1
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Naskar P, Talukder S. Energetics and spectroscopic studies of CNO (-) (H 2 O) n $$ {\mathbf{CNO}}^{\left(\hbox{-} \right)}{\left({\mathbf{H}}_{\mathbf{2}}\mathbf{O}\right)}_{\mathbf{n}} $$ clusters and the temperature dependencies of the isomers: An approach based on a combined recipe of parallel tempering and quantum chemical methods. J Comput Chem 2024. [PMID: 39151062 DOI: 10.1002/jcc.27480] [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: 04/19/2024] [Revised: 07/22/2024] [Accepted: 07/30/2024] [Indexed: 08/18/2024]
Abstract
A system associated with several number of weak interactions supports numerous number of stable structures within a narrow range of energy. Often, a deterministic search method fails to locate the global minimum geometry as well as important local minimum isomers for such systems. Therefore, in this work, the stochastic search technique, namely parallel tempering, has been executed on the quantum chemical surface of theCNO (-) (H 2 O) n $$ {\mathrm{CNO}}^{\left(\hbox{-} \right)}{\left({\mathrm{H}}_2\mathrm{O}\right)}_n $$ system forn = 1 $$ n=1 $$ -8 to generate global minimum as well as several number of local minimum isomers. IR spectrum can act as the fingerprint property for such system to be identified. Thus, IR spectroscopic features have also been included in this work. Vertical detachment energy has also been calculated to obtain clear information about number of water molecules in several spheres around the central anion. In addition, in a real experimental scenario, not only the global but also the local minimum isomers play an important role in determining the average value of a particular physically observable property. Therefore, the relative conformational populations have been determined for all the evaluated structures for the temperature range between 20K and 400K. Further to understand the phase change behavior, the configurational heat capacities have also been calculated for different sizes.
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Affiliation(s)
- Pulak Naskar
- Department of Chemistry, Mrinalini Datta Mahavidyapith, Kolkata, India
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2
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Watson PD, Meizyte G, Pearcy PAJ, Brewer EI, Green AE, Robertson C, Paterson MJ, Mackenzie SR. Infrared spectra and fragmentation dynamics of isotopologue-selective mixed-ligand complexes. Phys Chem Chem Phys 2024; 26:16589-16596. [PMID: 38814318 DOI: 10.1039/d4cp00978a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/31/2024]
Abstract
Isolated mixed-ligand complexes provide tractable model systems in which to study competitive and cooperative binding effects as well as controlled energy flow. Here, we report spectroscopic and isotopologue-selective infrared photofragmentation dynamics of mixed gas-phase Au(12/13CO)n(N2O)m+ complexes. The rich infrared action spectra, which are reproduced well using simulations of calculated lowest energy structures, clarify previous ambiguities in the assignment of vibrational bands, especially accidental coincidence of CO and N2O bands. The fragmentation dynamics exhibit the same unexpected behaviour as reported previously in which, once CO loss channels are energetically accessible, these dominate the fragmentation branching ratios, despite the much lower binding energy of N2O. We have investigated the dynamics computationally by considering anharmonic couplings between a relevant subset of normal modes involving both ligand stretch and intermolecular modes. Discrepancies between correlated and uncorrelated model fit to the ab initio potential energy curves are quantified using a Boltzmann sampled root mean squared deviation providing insight into efficiency of vibrational energy transfer between high frequency ligand stretches and the softer intermolecular modes which break during fragmentation.
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Affiliation(s)
- Peter D Watson
- Department of Chemistry, University of Oxford, Physical and Theoretical Chemistry Laboratory, South Parks Road, Oxford, OX1 3QZ, UK.
| | - Gabriele Meizyte
- Department of Chemistry, University of Oxford, Physical and Theoretical Chemistry Laboratory, South Parks Road, Oxford, OX1 3QZ, UK.
| | - Philip A J Pearcy
- Department of Chemistry, University of Oxford, Physical and Theoretical Chemistry Laboratory, South Parks Road, Oxford, OX1 3QZ, UK.
| | - Edward I Brewer
- Department of Chemistry, University of Oxford, Physical and Theoretical Chemistry Laboratory, South Parks Road, Oxford, OX1 3QZ, UK.
| | - Alice E Green
- Department of Chemistry, University of Oxford, Physical and Theoretical Chemistry Laboratory, South Parks Road, Oxford, OX1 3QZ, UK.
| | - Christopher Robertson
- School of Engineering & Physical Sciences, Heriot-Watt University, Edinburgh, Scotland, EH14 4AS, UK
| | - Martin J Paterson
- School of Engineering & Physical Sciences, Heriot-Watt University, Edinburgh, Scotland, EH14 4AS, UK
| | - Stuart R Mackenzie
- Department of Chemistry, University of Oxford, Physical and Theoretical Chemistry Laboratory, South Parks Road, Oxford, OX1 3QZ, UK.
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3
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Martínez JA, Langguth IC, Olivenza-León D, Morgenstern K. The structure-giving role of Rb + ions for water-ice nanoislands supported on Cu(111). Phys Chem Chem Phys 2024; 26:13667-13674. [PMID: 38563329 DOI: 10.1039/d3cp05968e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/04/2024]
Abstract
We characterize the effect of rubidium ions on water-ice nanoislands in terms of area, fractal dimension, and apparent height by low-temperature scanning tunneling microscopy. Water nanoislands on the pristine Cu(111) surface are compared to those at similar coverage on a Rb+ pre-covered Cu(111) surface to reveal the structure-giving effect of Rb+. The presence of Rb+ induces changes in the island shape, and hence, the water network, without affecting the nanoisland volume. The broad area distribution shifts to larger values while the height decreases from three bilayers to one or two bilayers. The nanoislands on the Rb+ pre-covered surface are also more compact, reflected in a shift in the fractal dimension distribution. We relate the changes to a weakening of the hydrogen-bond network by Rb+.
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Affiliation(s)
- Javier A Martínez
- Instituto de Ciencia y Tecnología de Materiales (IMRE), Universidad de La Habana, Zapata y G, Havana 10400, Cuba.
- Lehrstuhl für Physikalische Chemie I, Ruhr-Universität Bochum, Universitätsstraße 150, D-44801 Bochum, Germany
| | - Inga C Langguth
- Lehrstuhl für Physikalische Chemie I, Ruhr-Universität Bochum, Universitätsstraße 150, D-44801 Bochum, Germany
| | - David Olivenza-León
- Lehrstuhl für Physikalische Chemie I, Ruhr-Universität Bochum, Universitätsstraße 150, D-44801 Bochum, Germany
| | - Karina Morgenstern
- Lehrstuhl für Physikalische Chemie I, Ruhr-Universität Bochum, Universitätsstraße 150, D-44801 Bochum, Germany
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4
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Li XY, Wang T, Cai YC, Meng ZD, Nan JW, Ye JY, Yi J, Zhan DP, Tian N, Zhou ZY, Sun SG. Mechanism of Cations Suppressing Proton Diffusion Kinetics for Electrocatalysis. Angew Chem Int Ed Engl 2023; 62:e202218669. [PMID: 36762956 DOI: 10.1002/anie.202218669] [Citation(s) in RCA: 19] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Revised: 02/07/2023] [Accepted: 02/10/2023] [Indexed: 02/11/2023]
Abstract
Proton transfer is crucial for electrocatalysis. Accumulating cations at electrochemical interfaces can alter the proton transfer rate and then tune electrocatalytic performance. However, the mechanism for regulating proton transfer remains ambiguous. Here, we quantify the cation effect on proton diffusion in solution by hydrogen evolution on microelectrodes, revealing the rate can be suppressed by more than 10 times. Different from the prevalent opinions that proton transport is slowed down by modified electric field, we found water structure imposes a more evident effect on kinetics. FTIR test and path integral molecular dynamics simulation indicate that proton prefers to wander within the hydration shell of cations rather than to hop rapidly along water wires. Low connectivity of water networks disrupted by cations corrupts the fast-moving path in bulk water. This study highlights the promising way for regulating proton kinetics via a modified water structure.
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Affiliation(s)
- Xiao-Yu Li
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Tao Wang
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Yu-Chen Cai
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Zhao-Dong Meng
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Jing-Wen Nan
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Jin-Yu Ye
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Jun Yi
- School of Electronic Science and Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Dong-Ping Zhan
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Na Tian
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Zhi-You Zhou
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
| | - Shi-Gang Sun
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Tan Kah Kee Innovation Laboratory, Collaborative Innovation Center of Chemistry for Energy Materials, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China
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5
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Structures and spectroscopic properties of K+(H2O)n with n = 1–10 clusters based on density functional theory. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.139735] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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6
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Lunkenheimer K, Prescher D, Geggel K. Role of Counterions in the Adsorption and Micellization Behavior of 1:1 Ionic Surfactants at Fluid Interfaces─Demonstrated by the Standard Amphiphile System of Alkali Perfluoro- n-octanoates. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:891-902. [PMID: 34995078 PMCID: PMC8793141 DOI: 10.1021/acs.langmuir.1c00527] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/08/2021] [Revised: 12/21/2021] [Indexed: 06/14/2023]
Abstract
In our latest communication, we proved experimentally that the ionic surfactant's surface excess is exclusively determined by the size of the hydrated counterion.[Lunkenheimer , Langmuir, 2017, 33, 10216-1022410.1021/acs.langmuir.7b00786]. However, at this stage of research, we were unable to decide whether this does only hold for the two or three lightest ions of lithium, sodium, and potassium, respectively. Alternatively, we could also consider the surface excess of the heavier hydrated alkali ions of potassium, rubidium, and cesium, having practically identical ion size, as being determined by the cross-sectional area of the related anionic extended chain residue. The latter assumption has represented state of art. Searching for reliable experimental results on the effect of the heavier counterions on the boundary layer, we have extended investigations to the amphiphiles' solutions of concentrations above the critical concentration of micelle formation (cmc).We provided evidence that the super-micellar solutions' equilibrium surface tension will remain constant provided the required conditions are followed. The related σcmc-value represents a parameter characteristic of the ionic surfactant's adsorption and micellization behavior. Evaluating the amphiphile's surface excess obtained from adsorption as a function of the related amphiphile's σcmc-value enables you to calculate the radius of the hydrated counterion valid in sub- and super-micellar solution likewise. The σcmc-value is directly proportional to the counterion's diameter concerned. Taking additionally into account the radii of naked ions known from crystal research, we succeeded in exactly discriminating the hydrated alkali ions' size from each other. There is a distinct sequence of hydration radii in absolute scale following the inequality, Li+ > Na+ > K+ > (NH4)+ > Rb+ > Cs+. Therefore, we have to extend our model of counterion effectiveness put forward in our previous communication. It represents a general principle of the counterion effect.
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Affiliation(s)
- Klaus Lunkenheimer
- Max-Planck-Institut
für Kolloid- und Grenzflächenforschung, Am Mühlenberg 1, Potsdam D-14476, Germany
| | - Dietrich Prescher
- Max-Planck-Institut
für Kolloid- und Grenzflächenforschung, Am Mühlenberg 1, Potsdam D-14476, Germany
| | - Katrina Geggel
- Max-Planck-Institut
für Kolloid- und Grenzflächenforschung, Am Mühlenberg 1, Potsdam D-14476, Germany
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7
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Green AE, Brown RH, Meizyte G, Mackenzie SR. Spectroscopy and Infrared Photofragmentation Dynamics of Mixed Ligand Ion-Molecule Complexes: Au(CO) x(N 2O) y. J Phys Chem A 2021; 125:7266-7277. [PMID: 34433267 DOI: 10.1021/acs.jpca.1c05800] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We report a combined experimental and computational study of the structure and fragmentation dynamics of mixed ligand gas-phase ion-molecule complexes. Specifically, we have studied the infrared spectroscopy and vibrationally induced photofragmentation dynamics of mass-selected Au(CO)x(N2O)y+ complexes. The structures can be understood on the basis of local CO and N2O chromophores in different solvation shells with CO found preferentially in the core. Rich fragmentation dynamics are observed as a function of complex composition and the vibrational mode excited. The dynamics are characterized in terms of branching ratios for different ligand loss channels in light of calculated internal energy distributions. Intramolecular vibrational redistribution appears to be rapid, and dissociation is observed into all energetically accessible channels with little or no evidence for preferential breaking of the weakest intermolecular interactions.
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Affiliation(s)
- Alice E Green
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford, United Kingdom OX1 3QZ
| | - Rachael H Brown
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford, United Kingdom OX1 3QZ
| | - Gabriele Meizyte
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford, United Kingdom OX1 3QZ
| | - Stuart R Mackenzie
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford, United Kingdom OX1 3QZ
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8
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Xin K, Chen Y, Zhang L, Xu B, Wang X, Wang G. Infrared photodissociation spectroscopic investigation on VO+ and NbO+ hydrolysis catalyzed by water molecules. Phys Chem Chem Phys 2021; 23:528-535. [DOI: 10.1039/d0cp04448b] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
We investigate the hydrolysis of vanadium/niobium monoxide cation (VO+/NbO+) with water molecules in the gas phase.
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Affiliation(s)
- Ke Xin
- School of Chemical Science and Engineering, Shanghai Key Lab of Chemical Assessment and Sustainability, Tongji University
- Shanghai
- China
| | - Yinjuan Chen
- School of Chemical Science and Engineering, Shanghai Key Lab of Chemical Assessment and Sustainability, Tongji University
- Shanghai
- China
| | - Luning Zhang
- School of Chemical Science and Engineering, Shanghai Key Lab of Chemical Assessment and Sustainability, Tongji University
- Shanghai
- China
| | - Bing Xu
- School of Chemical Science and Engineering, Shanghai Key Lab of Chemical Assessment and Sustainability, Tongji University
- Shanghai
- China
| | - Xuefeng Wang
- School of Chemical Science and Engineering, Shanghai Key Lab of Chemical Assessment and Sustainability, Tongji University
- Shanghai
- China
| | - Guanjun Wang
- Department of Chemistry, Collaborative Innovation Center of Chemistry for Energy Materials, Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials, Fudan University
- Shanghai 200438
- China
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9
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Riera M, Talbot JJ, Steele RP, Paesani F. Infrared signatures of isomer selectivity and symmetry breaking in the Cs+(H2O)3 complex using many-body potential energy functions. J Chem Phys 2020; 153:044306. [DOI: 10.1063/5.0013101] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Affiliation(s)
- Marc Riera
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Justin J. Talbot
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
| | - Ryan P. Steele
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
- Materials Science and Engineering, University of California San Diego, La Jolla, California 92093, USA
- San Diego Supercomputer Center, University of California San Diego, La Jolla, California 92093, USA
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10
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Barwa E, Pascher TF, Ončák M, Linde C, Beyer MK. Aktivierung von Kohlenstoffdioxid an Metallzentren: Entwicklung des Ladungstransfers von Mg
.+
auf CO
2
in [MgCO
2
(H
2
O)
n
]
.+
,
n=
0–8. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202001292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Erik Barwa
- Institut für Ionenphysik und Angewandte PhysikUniversität Innsbruck Technikerstraße 25 6020 Innsbruck Österreich
| | - Tobias F. Pascher
- Institut für Ionenphysik und Angewandte PhysikUniversität Innsbruck Technikerstraße 25 6020 Innsbruck Österreich
| | - Milan Ončák
- Institut für Ionenphysik und Angewandte PhysikUniversität Innsbruck Technikerstraße 25 6020 Innsbruck Österreich
| | - Christian Linde
- Institut für Ionenphysik und Angewandte PhysikUniversität Innsbruck Technikerstraße 25 6020 Innsbruck Österreich
| | - Martin K. Beyer
- Institut für Ionenphysik und Angewandte PhysikUniversität Innsbruck Technikerstraße 25 6020 Innsbruck Österreich
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11
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Mirdha RH, Naskar P, Chaudhury P. Constructing transformation paths for conformational changes in (MgF 2) n clusters using a stochastic procedure. Mol Phys 2020. [DOI: 10.1080/00268976.2019.1645368] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
| | - Pulak Naskar
- Department of Chemistry, University of Calcutta, Kolkata, India
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12
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Barwa E, Pascher TF, Ončák M, van der Linde C, Beyer MK. Carbon Dioxide Activation at Metal Centers: Evolution of Charge Transfer from Mg .+ to CO 2 in [MgCO 2 (H 2 O) n ] .+ , n=0-8. Angew Chem Int Ed Engl 2020; 59:7467-7471. [PMID: 32100953 PMCID: PMC7217156 DOI: 10.1002/anie.202001292] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Indexed: 11/06/2022]
Abstract
We investigate activation of carbon dioxide by singly charged hydrated magnesium cations Mg .+(H2O)n, through infrared multiple photon dissociation (IRMPD) spectroscopy combined with quantum chemical calculations. The spectra of [MgCO2(H2O)n].+ in the 1250–4000 cm−1 region show a sharp transition from n=2 to n=3 for the position of the CO2 antisymmetric stretching mode. This is evidence for the activation of CO2 via charge transfer from Mg .+ to CO2 for n≥3, while smaller clusters feature linear CO2 coordinated end‐on to the metal center. Starting with n=5, we see a further conformational change, with CO2.− coordination to Mg2+ gradually shifting from bidentate to monodentate, consistent with preferential hexa‐coordination of Mg2+. Our results reveal in detail how hydration promotes CO2 activation by charge transfer at metal centers.
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Affiliation(s)
- Erik Barwa
- Institut für Ionenphysik und Angewandte Physik, Universität Innsbruck, Technikerstraße 25, 6020, Innsbruck, Austria
| | - Tobias F Pascher
- Institut für Ionenphysik und Angewandte Physik, Universität Innsbruck, Technikerstraße 25, 6020, Innsbruck, Austria
| | - Milan Ončák
- Institut für Ionenphysik und Angewandte Physik, Universität Innsbruck, Technikerstraße 25, 6020, Innsbruck, Austria
| | - Christian van der Linde
- Institut für Ionenphysik und Angewandte Physik, Universität Innsbruck, Technikerstraße 25, 6020, Innsbruck, Austria
| | - Martin K Beyer
- Institut für Ionenphysik und Angewandte Physik, Universität Innsbruck, Technikerstraße 25, 6020, Innsbruck, Austria
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13
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Wang P, Shi R, Su Y, Tang L, Huang X, Zhao J. Hydrated Sodium Ion Clusters [Na +(H 2O) n ( n = 1-6)]: An ab initio Study on Structures and Non-covalent Interaction. Front Chem 2019; 7:624. [PMID: 31572714 PMCID: PMC6751288 DOI: 10.3389/fchem.2019.00624] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2019] [Accepted: 08/29/2019] [Indexed: 11/24/2022] Open
Abstract
Structural, thermodynamic, and vibrational characteristics of water clusters up to six water molecules incorporating a single sodium ion [Na+(H2O)n (n = 1–6)] are calculated using a comprehensive genetic algorithm combined with density functional theory on global search, followed by high-level ab initio calculation. For n ≥ 4, the coordinated water molecules number for the global minimum of clusters is 4 and the outer water molecules connecting with coordinated water molecules by hydrogen bonds. The charge analysis reveals the electron transfer between sodium ions and water molecules, providing an insight into the variations of properties of O–H bonds in clusters. Moreover, the simulated infrared (IR) spectra with anharmonic correction are in good agreement with the experimental results. The O–H stretching vibration frequencies show redshifts comparing with a free water molecule, which is attributed to the non-covalent interactions, including the ion–water interaction, and hydrogen bonds. Our results exhibit the comprehensive geometries, energies, charge, and anharmonic vibrational properties of Na+(H2O)n (n = 1–6), and reveal a deeper insight of non-covalent interactions.
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Affiliation(s)
- Pengju Wang
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams (Dalian University of Technology), Ministry of Education, Dalian, China
| | - Ruili Shi
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams (Dalian University of Technology), Ministry of Education, Dalian, China.,School of Mathematics and Physics, Hebei University of Engineering, Handan, China
| | - Yan Su
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams (Dalian University of Technology), Ministry of Education, Dalian, China
| | - Lingli Tang
- College of Science, Dalian Nationalities University, Dalian, China
| | - Xiaoming Huang
- School of Ocean Science and Technology, Dalian University of Technology, Panjin, China
| | - Jijun Zhao
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams (Dalian University of Technology), Ministry of Education, Dalian, China
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14
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Naskar P. Structural and spectroscopic aspects of SCN (-)(H 2O) n clusters and the temperature dependency of the isomers: a parallel tempering based approach. Mol Phys 2019. [DOI: 10.1080/00268976.2018.1528395] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- Pulak Naskar
- Department of Chemistry, University of Calcutta, Kolkata, India
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15
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Ishiuchi SI, Sasaki Y, Lisy JM, Fujii M. Ion-peptide interactions between alkali metal ions and a termini-protected dipeptide: modeling a portion of the selectivity filter in K + channels. Phys Chem Chem Phys 2019; 21:561-571. [PMID: 30351321 DOI: 10.1039/c8cp05839c] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Potassium channels have the unique ability to allow the selective passage of potassium ions at near diffusion-free rates while inhibiting the passage of more abundant sodium ions. Local interactions between chemical functional groups and the ions are responsible for both selectivity and transport. As an initial step in characterizing these interactions, the structures of Na+ and K+ complexed to the Ac-Tyr-NHMe peptide have been determined from infrared laser spectroscopy and supporting ab initio calculations. Ac-Tyr-NHMe, a termini-protected peptide sequence, replicates the GYG portion of one of the four peptide chains comprising the selectivity filter of a K+ channel. This peptide contains two carbonyl groups, among the eight C[double bond, length as m-dash]O groups forming the S1 binding site of the selectivity filter. Three conformations have been identified for both ions by laser IR-IR double resonance methods. Two conformations have the ion bound to the two C[double bond, length as m-dash]O groups. The third conformation has, in addition, a cation-π interaction with the aromatic ring of tyrosine, i.e. tridentate binding. The relative contributions of the three conformers are approximately the same for K+Ac-Tyr-NHMe, while the tridentate conformer is preferred for Na+Ac-Tyr-NHMe. These differences will be discussed in the context of ion mobility and selectivity.
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Affiliation(s)
- Shun-Ichi Ishiuchi
- Laboratory for Chemistry and Life Science, Tokyo Institute of Technology, Yokohama 226-8503, Japan.
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16
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Naskar P, Roy R, Talukder S, Chaudhury P. Structural, spectroscopic and thermodynamic aspects of azide–water clusters: an approach using a conjugated prescription of stochastic and quantum chemical methods. Mol Phys 2018. [DOI: 10.1080/00268976.2018.1465605] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
Affiliation(s)
- Pulak Naskar
- Department of Chemistry, University of Calcutta, Kolkata, India
| | - Rituparna Roy
- Department of Chemistry, Indian Institute of Technology Bombay, Mumbai, India
| | - Srijeeta Talukder
- Department of Physical Chemistry, Indian Association for the Cultivation of Science, Kolkata, India
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17
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Hou JH, Wu D, Liu JY, Li SY, Yu D, Li Y. The effect of hydration on the electronic structure and stability of the superalkali cation Li3+. Phys Chem Chem Phys 2018; 20:15174-15182. [DOI: 10.1039/c8cp00862k] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Insights into the interaction between the superalkali cation Li3+ and water molecules and the stability of the resulting hydrates.
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Affiliation(s)
- Jia-Huan Hou
- Laboratory of Theoretical and Computational Chemistry
- Institute of Theoretical Chemistry
- Jilin University
- Changchun 130023
- P. R. China
| | - Di Wu
- Laboratory of Theoretical and Computational Chemistry
- Institute of Theoretical Chemistry
- Jilin University
- Changchun 130023
- P. R. China
| | - Jia-Yuan Liu
- Laboratory of Theoretical and Computational Chemistry
- Institute of Theoretical Chemistry
- Jilin University
- Changchun 130023
- P. R. China
| | - Si-Yi Li
- Laboratory of Theoretical and Computational Chemistry
- Institute of Theoretical Chemistry
- Jilin University
- Changchun 130023
- P. R. China
| | - Dan Yu
- Laboratory of Theoretical and Computational Chemistry
- Institute of Theoretical Chemistry
- Jilin University
- Changchun 130023
- P. R. China
| | - Ying Li
- Laboratory of Theoretical and Computational Chemistry
- Institute of Theoretical Chemistry
- Jilin University
- Changchun 130023
- P. R. China
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18
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Esser TK, Knorke H, Siro-Brigiano F, Galimberti DR, Asmis KR, Gaigeot MP, Lisy JM. Influence of argon and D2 tagging on the hydrogen bond network in Cs+(H2O)3; kinetic trapping below 40 K. Phys Chem Chem Phys 2018; 20:28476-28486. [DOI: 10.1039/c8cp06020g] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Tuning cluster ion conformations between 12 and 21 K.
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Affiliation(s)
- Tim K. Esser
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie
- Universität Leipzig
- D-04103 Leipzig
- Germany
| | - Harald Knorke
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie
- Universität Leipzig
- D-04103 Leipzig
- Germany
| | | | | | - Knut R. Asmis
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie
- Universität Leipzig
- D-04103 Leipzig
- Germany
| | | | - James M. Lisy
- Department of Chemistry
- University of Illinois at Urbana-Champaign, Urbana
- Illinois 61801
- USA
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19
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Samala NR, Agmon N. Structure, spectroscopy, and dynamics of the phenol-(water)2 cluster at low and high temperatures. J Chem Phys 2017; 147:234307. [DOI: 10.1063/1.5006055] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Nagaprasad Reddy Samala
- The Fritz Haber Research Center, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Noam Agmon
- The Fritz Haber Research Center, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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20
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Li RZ, Liu YY, Yang M. Microsolvation of lithium iodide dimer studied by ab initio calculations. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2017.06.005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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21
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Cooper RJ, O'Brien JT, Chang TM, Williams ER. Structural and electrostatic effects at the surfaces of size- and charge-selected aqueous nanodrops. Chem Sci 2017; 8:5201-5213. [PMID: 28970907 PMCID: PMC5618692 DOI: 10.1039/c7sc00481h] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 05/17/2017] [Indexed: 11/23/2022] Open
Abstract
The effects of ion charge, polarity and size on the surface morphology of size-selected aqueous nanodrops containing a single ion and up to 550 water molecules are investigated with infrared photodissociation (IRPD) spectroscopy and theory.
The effects of ion charge, polarity and size on the surface morphology of size-selected aqueous nanodrops containing a single ion and up to 550 water molecules are investigated with infrared photodissociation (IRPD) spectroscopy and theory. IRPD spectra of M(H2O)n where M = La3+, Ca2+, Na+, Li+, I–, SO42– and supporting molecular dynamics simulations indicate that strong interactions between multiply charged ions and water molecules can disrupt optimal hydrogen bonding (H-bonding) at the nanodrop surface. The IRPD spectra also reveal that “free” OH stretching frequencies of surface-bound water molecules are highly sensitive to the ion's identity and the OH bond's local H-bond environment. The measured frequency shifts are qualitatively reproduced by a computationally inexpensive point-charge model that shows the frequency shifts are consistent with a Stark shift from the ion's electric field. For multiply charged cations, pronounced Stark shifting is observed for clusters containing ∼100 or fewer water molecules. This is attributed to ion-induced solvent patterning that extends to the nanodrop surface, and serves as a spectroscopic signature for a cation's ability to influence the H-bond network of water located remotely from the ion. The Stark shifts measured for the larger nanodrops are extrapolated to infinite dilution to obtain the free OH stretching frequency of a surface-bound water molecule at the bulk air–water interface (3696.5–3701.0 cm–1), well within the relatively wide range of values obtained from SFG measurements. These cluster measurements also indicate that surface curvature effects can influence the free OH stretching frequency, and that even nanodrops without an ion have a surface potential that depends on cluster size.
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Affiliation(s)
- Richard J Cooper
- Department of Chemistry , University of California , Berkeley , California 94720-1460 , USA . ; Tel: +1 510 643 7161
| | - Jeremy T O'Brien
- Department of Chemistry , University of California , Berkeley , California 94720-1460 , USA . ; Tel: +1 510 643 7161
| | - Terrence M Chang
- Department of Chemistry , University of California , Berkeley , California 94720-1460 , USA . ; Tel: +1 510 643 7161
| | - Evan R Williams
- Department of Chemistry , University of California , Berkeley , California 94720-1460 , USA . ; Tel: +1 510 643 7161
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22
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23
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Wang H, Agmon N. Reinvestigation of the Infrared Spectrum of the Gas-Phase Protonated Water Tetramer. J Phys Chem A 2017; 121:3056-3070. [DOI: 10.1021/acs.jpca.7b01856] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Huan Wang
- The Fritz Haber Research
Center, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Noam Agmon
- The Fritz Haber Research
Center, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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24
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Li RZ, Zeng Z, Hou GL, Xu HG, Zhao X, Gao YQ, Zheng WJ. Hydration of potassium iodide dimer studied by photoelectron spectroscopy and ab initio calculations. J Chem Phys 2016; 145:184307. [DOI: 10.1063/1.4967168] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Ren-Zhong Li
- Institute for Chemical Physics, School of Science, Xi’an Jiaotong University, Xi’an 710049, China
- College of Electronics and Information, Xi’an Polytechnic University, Xi’an 710048, China
| | - Zhen Zeng
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory of Molecular Reaction Dynamics, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
| | - Gao-Lei Hou
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory of Molecular Reaction Dynamics, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
| | - Hong-Guang Xu
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory of Molecular Reaction Dynamics, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
| | - Xiang Zhao
- Institute for Chemical Physics, School of Science, Xi’an Jiaotong University, Xi’an 710049, China
| | - Yi Qin Gao
- Beijing National Laboratory for Molecular Sciences, Institute of Theoretical and Computational Chemistry, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Wei-Jun Zheng
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory of Molecular Reaction Dynamics, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
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25
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Ferrer J, San-Fabián E. Competition for water between protein (from Haloferax mediterranei) and cations $$\hbox {Na}^+$$ Na + and $$\hbox {K}^+$$ K + : a quantum approach to problem. Theor Chem Acc 2016. [DOI: 10.1007/s00214-016-1983-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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26
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Ward T, Carnegie P, Duncan M. Infrared spectroscopy of the Ti(H2O)Ar+ ion–molecule complex: Electronic state switching induced by argon. Chem Phys Lett 2016. [DOI: 10.1016/j.cplett.2016.04.065] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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27
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Fifen JJ, Agmon N. Structure and Spectroscopy of Hydrated Sodium Ions at Different Temperatures and the Cluster Stability Rules. J Chem Theory Comput 2016; 12:1656-73. [DOI: 10.1021/acs.jctc.6b00038] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jean Jules Fifen
- The
Fritz Haber Research Center, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
- Department
of Physics, Faculty of Science, The University of Ngaoundere, P.O. Box 454, Ngaoundere, Cameroon
| | - Noam Agmon
- The
Fritz Haber Research Center, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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28
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Rodgers MT, Armentrout PB. Cationic Noncovalent Interactions: Energetics and Periodic Trends. Chem Rev 2016; 116:5642-87. [PMID: 26953819 DOI: 10.1021/acs.chemrev.5b00688] [Citation(s) in RCA: 105] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
In this review, noncovalent interactions of ions with neutral molecules are discussed. After defining the scope of the article, which excludes anionic and most protonated systems, methods associated with measuring thermodynamic information for such systems are briefly recounted. An extensive set of tables detailing available thermodynamic information for the noncovalent interactions of metal cations with a host of ligands is provided. Ligands include small molecules (H2, NH3, CO, CS, H2O, CH3CN, and others), organic ligands (O- and N-donors, crown ethers and related molecules, MALDI matrix molecules), π-ligands (alkenes, alkynes, benzene, and substituted benzenes), miscellaneous inorganic ligands, and biological systems (amino acids, peptides, sugars, nucleobases, nucleosides, and nucleotides). Hydration of metalated biological systems is also included along with selected proton-based systems: 18-crown-6 polyether with protonated peptides and base-pairing energies of nucleobases. In all cases, the literature thermochemistry is evaluated and, in many cases, reanchored or adjusted to 0 K bond dissociation energies. Trends in these values are discussed and related to a variety of simple molecular concepts.
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Affiliation(s)
- M T Rodgers
- Department of Chemistry, Wayne State University , Detroit, Michigan 48202, United States
| | - P B Armentrout
- Department of Chemistry, University of Utah , Salt Lake City, Utah 84112, United States
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29
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30
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Ke H, Lisy JM. Influence of hydration on ion-biomolecule interactions: M(+)(indole)(H2O)(n) (M = Na, K; n = 3-6). Phys Chem Chem Phys 2015; 17:25354-64. [PMID: 26397000 DOI: 10.1039/c5cp01565k] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The indole functional group can be found in many biologically relevant molecules, such as neurotransmitters, pineal hormones and medicines. Indole has been used as a tractable model to study the hydration structures of biomolecules as well as the interplay of non-covalent interactions within ion-biomolecule-water complexes, which largely determine their structure and dynamics. With three potential binding sites: above the six- or five-member ring, and the N-H group, the competition between π and hydrogen bond interactions involves multiple locations. Electrostatic interactions from monovalent cations are in direct competition with hydrogen bonding interactions, as structural configurations involving both direct cation-indole interactions and cation-water-indole bridging interactions were observed. The different charge densities of Na(+) and K(+) give rise to different structural conformers at the same level of hydration. Infrared spectra with parallel hybrid functional-based calculations and Gibbs free energy calculations revealed rich structural insights into the Na(+)/K(+)(indole)(H2O)3-6 cluster ion complexes. Isotopic (H/D) analyses were applied to decouple the spectral features originating from the OH and NH stretches. Results showed no evidence of direct interaction between water and the NH group of indole (via a σ-hydrogen bond) at current levels of hydration with the incorporation of cations. Hydrogen bonding to a π-system, however, was ubiquitous at hydration levels between two and five.
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Affiliation(s)
- Haochen Ke
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA.
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31
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Tabor DP, Kusaka R, Walsh PS, Zwier TS, Sibert EL. Local Mode Approach to OH Stretch Spectra of Benzene–(H2O)n Clusters, n = 2–7. J Phys Chem A 2015; 119:9917-30. [PMID: 26340135 DOI: 10.1021/acs.jpca.5b06954] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Daniel P. Tabor
- Department
of Chemistry and Theoretical Chemistry Institute, University of Wisconsin—Madison, Madison, Wisconsin 53706, United States
| | - Ryoji Kusaka
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Patrick S. Walsh
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Timothy S. Zwier
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Edwin L. Sibert
- Department
of Chemistry and Theoretical Chemistry Institute, University of Wisconsin—Madison, Madison, Wisconsin 53706, United States
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