1
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Creazzo F, Luber S. Water-air interface revisited by means of path-integral ab initio molecular dynamics. Phys Chem Chem Phys 2024; 26:21290-21302. [PMID: 39078670 PMCID: PMC11305098 DOI: 10.1039/d4cp02500h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2024] [Accepted: 07/21/2024] [Indexed: 07/31/2024]
Abstract
Although nuclear quantum effects (NQEs) have been considered on bulk liquid water, the impact of these latter on the air-water interface has not yet been reported. Herein, by performing and comparing ab initio molecular dynamics (AIMD) and path integral AIMD (PI-AIMD) simulations, we reveal the impact of NQEs on structural, dynamical and electronic properties as well as IR spectra of the air-water interface at room temperature. NQEs, being able to describe a more accurate proton delocalization in H-bonded system than AIMD, reveal a different structural arrangement and dynamical behaviour of both bulk and interfacial water molecules in comparison to AIMD results. A more de-structured and de-bound water arrangement and coordination are identified when the quantum nature of nuclei are considered for both bulk and interfacial water molecules. Structural properties, such as inter-/intra-molecular bond lengths, coordination numbers and H-bonding angles of bulk and interfacial water molecules here calculated, are affected by NQEs mitigating the overstructured description given by AIMD. Further evidences of an AIMD overstructured description of bulk water are in the computed IR spectra, where an increased absorption peak intensity and an increased strength of the hydrogen-bond network are alleviated by NQEs. In addition, NQEs show a valuable impact on the electronic structure of the air-water interface, reducing the total valence bandwidth and the electronic energy band-gap when passing from bulk to interfacial water. This work proves how NQEs significantly affect properties and features of the air-water interface, that are essential to accurately describe H-bonded interfacial systems.
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Affiliation(s)
- Fabrizio Creazzo
- Department of Chemistry, University of Zurich, Zurich, Switzerland.
| | - Sandra Luber
- Department of Chemistry, University of Zurich, Zurich, Switzerland.
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2
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Khramchenkova A, Pysanenko A, Ďurana J, Kocábková B, Fárník M, Lengyel J. Does HNO 3 dissociate on gas-phase ice nanoparticles? Phys Chem Chem Phys 2023; 25:21154-21161. [PMID: 37458324 DOI: 10.1039/d3cp02757k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/17/2023]
Abstract
We investigated the dissociation of nitric acid on large water clusters (H2O)N, N̄ ≈ 30-500, i.e., ice nanoparticles with diameters of 1-3 nm, in a molecular beam. The (H2O)N clusters were doped with single HNO3 molecules in a pickup cell and probed by mass spectrometry after a low-energy (1.5-15 eV) electron attachment. The negative ion mass spectra provided direct evidence for HNO3 dissociation with the formation of NO3-⋯H3O+ ion pairs, but over half of the observed cluster ions originated from non-dissociated HNO3 molecules. This behavior is in contrast with the complete dissociation of nitric acid on amorphous ice surfaces above 100 K. Thus, the proton transfer is significantly suppressed on nanometer-sized particles compared to macroscopic ice surfaces. This can have considerable implications for heterogeneous processes on atmospheric ice particles.
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Affiliation(s)
- Anastasiya Khramchenkova
- Lehrstuhl für Physikalische Chemie, TUM School of Natural Sciences, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany.
| | - Andriy Pysanenko
- J. Heyrovský Institute of Physical Chemistry v.v.i., Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic.
| | - Jozef Ďurana
- J. Heyrovský Institute of Physical Chemistry v.v.i., Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic.
| | - Barbora Kocábková
- J. Heyrovský Institute of Physical Chemistry v.v.i., Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic.
| | - Michal Fárník
- J. Heyrovský Institute of Physical Chemistry v.v.i., Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czech Republic.
| | - Jozef Lengyel
- Lehrstuhl für Physikalische Chemie, TUM School of Natural Sciences, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany.
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3
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Su Z, Luo Y, Shi J, Feng J, Li X, Zhang J, Su C. Manipulating the Reaction Pathway of CO 2 Photoreduction via the Microenvironment of a Re Molecular Catalyst. J Phys Chem Lett 2023; 14:3208-3215. [PMID: 36971470 DOI: 10.1021/acs.jpclett.3c00459] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Re molecular complexes incorporated into two metal-organic frameworks were investigated to disclose the host-guest interaction by infrared and 1H nuclear magnetic resonance and to explore the microenvironment around the Re complex by absorption and photoluminescence spectra. ZIF-8 provides a confined space to isolated Re via an electrostatic interaction, while UiO-66 exerts a relaxed space to accessible Re via a coordination interaction. For CO2 two-electron photoreduction to CO, the turnover number of 28.6 in Re@ZIF-8 is 10-fold that of 2.7 in Re@UiO-66. The electron transfer is promoted in Re@ZIF-8 by a local electrostatic field with a cross-space pathway, whereas it is retarded in Re@UiO-66 as the solvation shell surrounding Re. In the following CO2 activation, the charged intermediate species could be stabilized in Re@ZIF-8 by spatial confinement, while Re-triethanolamine adducts prevailed in Re@UiO-66 with the accessibility of the Re complex. This work demonstrates a feasibility of diverting the CO2 activation pathway by the microenvironment of a molecular catalyst in the field of artificial photosynthesis.
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Affiliation(s)
- Zhifang Su
- School of Chemistry, Lehn Institute of Functional Materials, Sun Yat-Sen University, Guangzhou, Guangdong 510275, People's Republic of China
| | - Yucheng Luo
- School of Chemistry, Lehn Institute of Functional Materials, Sun Yat-Sen University, Guangzhou, Guangdong 510275, People's Republic of China
| | - Jianying Shi
- School of Chemistry, Lehn Institute of Functional Materials, Sun Yat-Sen University, Guangzhou, Guangdong 510275, People's Republic of China
| | - Jianxin Feng
- School of Chemistry, Lehn Institute of Functional Materials, Sun Yat-Sen University, Guangzhou, Guangdong 510275, People's Republic of China
| | - Xuan Li
- School of Chemistry, Lehn Institute of Functional Materials, Sun Yat-Sen University, Guangzhou, Guangdong 510275, People's Republic of China
| | - Jinzhong Zhang
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, Santa Cruz, California 95064, United States
| | - Chengyong Su
- School of Chemistry, Lehn Institute of Functional Materials, Sun Yat-Sen University, Guangzhou, Guangdong 510275, People's Republic of China
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4
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Teschke O, Castro JR, Gomes WE, Soares DM. Variable Interfacial Water Nanosized Arrangements Measured by Atomic Force Microscopy. ACS OMEGA 2022; 7:28875-28884. [PMID: 36033701 PMCID: PMC9404190 DOI: 10.1021/acsomega.2c01982] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/31/2022] [Accepted: 07/28/2022] [Indexed: 06/15/2023]
Abstract
While there seems to be broad agreement that cluster formation does exist near solid surfaces, its presence at the liquid/vapor interface is controversial. We report experimental studies we have carried out on interfacial water attached on hydrophobic and hydrophilic surfaces. Nanosized steps in the measured force vs distance to the surface curves characterize water cluster profiles. An expansion of the interfacial structure with time is observed; the initial profile extent is typically ∼1 nm, and for longer times expanded structures of ∼70 nm are observed. Our previous results showed that the interfacial water structure has a relative permittivity of ε ≈ 3 at the air/water interface homogeneously increasing to ε ≈ 80 at 300 nm inside the bulk, but here we have shown that the interfacial dielectric permittivity may have an oscillating profile describing the spatial steps in the force vs distance curves. This low dielectric permittivity arrangements of clusters extend the region with ε ≈ 3 inside bulk water and exhibit a behavior similar to that of water networks that expand in time.
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Affiliation(s)
- Omar Teschke
- Laboratorio
de Nanoestruturas e Interfaces, Instituto de Fisica, UNICAMP, 13083-859 Campinas, São
Paulo, Brazil
| | - Jose Roberto Castro
- Laboratorio
de Nanoestruturas e Interfaces, Instituto de Fisica, UNICAMP, 13083-859 Campinas, São
Paulo, Brazil
| | - Wyllerson Evaristo Gomes
- Pontificia
Universidade Catolica de Campinas, Faculdade de Quimica, 13012-970 Campinas, São Paulo, Brazil
| | - David Mendez Soares
- Laboratorio
de Nanoestruturas e Interfaces, Instituto de Fisica, UNICAMP, 13083-859 Campinas, São
Paulo, Brazil
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5
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Mitra S, Khuu T, Choi TH, Huchmala RM, Jordan KD, McCoy AB, Johnson MA. Vibrational Signatures of HNO 3 Acidity When Complexed with Microhydrated Alkali Metal Ions, M +·(HNO 3)(H 2O) n=5 (M = Li, K, Na, Rb, Cs), at 20 K. J Phys Chem A 2022; 126:1640-1647. [PMID: 35249322 DOI: 10.1021/acs.jpca.1c10352] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The speciation of strong acids like HNO3 under conditions of restricted hydration is an important factor in the rates of chemical reactions at the air-water interface. Here, we explore the trade-offs at play when HNO3 is attached to alkali ions (Li+-Cs+) with four water molecules in their primary hydration shells. This is achieved by analyzing the vibrational spectra of the M+·(HNO3)(H2O)5 clusters cooled to about 20 K in a cryogenic photofragmentation mass spectrometer. The local acidity of the acidic OH group is estimated by the extent of the red shift in its stretching frequency when attached to a single water molecule. The persistence of this local structural motif (HNO3-H2O) in all of these alkali metal clusters enables us to determine the competition between the effect of the direct complexation of the acid with the cation, which acts to enhance acidity, and the role of the water network in the first hydration shell around the ions, which acts to counter (screen) the intrinsic effect of the ion. Analysis of the vibrational features associated with the acid molecule, as well as those of the water network, reveals how cooperative interactions in the microhydration regime conspire to effectively offset the intrinsic enhancement of HNO3 acidity afforded by attachment to the smaller cations.
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Affiliation(s)
- Sayoni Mitra
- Sterling Chemistry Laboratory, Yale University, New Haven, Connecticut 06520, United States
| | - Thien Khuu
- Sterling Chemistry Laboratory, Yale University, New Haven, Connecticut 06520, United States
| | - Tae Hoon Choi
- Department of Chemistry, University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States
| | - Rachel M Huchmala
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
| | - Kenneth D Jordan
- Department of Chemistry, University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States
| | - Anne B McCoy
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
| | - Mark A Johnson
- Sterling Chemistry Laboratory, Yale University, New Haven, Connecticut 06520, United States
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6
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Mitra S, Duong CH, McCaslin LM, Gerber RB, Johnson MA. Isomer-specific cryogenic ion vibrational spectroscopy of the D 2 tagged Cs +(HNO 3)(H 2O) n=0-2 complexes: ion-driven enhancement of the acidic H-bond to water. Phys Chem Chem Phys 2020; 22:4501-4507. [PMID: 32068217 DOI: 10.1039/c9cp06689f] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We report how the binary HNO3(H2O) interaction is modified upon complexation with a nearby Cs+ ion. Isomer-selective IR photodissociation spectra of the D2-tagged, ternary Cs+(HNO3)H2O cation confirms that two structural isomers are generated in the cryogenic ion source. In one of these, both HNO3 and H2O are directly coordinated to the ion, while in the other, the water molecule is attached to the OH group of the acid, which in turn binds to Cs+ with its -NO2 group. The acidic OH stretching fundamental in the latter isomer displays a ∼300 cm-1 red-shift relative to that in the neutral H-bonded van der Waals complex, HNO3(H2O). This behavior is analyzed with the aid of electronic structure calculations and discussed in the context of the increased effective acidity of HNO3 in the presence of the cation.
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Affiliation(s)
- Sayoni Mitra
- Sterling Chemistry Laboratory, Yale University, New Haven, CT, USA.
| | - Chinh H Duong
- Sterling Chemistry Laboratory, Yale University, New Haven, CT, USA.
| | - Laura M McCaslin
- Department of Chemistry, University of California Irvine, Irvine, CA, USA. and Institute of Chemistry and the Fritz-Haber Center for Molecular Dynamics, The Hebrew University, Jerusalem, Israel
| | - R Benny Gerber
- Department of Chemistry, University of California Irvine, Irvine, CA, USA. and Institute of Chemistry and the Fritz-Haber Center for Molecular Dynamics, The Hebrew University, Jerusalem, Israel
| | - Mark A Johnson
- Sterling Chemistry Laboratory, Yale University, New Haven, CT, USA.
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7
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Creazzo F, Pezzotti S, Bougueroua S, Serva A, Sponer J, Saija F, Cassone G, Gaigeot MP. Enhanced conductivity of water at the electrified air–water interface: a DFT-MD characterization. Phys Chem Chem Phys 2020; 22:10438-10446. [DOI: 10.1039/c9cp06970d] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
DFT-based molecular dynamics simulations of the electrified air–liquid water interface are presented, where a homogeneous field is applied parallel to the surface plane (i.e. parallel to the 2D-HBonded-Network/2DN).
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Affiliation(s)
| | | | | | - Alessandra Serva
- Sorbonne Université
- CNRS
- Physico-chimie des électrolytes et nano-systèmes interfaciaux
- PHENIX
- Paris
| | - Jiri Sponer
- Institute of Biophysics of the Czech Academy of Sciences
- 61265 Brno
- Czech Republic
| | | | - Giuseppe Cassone
- Institute of Biophysics of the Czech Academy of Sciences
- 61265 Brno
- Czech Republic
- CNR-IPCF
- 98158 Messina
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8
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Miller DD, Siriwardane R, Mcintyre D. Anion structural effects on interaction of rare earth element ions with Dowex 50W X8 cation exchange resin. J RARE EARTH 2018. [DOI: 10.1016/j.jre.2018.03.006] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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9
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Dubey V, Kumar N, Daschakraborty S. Importance of Solvents’ Translational–Rotational Coupling for Translational Jump of a Small Hydrophobic Solute in Supercooled Water. J Phys Chem B 2018; 122:7569-7583. [DOI: 10.1021/acs.jpcb.8b03177] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Vikas Dubey
- Department of Chemistry, Indian Institute of Technology Patna, Patna 801103, Bihar, India
| | - Nitesh Kumar
- Department of Chemistry, Indian Institute of Technology Patna, Patna 801103, Bihar, India
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10
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Pezzotti S, Serva A, Gaigeot MP. 2D-HB-Network at the air-water interface: A structural and dynamical characterization by means of ab initio and classical molecular dynamics simulations. J Chem Phys 2018; 148:174701. [DOI: 10.1063/1.5018096] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Simone Pezzotti
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE CNRS UMR8587, Université d’Evry val d’Essonne, Blvd. F. Mitterrand, Bat Maupertuis, 91025 Evry, France and Université Paris-Saclay, Orsay, France
| | - Alessandra Serva
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE CNRS UMR8587, Université d’Evry val d’Essonne, Blvd. F. Mitterrand, Bat Maupertuis, 91025 Evry, France and Université Paris-Saclay, Orsay, France
| | - Marie-Pierre Gaigeot
- Laboratoire Analyse et Modélisation pour la Biologie et l’Environnement, LAMBE CNRS UMR8587, Université d’Evry val d’Essonne, Blvd. F. Mitterrand, Bat Maupertuis, 91025 Evry, France and Université Paris-Saclay, Orsay, France
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11
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Yu C, Shao Z, Hou H. A functionalized metal-organic framework decorated with O - groups showing excellent performance for lead(ii) removal from aqueous solution. Chem Sci 2017; 8:7611-7619. [PMID: 29568425 PMCID: PMC5848797 DOI: 10.1039/c7sc03308g] [Citation(s) in RCA: 118] [Impact Index Per Article: 16.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2017] [Accepted: 09/18/2017] [Indexed: 12/23/2022] Open
Abstract
A novel MOF decorated with O– groups was elaborately constructed and showed excellent performance for Pb2+ removal.
Heavy metal ions are highly toxic and widely spread as environmental pollutants. New strategies are being developed to efficiently remove these toxic ions. Herein, we use the intrinsic advantages of metal–organic frameworks (MOFs) and develop a porous Zn(ii)-based MOF decorated with O– groups for the removal of Pb2+. Benefiting from its multiple porosity, sufficient adsorption sites and strong affinity, the activated MOF material exhibits an ultrahigh Pb2+ uptake capacity (616.64 mg g–1), surpassing all those of reported MOF adsorbents. Moreover, it can selectively capture Pb2+ with high efficiency (>99.27%) against background ions. Even in the presence of a high concentration of competitive ions, such as Ca2+ or Mg2+, effective removal (>99.21%) can also be achieved in a short time. The excellent removal performance demonstrates the strong electrostatic attraction and coordination interaction between the highly accessible O– groups and Pb2+. The possible adsorption mechanism was systematically verified by zeta potential, FT-IR and XPS studies. Our work reveals the enormous potential of functionalized MOFs as an appealing platform to construct sorbent materials.
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Affiliation(s)
- Caixia Yu
- College of Chemistry and Molecular Engineering , Zhengzhou University , Zhengzhou 450001 , P. R. China . .,Henan Key Laboratory of New Optoelectronic Functional Materials , College of Chemistry and Chemical Engineering , Anyang Normal University , Anyang 455000 , P. R. China
| | - Zhichao Shao
- College of Chemistry and Molecular Engineering , Zhengzhou University , Zhengzhou 450001 , P. R. China .
| | - Hongwei Hou
- College of Chemistry and Molecular Engineering , Zhengzhou University , Zhengzhou 450001 , P. R. China .
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12
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Jones KK, Eckler LH, Nee MJ. Effect of Ionic Strength on Solvation Geometries in Aqueous Nitrate Ion Solutions. J Phys Chem A 2017; 121:2322-2330. [DOI: 10.1021/acs.jpca.6b12102] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Konnor K. Jones
- Department of Chemistry, Western Kentucky University, 1906 College Heights Boulevard, Bowling Green, Kentucky 42101, United States
| | - Logan H. Eckler
- Department of Chemistry, Western Kentucky University, 1906 College Heights Boulevard, Bowling Green, Kentucky 42101, United States
| | - Matthew J. Nee
- Department of Chemistry, Western Kentucky University, 1906 College Heights Boulevard, Bowling Green, Kentucky 42101, United States
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13
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Fang Y, Tang M, Grassian VH. Competition between Displacement and Dissociation of a Strong Acid Compared to a Weak Acid Adsorbed on Silica Particle Surfaces: The Role of Adsorbed Water. J Phys Chem A 2016; 120:4016-24. [DOI: 10.1021/acs.jpca.6b02262] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yuan Fang
- Department
of Chemistry, University of Iowa, Iowa City, Iowa 52242, United States
- Department
of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
| | - Mingjin Tang
- Department
of Chemistry, University of Iowa, Iowa City, Iowa 52242, United States
| | - Vicki H. Grassian
- Department
of Chemistry, University of Iowa, Iowa City, Iowa 52242, United States
- Department
of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
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14
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Daschakraborty S, Kiefer PM, Miller Y, Motro Y, Pines D, Pines E, Hynes JT. Reaction Mechanism for Direct Proton Transfer from Carbonic Acid to a Strong Base in Aqueous Solution I: Acid and Base Coordinate and Charge Dynamics. J Phys Chem B 2016; 120:2271-80. [PMID: 26879554 DOI: 10.1021/acs.jpcb.5b12742] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Protonation by carbonic acid H2CO3 of the strong base methylamine CH3NH2 in a neutral contact pair in aqueous solution is followed via Car-Parrinello molecular dynamics simulations. Proton transfer (PT) occurs to form an aqueous solvent-stabilized contact ion pair within 100 fs, a fast time scale associated with the compression of the acid-base hydrogen-bond (H-bond), a key reaction coordinate. This rapid barrierless PT is consistent with the carbonic acid-protonated base pKa difference that considerably favors the PT, and supports the view of intact carbonic acid as potentially important proton donor in assorted biological and environmental contexts. The charge redistribution within the H-bonded complex during PT supports a Mulliken picture of charge transfer from the nitrogen base to carbonic acid without altering the transferring hydrogen's charge from approximately midway between that of a hydrogen atom and that of a proton.
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Affiliation(s)
- Snehasis Daschakraborty
- Department of Chemistry and Biochemistry, University of Colorado , Boulder, Colorado 80309-0215, United States
| | - Philip M Kiefer
- Department of Chemistry and Biochemistry, University of Colorado , Boulder, Colorado 80309-0215, United States
| | - Yifat Miller
- Department of Chemistry, Ben-Gurion University of the Negev , P.O. Box 653, Beer-Sheva 84105, Israel
| | - Yair Motro
- Department of Chemistry, Ben-Gurion University of the Negev , P.O. Box 653, Beer-Sheva 84105, Israel
| | - Dina Pines
- Department of Chemistry, Ben-Gurion University of the Negev , P.O. Box 653, Beer-Sheva 84105, Israel
| | - Ehud Pines
- Department of Chemistry, Ben-Gurion University of the Negev , P.O. Box 653, Beer-Sheva 84105, Israel
| | - James T Hynes
- Department of Chemistry and Biochemistry, University of Colorado , Boulder, Colorado 80309-0215, United States.,Ecole Normale Supérieure-PSL Research University, Chemistry Department, Sorbonne Universités-UPMC University Paris 06, CNRS UMR 8640 Pasteur, 24 rue Lhomond, 75005 Paris, France
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15
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Marcotte G, Marchand P, Pronovost S, Ayotte P, Laffon C, Parent P. Surface-Enhanced Nitrate Photolysis on Ice. J Phys Chem A 2015; 119:1996-2005. [DOI: 10.1021/jp511173w] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Guillaume Marcotte
- Département
de Chimie, Université de Sherbrooke, 2500 boul. de l’Université, Sherbrooke, Québec, Canada J1K 2R1
| | - Patrick Marchand
- Département
de Chimie, Université de Sherbrooke, 2500 boul. de l’Université, Sherbrooke, Québec, Canada J1K 2R1
| | - Stéphanie Pronovost
- Département
de Chimie, Université de Sherbrooke, 2500 boul. de l’Université, Sherbrooke, Québec, Canada J1K 2R1
| | - Patrick Ayotte
- Département
de Chimie, Université de Sherbrooke, 2500 boul. de l’Université, Sherbrooke, Québec, Canada J1K 2R1
| | - Carine Laffon
- Aix-Marseille Université, CNRS, CINaM UMR 7325, 13288 Marseille, France
| | - Philippe Parent
- Aix-Marseille Université, CNRS, CINaM UMR 7325, 13288 Marseille, France
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16
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17
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Riikonen S, Parkkinen P, Halonen L, Gerber RB. Ionization of Nitric Acid on Crystalline Ice: The Role of Defects and Collective Proton Movement. J Phys Chem Lett 2013; 4:1850-1855. [PMID: 26283120 DOI: 10.1021/jz400531q] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Ionization of nitric acid (HNO3) on a model ice surface is studied using ab initio molecular dynamics at temperatures of 200 and 40 K with a surface slab model that consists of the ideal ice basal plane with locally optimized and annealed defects. Pico- and subpicosecond ionization of nitric acid can be achieved in the defect sites. Key features of the rapid ionization are (a) the efficient solvation of the polyatomic nitrate anion, by stealing hydrogen bonds from the weakened hydrogen bonds at defect sites, (b) formation of contact ion pairs to stable "presolvated" molecular species that are present at the defects,
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Affiliation(s)
- S Riikonen
- †Laboratory of Physical Chemistry, Department of Chemistry, University of Helsinki, P.O. Box 55, FI-00014, Helsinki, Finland
| | - P Parkkinen
- †Laboratory of Physical Chemistry, Department of Chemistry, University of Helsinki, P.O. Box 55, FI-00014, Helsinki, Finland
| | - L Halonen
- †Laboratory of Physical Chemistry, Department of Chemistry, University of Helsinki, P.O. Box 55, FI-00014, Helsinki, Finland
| | - R B Gerber
- †Laboratory of Physical Chemistry, Department of Chemistry, University of Helsinki, P.O. Box 55, FI-00014, Helsinki, Finland
- ‡Institute of Chemistry and the Fritz Haber Research Center, The Hebrew University, Jerusalem 91904 Israel
- §Department of Chemistry, University of California Irvine, Irvine, California 92697, United States
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18
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Griffith EC, Vaida V. Ionization state of l-Phenylalanine at the Air–Water Interface. J Am Chem Soc 2013; 135:710-6. [DOI: 10.1021/ja308089n] [Citation(s) in RCA: 52] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Elizabeth C. Griffith
- Department of Chemistry and Biochemistry
and CIRES, University of Colorado, UCB
215, Boulder, Colorado
80309, United States
| | - Veronica Vaida
- Department of Chemistry and Biochemistry
and CIRES, University of Colorado, UCB
215, Boulder, Colorado
80309, United States
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Moussa SG, Stern AC, Raff JD, Dilbeck CW, Tobias DJ, Finlayson-Pitts BJ. Experimental and theoretical studies of the interaction of gas phase nitric acid and water with a self-assembled monolayer. Phys Chem Chem Phys 2013; 15:448-58. [DOI: 10.1039/c2cp42405c] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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20
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Marchand P, Marcotte G, Ayotte P. Spectroscopic Study of HNO3 Dissociation on Ice. J Phys Chem A 2012; 116:12112-22. [DOI: 10.1021/jp309533f] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Patrick Marchand
- Département de Chimie, Université de Sherbrooke, 2500, boulevard université, Sherbrooke,
Québec J1K 2R1, Canada
| | - Guillaume Marcotte
- Département de Chimie, Université de Sherbrooke, 2500, boulevard université, Sherbrooke,
Québec J1K 2R1, Canada
| | - Patrick Ayotte
- Département de Chimie, Université de Sherbrooke, 2500, boulevard université, Sherbrooke,
Québec J1K 2R1, Canada
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21
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In situ observation of peptide bond formation at the water-air interface. Proc Natl Acad Sci U S A 2012; 109:15697-701. [PMID: 22927374 DOI: 10.1073/pnas.1210029109] [Citation(s) in RCA: 102] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
We report unambiguous spectroscopic evidence of peptide bond formation at the air-water interface, yielding a possible mechanism providing insight into the formation of modern ribosomal peptide bonds, and a means for the emergence of peptides on early Earth. Protein synthesis in aqueous environments, facilitated by sequential amino acid condensation forming peptides, is a ubiquitous process in modern biology, and a fundamental reaction necessary in prebiotic chemistry. Such reactions, however, are condensation reactions, requiring the elimination of a water molecule for every peptide bond formed, and are thus unfavorable in aqueous environments both from a thermodynamic and kinetic point of view. We use the hydrophobic environment of the air-water interface as a favorable venue for peptide bond synthesis, and demonstrate the occurrence of this chemistry with in situ techniques using Langmuir-trough methods and infrared reflection absorption spectroscopy. Leucine ethyl ester (a small amino acid ester) first partitions to the water surface, then coordinates with Cu(2+) ions at the interface, and subsequently undergoes a condensation reaction selectively forming peptide bonds at the air-water interface.
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22
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Sun D, Liu FJ, Huang RB, Zheng LS. Three guest-dependent nitrate–water aggregations encapsulated in silver(i)–bipyridine supramolecular frameworks. CrystEngComm 2012. [DOI: 10.1039/c2ce26161h] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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23
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Sugawara S, Yoshikawa T, Takayanagi T, Shiga M, Tachikawa M. Quantum proton transfer in hydrated sulfuric acid clusters: a perspective from semiempirical path integral simulations. J Phys Chem A 2011; 115:11486-94. [PMID: 21910433 DOI: 10.1021/jp202380h] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We have carried out path-integral molecular dynamics simulations for hydrated sulfuric acid clusters to understand acid-dissociation and hydrogen-bonded structural rearrangement processes in these clusters from a quantum mechanical viewpoint. The simulations were performed using the PM6 semiempirical electronic structure level whose parameters were modified on the basis of the specific reaction parameters strategy so that relative energies of optimized structures, as well as water binding energies reproduce ab initio and density-functional theory calculations. We have found that the acid dissociation processes, first and second deprotonation, effectively occur in a hydrated cluster with a specific cluster size. The mechanisms of the proton-transfer processes were analyzed in detail and it was found that the distance between O in sulfuric acid and O in the proton-accepting water is playing an important role. We also found that the water coordination number of the poton-accepting water is important in the proton-transfer processes.
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Affiliation(s)
- Shuichi Sugawara
- Department of Chemistry, Saitama University, Sakura-ku, Saitama City, Saitama, Japan
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24
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Baloh P, Grothe H, Whitmore K, Parker SF, Llorente BM, Escribano R. Spectroscopic investigation of nitric acid monohydrate. Mol Phys 2011. [DOI: 10.1080/00268976.2011.593571] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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25
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26
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Li B, Zang SQ, Ji C, Liang R, Hou HW, Wu YJ, Mak TCW. Syntheses, structures and properties of silver–organic frameworks constructed with 1,2,3,4-benzenetetracarboxylic acid. Dalton Trans 2011; 40:10071-81. [DOI: 10.1039/c1dt10830a] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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27
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Liu LL, Ren ZG, Wan LM, Ding HY, Lang JP. Inclusion of unique four-clawed crown-like nitrate–water cluster [(NO3)6(H2O)6]6− anions into the inter-spaces of a 3D H–bonded cationic net formed by a cationic calix[4]arene. CrystEngComm 2011. [DOI: 10.1039/c1ce05377a] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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28
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Jiang L, Wende T, Bergmann R, Meijer G, Asmis KR. Gas-Phase Vibrational Spectroscopy of Microhydrated Magnesium Nitrate Ions [MgNO3(H2O)1−4]+. J Am Chem Soc 2010; 132:7398-404. [DOI: 10.1021/ja1011806] [Citation(s) in RCA: 58] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Ling Jiang
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Torsten Wende
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Risshu Bergmann
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Gerard Meijer
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
| | - Knut R. Asmis
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
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29
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Wang S, Bianco R, Hynes JT. Dissociation of nitric acid at an aqueous surface: Large amplitude motions in the contact ion pair to solvent-separated ion pair conversion. Phys Chem Chem Phys 2010; 12:8241-9. [DOI: 10.1039/c002299n] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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30
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Thøgersen J, Gadegaard A, Nielsen J, Jensen SK, Petersen C, Keiding SR. Primary Formation Dynamics of Peroxynitrite Following Photolysis of Nitrate. J Phys Chem A 2009; 113:10488-94. [DOI: 10.1021/jp906354c] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jan Thøgersen
- Department of Chemistry, University of Aarhus, Langelandsgade 140, DK-8000 Aarhus C, Denmark
| | - Ane Gadegaard
- Department of Chemistry, University of Aarhus, Langelandsgade 140, DK-8000 Aarhus C, Denmark
| | - Jakob Nielsen
- Department of Chemistry, University of Aarhus, Langelandsgade 140, DK-8000 Aarhus C, Denmark
| | - Svend Knak Jensen
- Department of Chemistry, University of Aarhus, Langelandsgade 140, DK-8000 Aarhus C, Denmark
| | - Christian Petersen
- Department of Chemistry, University of Aarhus, Langelandsgade 140, DK-8000 Aarhus C, Denmark
| | - Søren R. Keiding
- Department of Chemistry, University of Aarhus, Langelandsgade 140, DK-8000 Aarhus C, Denmark
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31
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Ramesh SG, Re S, Boisson J, Hynes JT. Vibrational Symmetry Breaking of NO3− in Aqueous Solution: NO Asymmetric Stretch Frequency Distribution and Mean Splitting. J Phys Chem A 2009; 114:1255-69. [DOI: 10.1021/jp903626t] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Sai G. Ramesh
- Chemistry Department, École Normale Supérieure, and Centre National de la Recherche Scientifique, Unité Mixte de Recherche 8640, 24 rue Lhomond, 75005 Paris, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
| | - Suyong Re
- Chemistry Department, École Normale Supérieure, and Centre National de la Recherche Scientifique, Unité Mixte de Recherche 8640, 24 rue Lhomond, 75005 Paris, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
| | - Jean Boisson
- Chemistry Department, École Normale Supérieure, and Centre National de la Recherche Scientifique, Unité Mixte de Recherche 8640, 24 rue Lhomond, 75005 Paris, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
| | - James T. Hynes
- Chemistry Department, École Normale Supérieure, and Centre National de la Recherche Scientifique, Unité Mixte de Recherche 8640, 24 rue Lhomond, 75005 Paris, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
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Wang S, Bianco R, Hynes JT. Nitric Acid Dissociation at an Aqueous Surface: Occurrence and Mechanism. Isr J Chem 2009. [DOI: 10.1560/ijc.49.2.251] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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34
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Goebbert DJ, Garand E, Wende T, Bergmann R, Meijer G, Asmis KR, Neumark DM. Infrared Spectroscopy of the Microhydrated Nitrate Ions NO3−(H2O)1−6. J Phys Chem A 2009; 113:7584-92. [DOI: 10.1021/jp9017103] [Citation(s) in RCA: 173] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Daniel J. Goebbert
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany, Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Etienne Garand
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany, Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Torsten Wende
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany, Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Risshu Bergmann
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany, Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Gerard Meijer
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany, Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Knut R. Asmis
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany, Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Daniel M. Neumark
- Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany, Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
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35
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Gerber RB, Sebek J. Dynamics simulations of atmospherically relevant molecular reactions. INT REV PHYS CHEM 2009. [DOI: 10.1080/01442350903016684] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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36
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Wang S, Bianco R, Hynes JT. Depth-Dependent Dissociation of Nitric Acid at an Aqueous Surface: Car−Parrinello Molecular Dynamics. J Phys Chem A 2009; 113:1295-307. [DOI: 10.1021/jp808533y] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Shuzhi Wang
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215, USA, Ecole Normale Supérieure, Chemistry Department, 24 rue Lhomond 75005 Paris, France, and CNRS UMR Pasteur
| | - Roberto Bianco
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215, USA, Ecole Normale Supérieure, Chemistry Department, 24 rue Lhomond 75005 Paris, France, and CNRS UMR Pasteur
| | - James T. Hynes
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215, USA, Ecole Normale Supérieure, Chemistry Department, 24 rue Lhomond 75005 Paris, France, and CNRS UMR Pasteur
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37
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Roca M, Zahardis J, Bone J, El-Maazawi M, Grassian VH. 310 nm Irradiation of Atmospherically Relevant Concentrated Aqueous Nitrate Solutions: Nitrite Production and Quantum Yields. J Phys Chem A 2008; 112:13275-81. [DOI: 10.1021/jp809017b] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Maryuri Roca
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242, and Department of Physical Science and Engineering, Truman College, Chicago, Illinois 60640
| | - James Zahardis
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242, and Department of Physical Science and Engineering, Truman College, Chicago, Illinois 60640
| | - Jason Bone
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242, and Department of Physical Science and Engineering, Truman College, Chicago, Illinois 60640
| | - Mohamed El-Maazawi
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242, and Department of Physical Science and Engineering, Truman College, Chicago, Illinois 60640
| | - Vicki H. Grassian
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242, and Department of Physical Science and Engineering, Truman College, Chicago, Illinois 60640
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