryUniversity of Calcutta Kolkata India
| | - Pulak Naskar
- Department of ChemistryUniversity of Calcutta Kolkata India
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13
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Kreinbihl JJ, Frederiks NC, Waller SE, Yang Y, Johnson CJ. Establishing the structural motifs present in small ammonium and aminium bisulfate clusters of relevance to atmospheric new particle formation. J Chem Phys 2020; 153:034307. [PMID: 32716191 DOI: 10.1063/5.0015094] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Atmospheric new particle formation is the process by which atmospheric trace gases, typically acids and bases, cluster and grow into potentially climatically relevant particles. Here, we evaluate the structures and structural motifs present in small cationic ammonium and aminium bisulfate clusters that have been studied both experimentally and computationally as seeds for new particles. For several previously studied clusters, multiple different minimum-energy structures have been predicted. Vibrational spectra of mass-selected clusters and quantum chemical calculations allow us to assign the minimum-energy structure for the smallest cationic cluster of two ammonium ions and one bisulfate ion to a CS-symmetry structure that is persistent under amine substitution. We derive phenomenological vibrational frequency scaling factors for key bisulfate vibrations to aid in the comparison of experimental and computed spectra of larger clusters. Finally, we identify a previously unassigned spectral marker for intermolecular bisulfate-bisulfate hydrogen bonds and show that it is present in a class of structures that are all lower in energy than any previously reported structure. Tracking this marker suggests that this motif is prominent in larger clusters as well as ∼180 nm ammonium bisulfate particles. Taken together, these results establish a set of structural motifs responsible for binding of gases at the surface of growing clusters that fully explain the spectrum of large particles and provide benchmarks for efforts to improve structure predictions, which are critical for the accurate theoretical treatment of this process.
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Affiliation(s)
- John J Kreinbihl
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794-3400, USA
| | - Nicoline C Frederiks
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794-3400, USA
| | - Sarah E Waller
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794-3400, USA
| | - Yi Yang
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794-3400, USA
| | - Christopher J Johnson
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794-3400, USA
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14
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Rasmussen FR, Kubečka J, Besel V, Vehkamäki H, Mikkelsen KV, Bilde M, Elm J. Hydration of Atmospheric Molecular Clusters III: Procedure for Efficient Free Energy Surface Exploration of Large Hydrated Clusters. J Phys Chem A 2020; 124:5253-5261. [DOI: 10.1021/acs.jpca.0c02932] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Jakub Kubečka
- Institute for Atmospheric and Earth System Research, University of Helsinki, Helsinki FI-00014, Finland
| | - Vitus Besel
- Institute for Atmospheric and Earth System Research, University of Helsinki, Helsinki FI-00014, Finland
| | - Hanna Vehkamäki
- Institute for Atmospheric and Earth System Research, University of Helsinki, Helsinki FI-00014, Finland
| | - Kurt V. Mikkelsen
- Department of Chemistry, University of Copenhagen, Universitetesparken 5, 2100 Copenhagen, Denmark
| | - Merete Bilde
- Department of Chemistry and iClimate, Aarhus University, Langelandsgade 140, 8000 Aarhus, Denmark
| | - Jonas Elm
- Department of Chemistry and iClimate, Aarhus University, Langelandsgade 140, 8000 Aarhus, Denmark
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15
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Maitre P, Scuderi D, Corinti D, Chiavarino B, Crestoni ME, Fornarini S. Applications of Infrared Multiple Photon Dissociation (IRMPD) to the Detection of Posttranslational Modifications. Chem Rev 2019; 120:3261-3295. [PMID: 31809038 DOI: 10.1021/acs.chemrev.9b00395] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Infrared multiple photon dissociation (IRMPD) spectroscopy allows for the derivation of the vibrational fingerprint of molecular ions under tandem mass spectrometry (MS/MS) conditions. It provides insight into the nature and localization of posttranslational modifications (PTMs) affecting single amino acids and peptides. IRMPD spectroscopy, which takes advantage of the high sensitivity and resolution of MS/MS, relies on a wavelength specific fragmentation process occurring on resonance with an IR active vibrational mode of the sampled species and is well suited to reveal the presence of a PTM and its impact in the molecular environment. IRMPD spectroscopy is clearly not a proteomics tool. It is rather a valuable source of information for fixed wavelength IRMPD exploited in dissociation protocols of peptides and proteins. Indeed, from the large variety of model PTM containing amino acids and peptides which have been characterized by IRMPD spectroscopy, specific signatures of PTMs such as phosphorylation or sulfonation can be derived. High throughput workflows relying on the selective fragmentation of modified peptides within a complex mixture have thus been proposed. Sequential fragmentations can be observed upon IR activation, which do not only give rise to rich fragmentation patterns but also overcome low mass cutoff limitations in ion trap mass analyzers. Laser-based vibrational spectroscopy of mass-selected ions holding various PTMs is an increasingly expanding field both in the variety of chemical issues coped with and in the technological advancements and implementations.
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Affiliation(s)
- Philippe Maitre
- Laboratoire de Chimie Physique (UMR8000), Université Paris-Sud, CNRS, Université Paris Saclay, 91405, Orsay, France
| | - Debora Scuderi
- Laboratoire de Chimie Physique (UMR8000), Université Paris-Sud, CNRS, Université Paris Saclay, 91405, Orsay, France
| | - Davide Corinti
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma "La Sapienza", I-00185 Roma, Italy
| | - Barbara Chiavarino
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma "La Sapienza", I-00185 Roma, Italy
| | - Maria Elisa Crestoni
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma "La Sapienza", I-00185 Roma, Italy
| | - Simonetta Fornarini
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma "La Sapienza", I-00185 Roma, Italy
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16
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Waller SE, Yang Y, Castracane E, Kreinbihl JJ, Nickson KA, Johnson CJ. Electrospray Ionization-Based Synthesis and Validation of Amine-Sulfuric Acid Clusters of Relevance to Atmospheric New Particle Formation. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2019; 30:2267-2277. [PMID: 31506909 DOI: 10.1007/s13361-019-02322-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2019] [Revised: 08/12/2019] [Accepted: 08/12/2019] [Indexed: 06/10/2023]
Abstract
Atmospheric new particle formation (NPF) is the process by which atmospheric trace gases such as sulfuric acid, ammonia, and amines cluster and grow into climatically relevant particles. The mechanism by which these particles form and grow has remained unclear, in large part due to difficulties in obtaining molecular-level information about the clusters as they grow. Mass spectrometry-based methods using electrospray ionization (ESI) as a cluster source have shed light on this process, but the produced cluster distributions have not been rigorously validated against experiments performed in atmospheric conditions. Ionic clusters are produced by ESI of solutions containing the amine and bisulfate or by spraying a sulfuric acid solution and introducing trace amounts of amine gas into the ESI environment. The amine content of clusters can be altered by increasing the amount of amine introduced into the ESI environment, and certain cluster compositions can only be made by the vapor exchange method. Both approaches are found to yield clusters with the same structures. Aminium bisulfate cluster distributions produced in a controlled and isolated ESI environment can be optimized to closely resemble those observed by chemical ionization in the CLOUD chamber at CERN. These studies indicate that clusters generated by ESI are also observed in traditional atmospheric measurements, which puts ESI mass spectrometry-based studies on firmer footing and broadens the scope of traditional mass spectrometry experiments that may be applied to NPF.
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Affiliation(s)
- Sarah E Waller
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, NY, 11794, USA
| | - Yi Yang
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, NY, 11794, USA
| | - Eleanor Castracane
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, NY, 11794, USA
| | - John J Kreinbihl
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, NY, 11794, USA
| | - Kathleen A Nickson
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, NY, 11794, USA
| | - Christopher J Johnson
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, NY, 11794, USA.
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17
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Hamlow LA, Nei YW, Wu RR, Gao J, Steill JD, Berden G, Oomens J, Rodgers MT. Impact of Sodium Cationization on Gas-Phase Conformations of DNA and RNA Cytidine Mononucleotides. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2019; 30:1758-1767. [PMID: 31286444 DOI: 10.1007/s13361-019-02274-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2019] [Revised: 06/18/2019] [Accepted: 06/20/2019] [Indexed: 06/09/2023]
Abstract
Gas-phase conformations of the sodium-cationized forms of the 2'-deoxycytidine and cytidine mononucleotides, [pdCyd+Na]+ and [pCyd+Na]+, are examined by infrared multiple photon dissociation action spectroscopy. Complimentary electronic structure calculations at the B3LYP/6-311+G(2d,2p)//B3LYP/6-311+G(d,p) level of theory provide candidate conformations and their respective predicted IR spectra for comparison across the IR fingerprint and hydrogen-stretching regions. Comparisons of the predicted IR spectra and the measured infrared multiple photon dissociation action spectra provide insight into the impact of sodium cationization on intrinsic mononucleotide structure. Further, comparison of present results with those reported for the sodium-cationized cytidine nucleoside analogues elucidates the impact of the phosphate moiety on gas-phase structure. Across the neutral, protonated, and sodium-cationized cytidine mononucleotides, a preference for stabilization of the phosphate moiety and nucleobase orientation is observed, although the details of this stabilization differ with the state of cationization. Several low-energy conformations of [pdCyd+Na]+ and [pCyd+Na]+ involving several different orientations of the phosphate moiety and sugar puckering modes are observed experimentally.
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Affiliation(s)
- L A Hamlow
- Department of Chemistry, Wayne State University, 5101 Cass Ave, Detroit, MI, 48202, USA
| | - Y-W Nei
- Department of Chemistry, Wayne State University, 5101 Cass Ave, Detroit, MI, 48202, USA
| | - R R Wu
- Department of Chemistry, Wayne State University, 5101 Cass Ave, Detroit, MI, 48202, USA
| | - J Gao
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7c, 6525 ED, Nijmegen, Netherlands
| | - J D Steill
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7c, 6525 ED, Nijmegen, Netherlands
| | - G Berden
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7c, 6525 ED, Nijmegen, Netherlands
| | - J Oomens
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7c, 6525 ED, Nijmegen, Netherlands
| | - M T Rodgers
- Department of Chemistry, Wayne State University, 5101 Cass Ave, Detroit, MI, 48202, USA.
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18
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Yang Y, Johnson CJ. Hydration motifs of ammonium bisulfate clusters of relevance to atmospheric new particle formation. Faraday Discuss 2019; 217:47-66. [DOI: 10.1039/c8fd00206a] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We have analyzed the binding motifs of water bound to a prototypical cluster containing three ammonium cations and two bisulfate anions using mass-selective vibrational spectroscopy and quantum chemical calculations.
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Affiliation(s)
- Yi Yang
- Department of Chemistry
- Stony Brook University
- Stony Brook
- USA
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19
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Corinti D, Crestoni ME, Fornarini S, Pieper M, Niehaus K, Giampà M. An integrated approach to study novel properties of a MALDI matrix (4-maleicanhydridoproton sponge) for MS imaging analyses. Anal Bioanal Chem 2018; 411:953-964. [DOI: 10.1007/s00216-018-1531-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2018] [Revised: 11/22/2018] [Accepted: 11/29/2018] [Indexed: 02/02/2023]
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20
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Fárník M, Lengyel J. Mass spectrometry of aerosol particle analogues in molecular beam experiments. MASS SPECTROMETRY REVIEWS 2018; 37:630-651. [PMID: 29178389 DOI: 10.1002/mas.21554] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2017] [Accepted: 10/25/2017] [Indexed: 05/26/2023]
Abstract
Nanometer-size particles such as ultrafine aerosol particles, ice nanoparticles, water nanodroplets, etc, play an important, however, not yet fully understood role in the atmospheric chemistry and physics. These species are often composed of water with admixture of other atmospherically relevant molecules. To mimic and investigate such particles in laboratory experiments, mixed water clusters with atmospherically relevant molecules can be generated in molecular beams and studied by various mass spectrometric methods. The present review demonstrates that such experiments can provide unprecedented details of reaction mechanisms, and detailed insight into the photon-, electron-, and ion-induced processes relevant to the atmospheric chemistry. After a brief outline of the molecular beam preparation, cluster properties, and ionization methods, we focus on the mixed clusters with various atmospheric molecules, such as hydrated sulfuric acid and nitric acid clusters, Nx Oy and halogen-containing molecules with water. A special attention is paid to their reactivity and solvent effects of water molecules on the observed processes.
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Affiliation(s)
- Michal Fárník
- J. Heyrovský Institute of Physical Chemistry, Czech Academy of Sciences, Prague, Czech Republic
| | - Jozef Lengyel
- J. Heyrovský Institute of Physical Chemistry, Czech Academy of Sciences, Prague, Czech Republic
- Institut für Ionenphysik und Angewandte Physik, Universität Innsbruck, Innsbruck, Austria
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21
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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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22
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Waller SE, Yang Y, Castracane E, Racow EE, Kreinbihl JJ, Nickson KA, Johnson CJ. The Interplay Between Hydrogen Bonding and Coulombic Forces in Determining the Structure of Sulfuric Acid-Amine Clusters. J Phys Chem Lett 2018; 9:1216-1222. [PMID: 29464955 DOI: 10.1021/acs.jpclett.8b00161] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Acid-base cluster chemistry drives atmospheric new particle formation (NPF), but the details of the growth mechanisms are difficult to experimentally probe. Clusters of ammonia, alkylamines, and sulfuric acid, species fundamental to NPF, are probed by infrared spectroscopy. These spectra show that substitution of amines for ammonia, which is linked to accelerated growth, induces profound structural rearrangement in clusters with initial compositions (NH4+) n+1(HSO4-) n (1 ≤ n ≤ 3). This rearrangement is driven by the loss of N-H hydrogen bond donors, yielding direct bisulfate-bisulfate hydrogen bonds, and its onset with respect to cluster composition indicates that more substituted amines induce rearrangement at smaller sizes. A simple model counting hydrogen bond donors and acceptors explains these observations. The presence of direct hydrogen bonds between formal anions shows that hydrogen bonding can compete with Coulombic forces in determining cluster structure. These results suggest that NPF mechanisms may be highly dependent on amine identity.
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Affiliation(s)
- Sarah E Waller
- Department of Chemistry , Stony Brook University , 100 Nicolls Road , Stony Brook , New York 11794 , United States
| | - Yi Yang
- Department of Chemistry , Stony Brook University , 100 Nicolls Road , Stony Brook , New York 11794 , United States
| | - Eleanor Castracane
- Department of Chemistry , Stony Brook University , 100 Nicolls Road , Stony Brook , New York 11794 , United States
| | - Emily E Racow
- Department of Chemistry , Stony Brook University , 100 Nicolls Road , Stony Brook , New York 11794 , United States
| | - John J Kreinbihl
- Department of Chemistry , Stony Brook University , 100 Nicolls Road , Stony Brook , New York 11794 , United States
| | - Kathleen A Nickson
- Department of Chemistry , Stony Brook University , 100 Nicolls Road , Stony Brook , New York 11794 , United States
| | - Christopher J Johnson
- Department of Chemistry , Stony Brook University , 100 Nicolls Road , Stony Brook , New York 11794 , United States
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23
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Jašíková L, Roithová J. Infrared Multiphoton Dissociation Spectroscopy with Free-Electron Lasers: On the Road from Small Molecules to Biomolecules. Chemistry 2018; 24:3374-3390. [PMID: 29314303 DOI: 10.1002/chem.201705692] [Citation(s) in RCA: 54] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2017] [Indexed: 01/07/2023]
Abstract
Infrared multiphoton dissociation (IRMPD) spectroscopy is commonly used to determine the structure of isolated, mass-selected ions in the gas phase. This method has been widely used since it became available at free-electron laser (FEL) user facilities. Thus, in this Minireview, we examine the use of IRMPD/FEL spectroscopy for investigating ions derived from small molecules, metal complexes, organometallic compounds and biorelevant ions. Furthermore, we outline new applications of IRMPD spectroscopy to study biomolecules.
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Affiliation(s)
- Lucie Jašíková
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 2030, Prague 2, 128 43, Czech Republic
| | - Jana Roithová
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 2030, Prague 2, 128 43, Czech Republic
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24
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Hong Y, Liu YR, Wen H, Miao SK, Huang T, Peng XQ, Jiang S, Feng YJ, Huang W. Interaction of oxalic acid with methylamine and its atmospheric implications. RSC Adv 2018; 8:7225-7234. [PMID: 35540338 PMCID: PMC9078381 DOI: 10.1039/c7ra13670f] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2017] [Accepted: 02/01/2018] [Indexed: 11/21/2022] Open
Abstract
Oxalic acid, which is one of the most common dicarboxylic acids, is expected to be an important component of atmospheric aerosols. However, the contribution of oxalic acid to the generation of new particles is still poorly understood. In this study, the structural characteristics and thermodynamics of (C2H2O4)(CH3NH2) n (n = 1-4) were investigated at the PW91PW91/6-311++G(3df,3pd) level of theory. We found that clusters formed by oxalic acid and methylamine are relatively stable, and the more the atoms participating in the formation of a ring-like structure, the more stable is the cluster. In addition, via the analysis of atmospheric relevance, it can be revealed that clusters of (C2H2O4)(CH3NH2) n (n = 1-4) have a noteworthy concentration in the atmosphere, which indicates that these clusters could be participating in new particle formation. Moreover, by comparison with (H2C2O4)(NH3) n (n = 1-6) species, it can be seen that oxalic acid is more readily bound to methylamine than to ammonia, which promotes nucleation or new particle formation. Finally, the Rayleigh scattering properties of clusters of (C2H2O4)(CH3NH2) n (n = 1-4) were investigated for the first time to determine their atmospheric implications.
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Affiliation(s)
- Yu Hong
- Laboratory of Atmospheric Physico-Chemistry, Anhui Institute of Optics & Fine Mechanics, Chinese Academy of Sciences Hefei Anhui 230031 China
- School of Information Science and Technology, University of Science and Technology of China Hefei Anhui 230026 China
| | - Yi-Rong Liu
- School of Information Science and Technology, University of Science and Technology of China Hefei Anhui 230026 China
| | - Hui Wen
- Laboratory of Atmospheric Physico-Chemistry, Anhui Institute of Optics & Fine Mechanics, Chinese Academy of Sciences Hefei Anhui 230031 China
| | - Shou-Kui Miao
- Laboratory of Atmospheric Physico-Chemistry, Anhui Institute of Optics & Fine Mechanics, Chinese Academy of Sciences Hefei Anhui 230031 China
- School of Information Science and Technology, University of Science and Technology of China Hefei Anhui 230026 China
| | - Teng Huang
- Laboratory of Atmospheric Physico-Chemistry, Anhui Institute of Optics & Fine Mechanics, Chinese Academy of Sciences Hefei Anhui 230031 China
| | - Xiu-Qiu Peng
- Laboratory of Atmospheric Physico-Chemistry, Anhui Institute of Optics & Fine Mechanics, Chinese Academy of Sciences Hefei Anhui 230031 China
- School of Information Science and Technology, University of Science and Technology of China Hefei Anhui 230026 China
| | - Shuai Jiang
- School of Information Science and Technology, University of Science and Technology of China Hefei Anhui 230026 China
| | - Ya-Juan Feng
- School of Information Science and Technology, University of Science and Technology of China Hefei Anhui 230026 China
| | - Wei Huang
- Laboratory of Atmospheric Physico-Chemistry, Anhui Institute of Optics & Fine Mechanics, Chinese Academy of Sciences Hefei Anhui 230031 China
- School of Information Science and Technology, University of Science and Technology of China Hefei Anhui 230026 China
- CAS Center for Excellence in Urban Atmospheric Environment, Institute of Urban Environment, Chinese Academy of Sciences Xiamen Fujian 361021 China
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25
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Li H, Kong X, Jiang L, Liu ZF. Solvation effects on the N–O and O–H stretching modes in hydrated NO3−(H2O)n clusters. Phys Chem Chem Phys 2018; 20:26918-26925. [DOI: 10.1039/c8cp05754k] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Ab initio molecular dynamics simulations reveal the solvation effects on the N–O and O–H stretching modes of NO3−(H2O)n.
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Affiliation(s)
- Huiyan Li
- Department of Chemistry and Centre for Scientific Modeling and Computation, Chinese University of Hong Kong
- Shatin
- China
| | - Xiangtao Kong
- State Key Laboratory of Molecular Reaction Dynamics, Collaborative Innovation Center of Chemistry for Energy and Materials (iChEM), Dalian Institute of Chemical Physics, Chinese Academy of Sciences
- Dalian 116023
- China
| | - Ling Jiang
- State Key Laboratory of Molecular Reaction Dynamics, Collaborative Innovation Center of Chemistry for Energy and Materials (iChEM), Dalian Institute of Chemical Physics, Chinese Academy of Sciences
- Dalian 116023
- China
| | - Zhi-Feng Liu
- Department of Chemistry and Centre for Scientific Modeling and Computation, Chinese University of Hong Kong
- Shatin
- China
- CUHK Shenzhen Research Institute
- Shenzhen
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26
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Yang N, Duong CH, Kelleher PJ, Johnson MA, McCoy AB. Isolation of site-specific anharmonicities of individual water molecules in the I−·(H2O)2 complex using tag-free, isotopomer selective IR-IR double resonance. Chem Phys Lett 2017. [DOI: 10.1016/j.cplett.2017.09.042] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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27
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Dissociative Water Adsorption on Gas-Phase Titanium Dioxide Cluster Anions Probed with Infrared Photodissociation Spectroscopy. Top Catal 2017. [DOI: 10.1007/s11244-017-0863-4] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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28
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Munshi M, Craig SM, Berden G, Martens J, DeBlase AF, Foreman DJ, McLuckey SA, Oomens J, Johnson MA. Preparation of Labile Ni +(cyclam) Cations in the Gas Phase Using Electron-Transfer Reduction through Ion-Ion Recombination in an Ion Trap and Structural Characterization with Vibrational Spectroscopy. J Phys Chem Lett 2017; 8:5047-5052. [PMID: 28961009 PMCID: PMC5677246 DOI: 10.1021/acs.jpclett.7b02223] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2017] [Accepted: 09/29/2017] [Indexed: 05/31/2023]
Abstract
Gas-phase ion chemistry methods that capture and characterize the degree of activation of small molecules in the active sites of homogeneous catalysts form a powerful new tool to unravel how ligand environments affect reactivity. A key roadblock in this development, however, is the ability to generate the fragile metal oxidation states that are essential for catalytic activity. Here we demonstrate the preparation of the key Ni(I) center in the widely used cyclam scaffold using ion-ion recombination as a gas-phase alternative to electrochemical reduction. The singly charged Ni+(cyclam) coordination complex is generated by electron transfer from fluoranthene and azobenzene anions to doubly charged Ni2+(cyclam), using the electron-transfer dissociation protocol in a commercial quadrupole ion trap instrument and in a custom-built octopole RF ion trap. The successful preparation of the Ni+(cyclam) cation is verified through analysis of its vibrational spectrum obtained using the infrared free electron laser FELIX.
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Affiliation(s)
- Musleh
U. Munshi
- Radboud
University, Institute for Molecules and
Materials, FELIX Laboratory, Toernooiveld
7c, 6525ED Nijmegen, The Netherlands
| | - Stephanie M. Craig
- Sterling
Chemistry Laboratory, Yale University, New Haven, Connecticut 06520, United States
| | - Giel Berden
- Radboud
University, Institute for Molecules and
Materials, FELIX Laboratory, Toernooiveld
7c, 6525ED Nijmegen, The Netherlands
| | - Jonathan Martens
- Radboud
University, Institute for Molecules and
Materials, FELIX Laboratory, Toernooiveld
7c, 6525ED Nijmegen, The Netherlands
| | - Andrew F. DeBlase
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
- Spectral
Energies,
LLC, Beavercreek, Ohio 45430, United States
| | - David J. Foreman
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Scott A. McLuckey
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Jos Oomens
- Radboud
University, Institute for Molecules and
Materials, FELIX Laboratory, Toernooiveld
7c, 6525ED Nijmegen, The Netherlands
- van’t
Hoff Institute for Molecular Sciences, University
of Amsterdam, 1098XH Amsterdam, Science Park 908, The Netherlands
| | - Mark A. Johnson
- Sterling
Chemistry Laboratory, Yale University, New Haven, Connecticut 06520, United States
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29
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Bouchet A, Schütz M, Chiavarino B, Crestoni ME, Fornarini S, Dopfer O. IR spectrum of the protonated neurotransmitter 2-phenylethylamine: dispersion and anharmonicity of the NH3(+)-π interaction. Phys Chem Chem Phys 2016; 17:25742-54. [PMID: 25757357 DOI: 10.1039/c5cp00221d] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
The structure and dynamics of the highly flexible side chain of (protonated) phenylethylamino neurotransmitters are essential for their function. The geometric, vibrational, and energetic properties of the protonated neutrotransmitter 2-phenylethylamine (H(+)PEA) are characterized in the N-H stretch range by infrared photodissociation (IRPD) spectroscopy of cold ions using rare gas tagging (Rg = Ne and Ar) and anharmonic calculations at the B3LYP-D3/(aug-)cc-pVTZ level including dispersion corrections. A single folded gauche conformer (G) protonated at the basic amino group and stabilized by an intramolecular NH(+)-π interaction is observed. The dispersion-corrected density functional theory calculations reveal the important effects of dispersion on the cation-π interaction and the large vibrational anharmonicity of the NH3(+) group involved in the NH(+)-π hydrogen bond. They allow for assigning overtone and combination bands and explain anomalous intensities observed in previous IR multiple-photon dissociation spectra. Comparison with neutral PEA reveals the large effects of protonation on the geometric and electronic structure.
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Affiliation(s)
- Aude Bouchet
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, D-10623 Berlin, Germany.
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30
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Paciotti R, Coletti C, Re N, Scuderi D, Chiavarino B, Fornarini S, Crestoni ME. Serine O-sulfation probed by IRMPD spectroscopy. Phys Chem Chem Phys 2016; 17:25891-904. [PMID: 26027702 DOI: 10.1039/c5cp01409c] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The sulfation of amino acids is a frequent post-translational modification. It is highly labile, though, and characterizing it by mass spectrometry, an otherwise powerful and widely exploited tool in analytical proteomics, is a challenge. The presently reported study is aimed at revealing the O-sulfation of l-serine and elucidating the effects of protonation and deprotonation on the structure and stability of the ensuing ionic species, [sSer + H](+) and [sSer - H](-). These ions are obtained as gaseous, isolated species by electrospray ionization, trapped in a Paul ion-trap, and sampled by IR multiple photon dissociation (IRMPD) spectroscopy in either the 750-1900 cm(-1) fingerprint range, or the 2900 and 3700 cm(-1) range encompassing the N-H and O-H stretching modes. The recorded IRMPD spectra present diagnostic signatures of the sulfate modification which are missing in the spectra of the native serine ions, [Ser + H](+) and [Ser - H](-). The experimental IRMPD features have been interpreted by comparison with the linear IR spectra of the lowest energy structures that are likely candidates for the sampled ions, calculated at the M06-2X/6-311+G(d,p) level of theory. Evidence is gathered that the most stable conformations of [sSer + H](+) are stabilized by hydrogen bonding interactions between the protonated amino group and both the carbonyl and sulfate oxygens. [sSer - H](-) ions possess a negatively charged sulfate group involved in either a S=O···HN or a S=O···HO hydrogen bond. The experimental IRMPD spectra are consistent with the presence of multiple low-lying structures in a thermally equilibrated population of several species particularly in the case of [sSer - H](-) ions, where the high structural flexibility combined with the presence of a negative charge favors the co-existence of several different H-bonding motifs.
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Affiliation(s)
- Roberto Paciotti
- Dipartimento di Farmacia, Università G. D'Annunzio, Via dei Vestini 31, I-66100 Chieti, Italy
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31
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Baldauf C, Rossi M. Going clean: structure and dynamics of peptides in the gas phase and paths to solvation. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2015; 27:493002. [PMID: 26598600 DOI: 10.1088/0953-8984/27/49/493002] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
The gas phase is an artificial environment for biomolecules that has gained much attention both experimentally and theoretically due to its unique characteristic of providing a clean room environment for the comparison between theory and experiment. In this review we give an overview mainly on first-principles simulations of isolated peptides and the initial steps of their interactions with ions and solvent molecules: a bottom up approach to the complexity of biological environments. We focus on the accuracy of different methods to explore the conformational space, the connections between theory and experiment regarding collision cross section evaluations and (anharmonic) vibrational spectra, and the challenges faced in this field.
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Affiliation(s)
- Carsten Baldauf
- Fritz Haber Institute, Faradayweg 4-6, 14195 Berlin, Germany
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32
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Verdes M, Paniagua M. Facet shapes and thermo-stabilities of H₂SO₄•HNO₃ hydrates involved in polar stratospheric clouds. J Mol Model 2015; 21:238. [PMID: 26287119 DOI: 10.1007/s00894-015-2782-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2015] [Accepted: 07/31/2015] [Indexed: 11/24/2022]
Abstract
The nucleation, ice crystal shapes and thermodynamic stability of polar stratospheric clouds particles are interesting concerns owing to their implication in the ozone layer destruction. Some of these particles are formed by conformers of H2O, HNO3, and H2SO4. We carried out calculations using density functional theory (DFT) to obtain optimized structures. Several stable trimers are achieved -divided in two groups, one with HNO3 moiety, second with H2SO4 moiety- after pre-optimization at B3LYP/6-31G and subsequently optimization at B3LYP/aug-cc-pVTZ level of theory. For both most stable conformers five H2O molecules are added to their optimized trimers to calculate hydrated geometries. The OH stretching harmonic frequencies are provided for all aggregates. The zero-point energy correction (ZEPC), relative electronic energies (∆E), relative reaction Gibbs free energies ∆(∆G)k-relative, and cooling constant (K cooling ) are reported at three temperatures: 188 K, 195 K, and 210 K. Shapes given in our calculations are compared with various experimental shapes as well as comparisons with their thermo-stabilities.
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Affiliation(s)
- Marian Verdes
- Departamento de Química Física Aplicada, Facultad de Ciencias, C-14, Universidad Autónoma de Madrid, Cantoblanco, E-28049, Madrid, Spain,
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33
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DePalma JW, Kelleher PJ, Johnson CJ, Fournier JA, Johnson MA. Vibrational Signatures of Solvent-Mediated Deformation of the Ternary Core Ion in Size-Selected [MgSO4Mg(H2O)n=4–11]2+ Clusters. J Phys Chem A 2015; 119:8294-302. [DOI: 10.1021/acs.jpca.5b04612] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Joseph W. DePalma
- Sterling
Chemistry Laboratory,
Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Patrick J. Kelleher
- Sterling
Chemistry Laboratory,
Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Christopher J. Johnson
- Sterling
Chemistry Laboratory,
Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Joseph A. Fournier
- Sterling
Chemistry Laboratory,
Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Mark A. Johnson
- Sterling
Chemistry Laboratory,
Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
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34
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Cheng X, Steele RP. Efficient anharmonic vibrational spectroscopy for large molecules using local-mode coordinates. J Chem Phys 2015; 141:104105. [PMID: 25217902 DOI: 10.1063/1.4894507] [Citation(s) in RCA: 84] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
This article presents a general computational approach for efficient simulations of anharmonic vibrational spectra in chemical systems. An automated local-mode vibrational approach is presented, which borrows techniques from localized molecular orbitals in electronic structure theory. This approach generates spatially localized vibrational modes, in contrast to the delocalization exhibited by canonical normal modes. The method is rigorously tested across a series of chemical systems, ranging from small molecules to large water clusters and a protonated dipeptide. It is interfaced with exact, grid-based approaches, as well as vibrational self-consistent field methods. Most significantly, this new set of reference coordinates exhibits a well-behaved spatial decay of mode couplings, which allows for a systematic, a priori truncation of mode couplings and increased computational efficiency. Convergence can typically be reached by including modes within only about 4 Å. The local nature of this truncation suggests particular promise for the ab initio simulation of anharmonic vibrational motion in large systems, where connection to experimental spectra is currently most challenging.
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Affiliation(s)
- Xiaolu Cheng
- Department of Chemistry and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
| | - Ryan P Steele
- Department of Chemistry and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
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35
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Sinha RK, Scuderi D, Maitre P, Chiavarino B, Crestoni ME, Fornarini S. Elusive Sulfurous Acid: Gas-Phase Basicity and IR Signature of the Protonated Species. J Phys Chem Lett 2015; 6:1605-1610. [PMID: 26263321 DOI: 10.1021/acs.jpclett.5b00450] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The ion corresponding to protonated sulfurous acid, H3SO3(+), has been successfully delivered into the gas phase by electrospray ionization of the solution of a suitable precursor and an in-source fragmentation process. The neutral acid is a highly elusive molecule. However, its gas-phase basicity has been ascertained by means of a kinetic study of proton-transfer reactivity. The structure of the H3SO3(+) sampled ion has been probed by IRMPD spectroscopy in two complementary IR frequency ranges in conjunction with density functional theory calculations and found to conform to a trihydroxosulfonium ion. The characteristic IR signatures may aid in deciphering the presence of this species in extraterrestrial atmospheres.
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Affiliation(s)
- Rajeev K Sinha
- †Faculté des Sciences, Laboratoire de Chimie Physique, UMR8000 CNRS, Université Paris-Sud, Batiment 349, 91405 Orsay Cedex, France
- ∥Department of Atomic and Molecular Physics, Manipal University, Manipal, 576104 Karnataka, India
| | - Debora Scuderi
- †Faculté des Sciences, Laboratoire de Chimie Physique, UMR8000 CNRS, Université Paris-Sud, Batiment 349, 91405 Orsay Cedex, France
| | - Philippe Maitre
- †Faculté des Sciences, Laboratoire de Chimie Physique, UMR8000 CNRS, Université Paris-Sud, Batiment 349, 91405 Orsay Cedex, France
| | - Barbara Chiavarino
- ‡Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma "La Sapienza", P.le A. Moro 5, 00185 Roma, Italy
| | - Maria Elisa Crestoni
- ‡Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma "La Sapienza", P.le A. Moro 5, 00185 Roma, Italy
| | - Simonetta Fornarini
- ‡Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma "La Sapienza", P.le A. Moro 5, 00185 Roma, Italy
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36
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Wolke CT, Menges FS, Tötsch N, Gorlova O, Fournier JA, Weddle GH, Johnson MA, Heine N, Esser TK, Knorke H, Asmis KR, McCoy AB, Arismendi-Arrieta DJ, Prosmiti R, Paesani F. Thermodynamics of Water Dimer Dissociation in the Primary Hydration Shell of the Iodide Ion with Temperature-Dependent Vibrational Predissociation Spectroscopy. J Phys Chem A 2015; 119:1859-66. [DOI: 10.1021/jp510250n] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Conrad T. Wolke
- Sterling
Chemistry Laboratory, Yale University, New Haven, Connecticut 06525, United States
| | - Fabian S. Menges
- Sterling
Chemistry Laboratory, Yale University, New Haven, Connecticut 06525, United States
| | - Niklas Tötsch
- Graduate
School
of Chemistry and Biochemistry, Ruhr-Universität Bochum, Universitätsstraße
150, D-44801 Bochum, Germany
| | - Olga Gorlova
- Sterling
Chemistry Laboratory, Yale University, New Haven, Connecticut 06525, United States
| | - Joseph A. Fournier
- Sterling
Chemistry Laboratory, Yale University, New Haven, Connecticut 06525, United States
| | - Gary H. Weddle
- Department
of Chemistry, Fairfield University, Fairfield, Connecticut 06824, United States
| | - Mark A. Johnson
- Sterling
Chemistry Laboratory, Yale University, New Haven, Connecticut 06525, United States
| | - Nadja Heine
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Tim K. Esser
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
- Wilhelm-Ostwald-Institut
für Physikalische und Theoretische Chemie, Universität Leipzig, Linnéstraße
2, D-04103 Leipzig, Germany
| | - Harald Knorke
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
- Wilhelm-Ostwald-Institut
für Physikalische und Theoretische Chemie, Universität Leipzig, Linnéstraße
2, D-04103 Leipzig, Germany
| | - Knut R. Asmis
- Wilhelm-Ostwald-Institut
für Physikalische und Theoretische Chemie, Universität Leipzig, Linnéstraße
2, D-04103 Leipzig, Germany
| | | | - Daniel J. Arismendi-Arrieta
- Instituto de Fı́sica Fundamental (IFF-CSIC), CSIC, Serrano 123, 28006 Madrid, Spain
- Department
of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, United States
| | - Rita Prosmiti
- Instituto de Fı́sica Fundamental (IFF-CSIC), CSIC, Serrano 123, 28006 Madrid, Spain
| | - Francesco Paesani
- Department
of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, United States
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37
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Shuman NS, Hunton DE, Viggiano AA. Ambient and Modified Atmospheric Ion Chemistry: From Top to Bottom. Chem Rev 2015; 115:4542-70. [DOI: 10.1021/cr5003479] [Citation(s) in RCA: 75] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Nicholas S. Shuman
- Air Force Research Laboratory,
Space Vehicles Directorate, Kirtland Air Force Base, Albuquerque, New Mexico 87117, United States
| | - Donald E. Hunton
- Air Force Research Laboratory,
Space Vehicles Directorate, Kirtland Air Force Base, Albuquerque, New Mexico 87117, United States
| | - Albert A. Viggiano
- Air Force Research Laboratory,
Space Vehicles Directorate, Kirtland Air Force Base, Albuquerque, New Mexico 87117, United States
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38
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Peng XQ, Liu YR, Huang T, Jiang S, Huang W. Interaction of gas phase oxalic acid with ammonia and its atmospheric implications. Phys Chem Chem Phys 2015; 17:9552-63. [DOI: 10.1039/c5cp00027k] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The temperature effects could contribute to the variation of the relative populations of the isomers, thus the temperature dependence of the thermodynamic properties is an important parameter to understand the roles of the specific nucleation mechanisms at various atmospheric temperatures.
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Affiliation(s)
- Xiu-Qiu Peng
- School of Environmental Science & Optoelectronic Technology
- University of Science and Technology of China
- Hefei
- China
- Laboratory of Atmospheric Physico-Chemistry
| | - Yi-Rong Liu
- Laboratory of Atmospheric Physico-Chemistry
- Anhui Institute of Optics & Fine Mechanics
- Chinese Academy of Sciences
- Hefei
- China
| | - Teng Huang
- Laboratory of Atmospheric Physico-Chemistry
- Anhui Institute of Optics & Fine Mechanics
- Chinese Academy of Sciences
- Hefei
- China
| | - Shuai Jiang
- Laboratory of Atmospheric Physico-Chemistry
- Anhui Institute of Optics & Fine Mechanics
- Chinese Academy of Sciences
- Hefei
- China
| | - Wei Huang
- School of Environmental Science & Optoelectronic Technology
- University of Science and Technology of China
- Hefei
- China
- Laboratory of Atmospheric Physico-Chemistry
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39
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Heine N, Asmis KR. Cryogenic ion trap vibrational spectroscopy of hydrogen-bonded clusters relevant to atmospheric chemistry. INT REV PHYS CHEM 2014. [DOI: 10.1080/0144235x.2014.979659] [Citation(s) in RCA: 115] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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40
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DePalma JW, Bzdek BR, Ridge DP, Johnston MV. Activation Barriers in the Growth of Molecular Clusters Derived from Sulfuric Acid and Ammonia. J Phys Chem A 2014; 118:11547-54. [DOI: 10.1021/jp507769b] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Joseph W. DePalma
- Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, United States
| | - Bryan R. Bzdek
- Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, United States
| | - Douglas P. Ridge
- Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, United States
| | - Murray V. Johnston
- Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, United States
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41
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Gregori B, Guidoni L, Chiavarino B, Scuderi D, Nicol E, Frison G, Fornarini S, Crestoni ME. Vibrational Signatures of S-Nitrosoglutathione as Gaseous, Protonated Species. J Phys Chem B 2014; 118:12371-82. [DOI: 10.1021/jp5072742] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
| | - Leonardo Guidoni
- Dipartimento
di Scienza Fisiche e Chimiche, Università degli Studi dell’Aquila, Via Vetoio 2, Coppito, L’Aquila I-64100, Italy
| | | | - Debora Scuderi
- Laboratoire
de Chimie Physique, UMR8000 CNRS, Faculté des Sciences, Université Paris-Sud, Batiment 350, 91405 Orsay Cedex, France
| | - Edith Nicol
- Laboratoire
de Chimie Moléculaire, Ecole Polytechnique and CNRS, 91128 Palaiseau Cedex, France
| | - Gilles Frison
- Laboratoire
de Chimie Moléculaire, Ecole Polytechnique and CNRS, 91128 Palaiseau Cedex, France
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42
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Chiavarino B, Crestoni ME, Schütz M, Bouchet A, Piccirillo S, Steinmetz V, Dopfer O, Fornarini S. Cation-π interactions in protonated phenylalkylamines. J Phys Chem A 2014; 118:7130-8. [PMID: 25061749 DOI: 10.1021/jp505037n] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Phenylalkylamines of the general formula C6H5(CH2)nNH2 (n = 1-4) have been delivered to the gas phase as protonated species using electrospray ionization. The ions thus formed have been assayed by IRMPD spectroscopy in two different spectroscopic domains, namely, the 600-1800 and the 3000-3500 cm(-1) regions using either an IR free electron laser or a tabletop OPO/OPA laser source. The interpretation of the experimental spectra is aided by density functional theory calculations of candidate species and vibrational frequency analyses. Protonated benzylamine presents a relatively straightforward instance of a single stable conformer, providing a trial case for the adopted approach. Turning to the higher homologues, C6H5(CH2)nNH3(+) (n = 2-4), more conformations become accessible. For each C6H5(CH2)nNH3(+) ion (n = 2-4), the most stable geometry is characterized by cation-π interactions between the positively charged ammonium group and the aromatic π-electronic system, permitted by the folding of the polymethylene chain. The IRMPD spectra of the sampled ions confirm the presence of the folded structures by comparison with the calculated IR spectra of the various possible conformers. An inspection of the NH stretching region is helpful in this regard.
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Affiliation(s)
- Barbara Chiavarino
- Dipartimento di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza , P. le A. Moro 5, I-00185 Roma, Italy
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43
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DePalma JW, Doren DJ, Johnston MV. Formation and Growth of Molecular Clusters Containing Sulfuric Acid, Water, Ammonia, and Dimethylamine. J Phys Chem A 2014; 118:5464-73. [DOI: 10.1021/jp503348b] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Joseph W. DePalma
- Department of Chemistry and
Biochemistry, University of Delaware, Newark, Delaware 19716, United States
| | - Douglas J. Doren
- Department of Chemistry and
Biochemistry, University of Delaware, Newark, Delaware 19716, United States
| | - Murray V. Johnston
- Department of Chemistry and
Biochemistry, University of Delaware, Newark, Delaware 19716, United States
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44
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Johnson CJ, Dzugan LC, Wolk AB, Leavitt CM, Fournier JA, McCoy AB, Johnson MA. Microhydration of contact ion pairs in M(2+)OH(-)(H2O)(n=1-5) (M = Mg, Ca) clusters: spectral manifestations of a mobile proton defect in the first hydration shell. J Phys Chem A 2014; 118:7590-7. [PMID: 24874345 DOI: 10.1021/jp504139j] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Vibrational predissociation spectra of D2-"tagged" Mg(2+)OH(-)(H2O)n=1-6 and Ca(2+)OH(-)(H2O)n=1-5 clusters are reported to explore how the M(2+)OH(-) contact ion pairs respond to stepwise formation of the first hydration shell. In both cases, the hydroxide stretching frequency is found to red-shift strongly starting with addition of the third water molecule, quickly becoming indistinguishable from nonbonded OH groups associated with solvent water molecules by n = 5. A remarkably broad feature centered around 3200 cm(-1) and spanning up to ∼1000 cm(-1) appears for the n ≥ 4 clusters that we assign to a single-donor ionic hydrogen bond between a proximal first solvent shell water molecule and the embedded hydroxide ion. The extreme broadening is rationalized with a theoretical model that evaluates the range of local OH stretching frequencies predicted for the heavy particle configurations available in the zero-point vibrational wave function describing the low-frequency modes. The implication of this treatment is that extreme broadening in the vibrational spectrum need not arise from thermal fluctuations in the ion ensemble, but can rather reflect combination bands based on the OH stretching fundamental that involve many quanta of low-frequency modes whose displacements strongly modulate the OH stretching frequency.
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Affiliation(s)
- Christopher J Johnson
- Sterling Chemistry Laboratory, Department of Chemistry, Yale University , 225 Prospect Street, New Haven, Connecticut 06520, United States
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45
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Heine N, Yacovitch TI, Schubert F, Brieger C, Neumark DM, Asmis KR. Infrared Photodissociation Spectroscopy of Microhydrated Nitrate–Nitric Acid Clusters NO3–(HNO3)m(H2O)n. J Phys Chem A 2014; 118:7613-22. [DOI: 10.1021/jp412222q] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Affiliation(s)
- Nadja Heine
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Tara I. Yacovitch
- Department
of Chemistry, University of California, Berkeley, California 94720, United States
| | - Franziska Schubert
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Claudia Brieger
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Daniel M. Neumark
- Department
of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical
Science Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Knut R. Asmis
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
- Wilhelm-Ostwald-Institut
für Physikalische und Theoretische Chemie, Universität Leipzig, Linnéstrasse 2, D-04103 Leipzig, Germany
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46
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Rozenberg M, Loewenschuss A, Nielsen CJ. Trimethylamine/Sulfuric Acid/Water Clusters: A Matrix Isolation Infrared Study. J Phys Chem A 2014; 118:1004-11. [DOI: 10.1021/jp410922x] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Mark Rozenberg
- Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Aharon Loewenschuss
- Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Claus J. Nielsen
- Centre for Theoretical and Computational
Chemistry, Department of Chemistry, University of Oslo, 1033 Blindern, N-0315 Oslo, Norway
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