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Mosaferi M, Céolin D, Rueff JP, Selles P, Odelius M, Björneholm O, Öhrwall G, Carniato S. Fingerprint of Dipole Moment Orientation of Water Molecules in Cu 2+ Aqueous Solution Probed by X-ray Photoelectron Spectroscopy. J Am Chem Soc 2024; 146:9836-9850. [PMID: 38545903 DOI: 10.1021/jacs.3c14570] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/11/2024]
Abstract
The electronic structure and geometrical organization of aqueous Cu2+ have been investigated by using X-ray photoelectron spectroscopy (XPS) at the Cu L-edge combined with state-of-the-art ab initio molecular dynamics and a quantum molecular approach designed to simulate the Cu 2p X-ray photoelectron spectrum. The calculations offer a comprehensive insight into the origin of the main peak and satellite features. It is illustrated how the energy drop of the Cu 3d levels (≈7 eV) following the creation of the Cu 2p core hole switches the nature of the highest singly occupied molecular orbitals (MOs) from the dominant metal to the dominant MO nature of water. It is particularly revealed how the repositioning of the Cu 3d levels induces the formation of new bonding (B) and antibonding (AB) orbitals, from which shakeup mechanisms toward the relaxed H-SOMO operate. As highlighted in this study, the appearance of the shoulder near the main peak corresponds to the characteristic signature of shakeup intraligand (1a1 → H-SOMO(1b1)) excitations in water, providing insights into the average dipole moment distribution (≈36°) of the first-shell water molecules surrounding the metal ion and its direct impact on the broadening of the satellite. It is also revealed that the main satellite at 8 eV from the main peak corresponds to (metal/1b2 → H-SOMO(1b1) of water) excitations due to a bonding/antibonding (B/AB) interaction of Cu 3d levels with the deepest valence O2p/H1s 1b2 orbitals of water. This finding underscores the sensitivity of XPS to the electronic structure and orientation of the nearest water molecules around the central ion.
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Affiliation(s)
- Mohammadreza Mosaferi
- Laboratoire de Chimie Physique, Matière et Rayonnement, UMR 7614, Sorbonne Université, 4 Place Jussieu, 75231 Paris Cedex 05, France
| | - Denis Céolin
- Synchrotron SOLEIL, L'Orme des Merisiers, BP 48, St Aubin, 91192 Gif sur Yvette, France
| | - Jean-Pascal Rueff
- Synchrotron SOLEIL, L'Orme des Merisiers, BP 48, St Aubin, 91192 Gif sur Yvette, France
| | - Patricia Selles
- Laboratoire de Chimie Physique, Matière et Rayonnement, UMR 7614, Sorbonne Université, 4 Place Jussieu, 75231 Paris Cedex 05, France
| | - Michael Odelius
- Department of Physics, Stockholm University, AlbaNova University Center, 106 91 Stockholm, Sweden
| | - Olle Björneholm
- Department of Physics and Astronomy, Uppsala University, Box 516, SE-75120 Uppsala, Sweden
| | - Gunnar Öhrwall
- MAX IV Laboratory, Lund University, Box 118, SE-22100 Lund, Sweden
| | - Stéphane Carniato
- Laboratoire de Chimie Physique, Matière et Rayonnement, UMR 7614, Sorbonne Université, 4 Place Jussieu, 75231 Paris Cedex 05, France
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2
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Reyna-Luna J, Soriano-Agueda L, Vera CJ, Franco-Pérez M. Insights into the coordination chemistry of antineoplastic doxorubicin with 3d-transition metal ions Zn 2+, Cu 2+, and VO 2+: a study using well-calibrated thermodynamic cycles and chemical interaction quantum chemistry models. J Comput Aided Mol Des 2023:10.1007/s10822-023-00506-4. [PMID: 37245168 DOI: 10.1007/s10822-023-00506-4] [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: 04/20/2023] [Accepted: 05/19/2023] [Indexed: 05/29/2023]
Abstract
We present a computational strategy based on thermodynamic cycles to predict and describe the chemical equilibrium between the 3d-transition metal ions Zn2+, Cu2+, and VO2+ and the widely used antineoplastic drug doxorubicin. Our method involves benchmarking a theoretical protocol to compute gas-phase quantities using DLPNO Coupled-Cluster calculations as reference, followed by estimating solvation contributions to the reaction Gibbs free energies using both explicit partial (micro)solvation steps for charged solutes and neutral coordination complexes, as well as a continuum solvation procedure for all solutes involved in the complexation process. We rationalized the stability of these doxorubicin-metal complexes by inspecting quantities obtained from the topology of their electron densities, particularly the bond critical points and non-covalent interaction index. Our approach allowed us to identify representative species in solution phase, infer the most likely complexation process for each case, and identify key intramolecular interactions involved in the stability of these compounds. To the best of our knowledge, this is the first study reporting thermodynamic constants for the complexation of doxorubicin with transition metal ions. Unlike other methods, our procedure is computationally affordable for medium-sized systems and provides valuable insights even with limited experimental data. Furthermore, it can be extended to describe the complexation process between 3d-transition metal ions and other bioactive ligands.
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Affiliation(s)
- Julieta Reyna-Luna
- Departamento de Física y Química Teórica, Facultad de Química, Universidad Nacional Autónoma de México, Cd. Universitaria, 04510, Ciudad de Mexico, México
| | - Luis Soriano-Agueda
- Donostia International Physics Center (DIPC), 20018, Donostia, Euskadi, Spain
| | - Christiaan Jardinez Vera
- Laboratorio de Modelado y Simulación Computacional en Nanomedicina, Escuela Superior de Apan, Universidad Autónoma del Estado de Hidalgo, Carretera Apan-Calpulalpan S/N, Colonia, 43920, Chimalpa Tlalayote, Hgo, México
| | - Marco Franco-Pérez
- Departamento de Física y Química Teórica, Facultad de Química, Universidad Nacional Autónoma de México, Cd. Universitaria, 04510, Ciudad de Mexico, México.
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Lutoshkin MA, Taydakov IV. Complexation of Zn(II) and Cu(II) by Perfluorinated β-Diketones: Theoretical and Experimental Approaches and Potential Use as Copper-Eliminating Agents. J SOLUTION CHEM 2023. [DOI: 10.1007/s10953-022-01233-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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4
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Copper-Catalyzed Homocoupling of Boronic Acids: A Focus on B-to-Cu and Cu-to-Cu Transmetalations. Molecules 2022; 27:molecules27217517. [DOI: 10.3390/molecules27217517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2022] [Revised: 10/25/2022] [Accepted: 10/26/2022] [Indexed: 11/06/2022] Open
Abstract
Controlling and understanding the Cu-catalyzed homocoupling reaction is crucial to prompt the development of efficient Cu-catalyzed cross-coupling reactions. The presence of a coordinating base (hydroxide and methoxide) enables the B-to-Cu(II) transmetalation from aryl boronic acid to CuIICl2 in methanol, through the formation of mixed Cu-(μ-OH)-B intermediates. A second B-to-Cu transmetalation to form bis-aryl Cu(II) complexes is disfavored. Instead, organocopper(II) dimers undergo a coupled transmetalation-electron transfer (TET) allowing the formation of bis-organocopper(III) complexes readily promoting reductive elimination. Based on this mechanism some guidelines are suggested to control the undesired formation of homocoupling product in Cu-catalyzed cross-coupling reactions.
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Rampal N, Wang HW, Biriukov D, Brady AB, Neuefeind JC, Předota M, Stack AG. Local molecular environment drives speciation and reactivity of ion complexes in concentrated salt solution. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.116898] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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6
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Frank P, Benfatto M, Qayyum M. [Cu(aq)] 2+ is structurally plastic and the axially elongated octahedron goes missing. J Chem Phys 2018; 148:204302. [PMID: 29865827 DOI: 10.1063/1.5024693] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
High resolution (k = 18 Å-1 or k = 17 Å-1) copper K-edge EXAFS and MXAN (Minuit X-ray Absorption Near Edge) analyses have been used to investigate the structure of dissolved [Cu(aq)]2+ in 1,3-propanediol (1,3-P) or 1,5-pentanediol (1,5-P) aqueous frozen glasses. EXAFS analysis invariably found a single axially asymmetric 6-coordinate (CN6) site, with 4×Oeq = 1.97 Å, Oax1 = 2.22 Å, and Oax2 = 2.34 Å, plus a second-shell of 4×Owater = 3.6 Å. However, MXAN analysis revealed that [Cu(aq)]2+ occupies both square pyramidal (CN5) and axially asymmetric CN6 structures. The square pyramid included 4×H2O = 1.95 Å and 1×H2O = 2.23 Å. The CN6 sites included either a capped, near perfect, square pyramid with 5×H2O = 1.94 ± 0.04 Å and H2Oax = 2.22 Å (in 1,3-P) or a split axial configuration with 4×H2O = 1.94, H2Oax1 = 2.14 Å, and H2Oax2 = 2.28 Å (in 1,5-P). The CN6 sites also included an 8-H2O second-shell near 3.7 Å, which was undetectable about the strictly pyramidal sites. Equatorial angles averaging 94° ± 5° indicated significant departures from tetragonal planarity. MXAN assessment of the solution structure of [Cu(aq)]2+ in 1,5-P prior to freezing revealed the same structures as previously found in aqueous 1M HClO4, which have become axially compressed in the frozen glasses. [Cu(aq)]2+ in liquid and frozen solutions is dominated by a 5-coordinate square pyramid, but with split axial CN6 appearing in the frozen glasses. Among these phases, the Cu-O axial distances vary across 1 Å, and the equatorial angles depart significantly from the square plane. Although all these structures remove the dx2-y2 , dz2 degeneracy, no structure can be described as a Jahn-Teller (JT) axially elongated octahedron. The JT-octahedral description for dissolved [Cu(aq)]2+ should thus be abandoned in favor of square pyramidal [Cu(H2O)5]2+. The revised ligand environments have bearing on questions of the Cu(i)/Cu(ii) self-exchange rate and on the mechanism for ligand exchange with bulk water. The plasticity of dissolved Cu(ii) complex ions falsifies the foundational assumption of the rack-induced bonding theory of blue copper proteins and obviates any need for a thermodynamically implausible protein constraint.
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Affiliation(s)
- Patrick Frank
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Maurizio Benfatto
- Laboratori Nazionali di Frascati-INFN, P.O. Box 13, 00044 Frascati, Italy
| | - Munzarin Qayyum
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
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7
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Ju SW, Zhang N, Wang ZQ, Zhang RT, Zeng DW, Shao XP, Lin K. Contacted Ion Pairs in Aqueous CuCl2 by the Combination of Ratio Spectra, Difference Spectra, Second Order Difference Spectra in the UV-Visible Spectra. CHINESE J CHEM PHYS 2017. [DOI: 10.1063/1674-0068/30/cjcp1711211] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Affiliation(s)
- Si-wen Ju
- School of Physics and Optoelectronic Engineering, Xidian University, Xi'an 710071, China
| | - Ning Zhang
- College of Science, Central South University of Forestry and Technology, Changsha 410004, China
| | - Zhi-qiang Wang
- School of Physics and Optoelectronic Engineering, Xidian University, Xi'an 710071, China
| | - Rui-ting Zhang
- School of Physics and Optoelectronic Engineering, Xidian University, Xi'an 710071, China
| | - De-wen Zeng
- College of Chemistry and Chemical Engineering, Central South University, Changsha 410083, China
| | - Xiao-peng Shao
- School of Physics and Optoelectronic Engineering, Xidian University, Xi'an 710071, China
| | - Ke Lin
- School of Physics and Optoelectronic Engineering, Xidian University, Xi'an 710071, China
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8
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Das AK, Meuwly M. Hydration Control Through Intramolecular Degrees of Freedom: Molecular Dynamics of [Cu(II)(Imidazole)4]. J Phys Chem B 2017; 121:9024-9031. [DOI: 10.1021/acs.jpcb.7b05949] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Akshaya K. Das
- Department of Chemistry, University of Basel, Klingelbergstrasse 80, 4001 Basel, Switzerland
| | - Markus Meuwly
- Department of Chemistry, University of Basel, Klingelbergstrasse 80, 4001 Basel, Switzerland
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9
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Martini A, Borfecchia E, Lomachenko KA, Pankin IA, Negri C, Berlier G, Beato P, Falsig H, Bordiga S, Lamberti C. Composition-driven Cu-speciation and reducibility in Cu-CHA zeolite catalysts: a multivariate XAS/FTIR approach to complexity. Chem Sci 2017; 8:6836-6851. [PMID: 29147509 PMCID: PMC5644121 DOI: 10.1039/c7sc02266b] [Citation(s) in RCA: 109] [Impact Index Per Article: 15.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2017] [Accepted: 07/23/2017] [Indexed: 12/21/2022] Open
Abstract
The small pore Cu-CHA zeolite is attracting increasing attention as a versatile platform to design novel single-site catalysts for deNO x applications and for the direct conversion of methane to methanol. Understanding at the atomic scale how the catalyst composition influences the Cu-species formed during thermal activation is a key step to unveil the relevant composition-activity relationships. Herein, we explore by in situ XAS the impact of Cu-CHA catalyst composition on temperature-dependent Cu-speciation and reducibility. Advanced multivariate analysis of in situ XANES in combination with DFT-assisted simulation of XANES spectra and multi-component EXAFS fits as well as in situ FTIR spectroscopy of adsorbed N2 allow us to obtain unprecedented quantitative structural information on the complex dynamics during the speciation of Cu-sites inside the framework of the CHA zeolite.
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Affiliation(s)
- A Martini
- Department of Chemistry , NIS Centre and INSTM Reference Center , University of Turin , Via P. Giuria 7 , Turin , 10125 Italy .
| | - E Borfecchia
- Department of Chemistry , NIS Centre and INSTM Reference Center , University of Turin , Via P. Giuria 7 , Turin , 10125 Italy . .,Haldor Topsøe A/S , Haldor Topsøes Allé 1 , Kgs. Lyngby , 2800 Denmark
| | - K A Lomachenko
- European Synchrotron Radiation Facility , 71 avenue des Martyrs, CS 40220 , Grenoble Cedex 9 , 38043 France.,IRC "Smart Materials" , Southern Federal University , Zorge str. 5 , Rostov-on-Don , 344090 Russia
| | - I A Pankin
- Department of Chemistry , NIS Centre and INSTM Reference Center , University of Turin , Via P. Giuria 7 , Turin , 10125 Italy . .,IRC "Smart Materials" , Southern Federal University , Zorge str. 5 , Rostov-on-Don , 344090 Russia
| | - C Negri
- Department of Chemistry , NIS Centre and INSTM Reference Center , University of Turin , Via P. Giuria 7 , Turin , 10125 Italy .
| | - G Berlier
- Department of Chemistry , NIS Centre and INSTM Reference Center , University of Turin , Via P. Giuria 7 , Turin , 10125 Italy .
| | - P Beato
- Haldor Topsøe A/S , Haldor Topsøes Allé 1 , Kgs. Lyngby , 2800 Denmark
| | - H Falsig
- Haldor Topsøe A/S , Haldor Topsøes Allé 1 , Kgs. Lyngby , 2800 Denmark
| | - S Bordiga
- Department of Chemistry , NIS Centre and INSTM Reference Center , University of Turin , Via P. Giuria 7 , Turin , 10125 Italy .
| | - C Lamberti
- IRC "Smart Materials" , Southern Federal University , Zorge str. 5 , Rostov-on-Don , 344090 Russia.,Department of Chemistry , CrisDi Centre and INSTM Reference Center , University of Turin , Via P. Giuria 7 , Turin , 10125 Italy
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10
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Galván-García EA, Agacino-Valdés E, Franco-Pérez M, Gómez-Balderas R. [Cu(H2O) n ]2+ (n = 1–6) complexes in solution phase: a DFT hierarchical study. Theor Chem Acc 2017. [DOI: 10.1007/s00214-017-2056-4] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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11
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Jin H, Goyal P, Das AK, Gaus M, Meuwly M, Cui Q. Copper Oxidation/Reduction in Water and Protein: Studies with DFTB3/MM and VALBOND Molecular Dynamics Simulations. J Phys Chem B 2015; 120:1894-910. [PMID: 26624804 DOI: 10.1021/acs.jpcb.5b09656] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We apply two recently developed computational methods, DFTB3 and VALBOND, to study copper oxidation/reduction processes in solution and protein. The properties of interest include the coordination structure of copper in different oxidation states in water or in a protein (plastocyanin) active site, the reduction potential of the copper ion in different environments, and the environmental response to copper oxidation. The DFTB3/MM and VALBOND simulation results are compared to DFT/MM simulations and experimental results whenever possible. For a copper ion in aqueous solution, DFTB3/MM results are generally close to B3LYP/MM with a medium basis, including both solvation structure and reduction potential for Cu(II); for Cu(I), however, DFTB3/MM finds a two-water coordination, similar to previous Born-Oppenheimer molecular dynamics simulations using BLYP and HSE, whereas B3LYP/MM leads to a tetrahedron coordination. For a tetraammonia copper complex in aqueous solution, VALBOND and DFTB3/MM are consistent in terms of both structural and dynamical properties of solvent near copper for both oxidation states. For copper reduction in plastocyanin, DFTB3/MM simulations capture the key properties of the active site, and the computed reduction potential and reorganization energy are in fair agreement with experiment, especially when the periodic boundary condition is used. Overall, the study supports the value of VALBOND and DFTB3(/MM) for the analysis of fundamental copper redox chemistry in water and protein, and the results also help highlight areas where further improvements in these methods are desirable.
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Affiliation(s)
- Haiyun Jin
- Department of Chemistry, University of Wisconsin-Madison , 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Puja Goyal
- Department of Chemistry, University of Wisconsin-Madison , 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Akshaya Kumar Das
- Department of Chemistry, University of Basel , Klingelbergstrasse 80, 4056 Basel, Switzerland
| | - Michael Gaus
- Department of Chemistry, University of Wisconsin-Madison , 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Markus Meuwly
- Department of Chemistry, University of Basel , Klingelbergstrasse 80, 4056 Basel, Switzerland
| | - Qiang Cui
- Department of Chemistry, University of Wisconsin-Madison , 1101 University Avenue, Madison, Wisconsin 53706, United States
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Borfecchia E, Lomachenko KA, Giordanino F, Falsig H, Beato P, Soldatov AV, Bordiga S, Lamberti C. Revisiting the nature of Cu sites in the activated Cu-SSZ-13 catalyst for SCR reaction. Chem Sci 2015; 6:548-563. [PMID: 28936309 PMCID: PMC5588737 DOI: 10.1039/c4sc02907k] [Citation(s) in RCA: 234] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2014] [Accepted: 10/13/2014] [Indexed: 12/23/2022] Open
Abstract
Cu-SSZ-13 is a highly active NH3-SCR catalyst for the abatement of harmful nitrogen oxides (NO x , x = 1, 2) from the exhausts of lean-burn engines. The study of Cu-speciation occurring upon thermal dehydration is a key step for the understanding of the enhanced catalytic properties of this material and for identifying the SCR active sites and their redox capability. Herein, we combined FTIR, X-ray absorption (XAS) and emission (XES) spectroscopies with DFT computational analysis to elucidate the nature and location of the most abundant Cu sites in the activated catalyst. Different Cu species have been found to be dominant as a function of the dehydration temperature and conditions. Data analysis revealed that the dehydration process of Cu cations is essentially completed at 250 °C, with the formation of dehydrated [CuOH]+ species hosted in close proximity to 1-Al sites in both d6r and 8r units of the SSZ-13 matrix. These species persist at higher temperatures only if a certain amount of O2 is present in the gas feed, while under inert conditions they undergo virtually total "self-reduction" as a consequence of an OH extra-ligand loss, resulting in bi-coordinated bare Cu+ cations. Synchrotron characterization supported by computational analysis allowed an unprecedented quantitative refinement of the local environment and structural parameters of these Cu(ii) and Cu(i) species.
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Affiliation(s)
- E Borfecchia
- Department of Chemistry and INSTM Reference Center , University of Turin , via P. Giuria 7 , 10125 Turin , Italy .
- NIS Centre of Excellence , University of Turin , Italy
| | - K A Lomachenko
- Department of Chemistry and INSTM Reference Center , University of Turin , via P. Giuria 7 , 10125 Turin , Italy .
- Southern Federal University , Zorge street 5 , 344090 Rostov-on-Don , Russia
| | - F Giordanino
- Department of Chemistry and INSTM Reference Center , University of Turin , via P. Giuria 7 , 10125 Turin , Italy .
- NIS Centre of Excellence , University of Turin , Italy
| | - H Falsig
- Haldor Topsøe A/S , Nymøllevej 55, 2800 Kgs. , Lyngby , Denmark
| | - P Beato
- Haldor Topsøe A/S , Nymøllevej 55, 2800 Kgs. , Lyngby , Denmark
| | - A V Soldatov
- Southern Federal University , Zorge street 5 , 344090 Rostov-on-Don , Russia
| | - S Bordiga
- Department of Chemistry and INSTM Reference Center , University of Turin , via P. Giuria 7 , 10125 Turin , Italy .
- NIS Centre of Excellence , University of Turin , Italy
| | - C Lamberti
- Department of Chemistry and INSTM Reference Center , University of Turin , via P. Giuria 7 , 10125 Turin , Italy .
- CrisDI Center of Crystallography , University of Turin , Italy
- Southern Federal University , Zorge street 5 , 344090 Rostov-on-Don , Russia
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Chemical speciation in concentrated aqueous solutions of CuCl2 using thin-film UV–visible spectroscopy combined with DFT calculations. J Mol Liq 2014. [DOI: 10.1016/j.molliq.2014.06.025] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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14
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Giordanino F, Borfecchia E, Lomachenko KA, Lazzarini A, Agostini G, Gallo E, Soldatov AV, Beato P, Bordiga S, Lamberti C. Interaction of NH3 with Cu-SSZ-13 Catalyst: A Complementary FTIR, XANES, and XES Study. J Phys Chem Lett 2014; 5:1552-9. [PMID: 26270095 DOI: 10.1021/jz500241m] [Citation(s) in RCA: 176] [Impact Index Per Article: 17.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
In the typical NH3-SCR temperature range (100-500 °C), ammonia is one of the main adsorbed species on acidic sites of Cu-SSZ-13 catalyst. Therefore, the study of adsorbed ammonia at high temperature is a key step for the understanding of its role in the NH3-SCR catalytic cycle. We employed different spectroscopic techniques to investigate the nature of the different complexes occurring upon NH3 interaction. In particular, FTIR spectroscopy revealed the formation of different NH3 species, that is, (i) NH3 bonded to copper centers, (ii) NH3 bonded to Brønsted sites, and (iii) NH4(+)·nNH3 associations. XANES and XES spectroscopy allowed us to get an insight into the geometry and electronic structure of Cu centers upon NH3 adsorption, revealing for the first time in Cu-SSZ-13 the presence of linear Cu(+) species in Ofw-Cu-NH3 or H3N-Cu-NH3 configuration.
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Affiliation(s)
| | | | | | | | - Giovanni Agostini
- ∥European Synchrotron Radiation Facility, 6, rue Jules Horowitz, B.P. 220, F-38043 Grenoble cedex, France
| | - Erik Gallo
- ∥European Synchrotron Radiation Facility, 6, rue Jules Horowitz, B.P. 220, F-38043 Grenoble cedex, France
| | | | - Pablo Beato
- ⊥Haldor Topsøe A/S, Nymøllevej 55, 2800 Kgs. Lyngby, Denmark
| | | | - Carlo Lamberti
- #Southern Federal University, Zorge street 5, 344090 Rostov-on-Don, Russia
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Ganesan A, Dreyer J, Wang F, Akola J, Larrucea J. Density functional study of Cu2+-phenylalanine complex under micro-solvation environment. J Mol Graph Model 2013; 45:180-91. [DOI: 10.1016/j.jmgm.2013.08.015] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2013] [Revised: 07/15/2013] [Accepted: 08/17/2013] [Indexed: 10/26/2022]
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16
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Moin ST, Hofer TS, Weiss AKH, Rode BM. Dynamics of ligand exchange mechanism at Cu(II) in water: An ab initio quantum mechanical charge field molecular dynamics study with extended quantum mechanical region. J Chem Phys 2013; 139:014503. [DOI: 10.1063/1.4811114] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
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17
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Bowron DT, Amboage M, Boada R, Freeman A, Hayama S, Díaz-Moreno S. The hydration structure of Cu2+: more tetrahedral than octahedral? RSC Adv 2013. [DOI: 10.1039/c3ra42400f] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Hubbard CD, van Eldik R. Mechanistic information on some inorganic and bioinorganic reactions from volume profile analysis. Inorganica Chim Acta 2010. [DOI: 10.1016/j.ica.2009.09.042] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Barthel J, Hetzenauer H, Buchner R. Dielectric Relaxation of Aqueous Electrolyte Solutions II. Ion-Pair Relaxation of 1:2, 2:1, and 2:2 Electrolytes. ACTA ACUST UNITED AC 2010. [DOI: 10.1002/bbpc.19920961015] [Citation(s) in RCA: 87] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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20
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Smirnov PR, Trostin VN. Structural parameters of Cu2+ aqua complexes in aqueous solutions of its salts. RUSS J GEN CHEM+ 2009. [DOI: 10.1134/s1070363209080015] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Dinescu A, Clark AE. Thermodynamic and Structural Features of Aqueous Ce(III). J Phys Chem A 2008; 112:11198-206. [DOI: 10.1021/jp8076408] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Adriana Dinescu
- Idaho National Laboratory, P.O. Box 1625, Idaho Falls, Idaho 83415-2208, and Department of Chemistry, Washington State University, P.O. Box 644630, Pullman, Washington
| | - Aurora E. Clark
- Idaho National Laboratory, P.O. Box 1625, Idaho Falls, Idaho 83415-2208, and Department of Chemistry, Washington State University, P.O. Box 644630, Pullman, Washington
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22
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Okan SE, Salmon PS. The Jahn-Teller effect in solutions of flexible molecules: a neutron diffraction study on the structure of a Cu2+solution in ethylene glycol. Mol Phys 2008. [DOI: 10.1080/00268979500101601] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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23
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Clark AE. Density Functional and Basis Set Dependence of Hydrated Ln(III) Properties. J Chem Theory Comput 2008; 4:708-18. [DOI: 10.1021/ct700317p] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Aurora E. Clark
- Department of Chemistry, Washington State University, P.O. Box 644630, Pullman, Washington 99164
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24
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Hubbard CD, van Eldik R. Mechanistic studies of reactions of coordination compounds. Some recent highlights. J COORD CHEM 2007. [DOI: 10.1080/00958970601089200] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Colin D. Hubbard
- a Institute for Inorganic Chemistry , University of Erlangen-Nürnberg, Egerlandstrasse 1, 91058 Erlangen, Germany
| | - Rudi van Eldik
- a Institute for Inorganic Chemistry , University of Erlangen-Nürnberg, Egerlandstrasse 1, 91058 Erlangen, Germany
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25
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Morré DJ, Heald SM, Coleman J, Orczyk J, Jiang Z, Morré DM. Structural observations of time dependent oscillatory behavior of CuIICl2 solutions measured via extended X-ray absorption fine structure. J Inorg Biochem 2007; 101:715-26. [PMID: 17320185 DOI: 10.1016/j.jinorgbio.2006.12.010] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2006] [Revised: 12/11/2006] [Indexed: 11/22/2022]
Abstract
Cell surface ECTO-NOX proteins exhibit a clock-related, temperature-independent entrainable pattern of periodic (24 min) oscillations in the rate of oxidation of NAD(P)H. Aqueous solutions of copper salts also oxidize NAD(P)H with a similar temperature-independent pattern. For both, five maxima are observed, two of which are separated by 6 min and the remaining three are separated by 4.5 min. In D2O, the pattern is retained but the period length is proportionately increased to 30 min in direct relationship to the 30 h circadian day observed with D2O-grown organisms. With copper solutions, periodic changes in redox potential correlate precisely with the periodic changes in the rates of NAD(P)H oxidation. Consequently, the local environment of the Cu2+ ion in copper chloride solutions was investigated by X-ray absorption spectroscopy. Detailed extended X-ray absorption fine structure (EXAFS) analyses revealed a pattern of oscillations closely resembling those of the copper-catalyzed oxidation of NADH. With CuCl2 in D2O, a pattern with a period length of 30 min was observed. The findings suggest a regular pattern of distortion in the axial and/or equatorial oxygen atoms of the coordinated water molecules which correlate with redox potential changes sufficient to oxidize NADH. A metastable equilibrium condition in the ratio of ortho to para nuclear spin orientation of the water associated hydrogen atoms would be kinetically consistent with a 24-30 min timeframe. The temperature independence of the biological clock can thus be understood as the consequence of a physical rather than a chemical basis for the timing events.
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Affiliation(s)
- D J Morré
- Department of Medicinal Chemistry and Molecular Pharmacology, Hansen Life Sciences Research Building, Purdue University, 201 S. University Street, West Lafayette, IN 47907-2064, USA.
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Shivaiah V, Das SK. Fivefold Coordination of a CuII-Aqua Ion: A Supramolecular Sandwich Consisting of Two Crown Ether Molecules and a Trigonal-Bipyramidal [Cu(H2O)5]2+ Complex. Angew Chem Int Ed Engl 2006; 45:245-8. [PMID: 16312006 DOI: 10.1002/anie.200503096] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Shivaiah V, Das SK. Fivefold Coordination of a CuII-Aqua Ion: A Supramolecular Sandwich Consisting of Two Crown Ether Molecules and a Trigonal-Bipyramidal [Cu(H2O)5]2+ Complex. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.200503096] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Affiliation(s)
- Lothar Helm
- Laboratoire de chimie inorganique et bioinorganique, Ecole polytechnique fédérale de Lausanne, Switzerland
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29
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Frank P, Benfatto M, Szilagyi RK, D'Angelo P, Della Longa S, Hodgson KO. The Solution Structure of [Cu(aq)]2+ and Its Implications for Rack-Induced Bonding in Blue Copper Protein Active Sites. Inorg Chem 2005; 44:1922-33. [PMID: 15762718 DOI: 10.1021/ic0400639] [Citation(s) in RCA: 124] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The structure of [Cu(aq)]2+ has been investigated by using full multiple-scattering theoretical (MXAN) analysis of the copper K-edge X-ray absorption (XAS) spectrum and density functional theory (DFT) to test both ideal Td and square-planar four-coordinate, five-coordinate square-pyramidal, and six-coordinate octahedral [Cu(aq)]2+ models. The best fit was an elongated five-coordinate square pyramid with four Cu-O(eq) bonds (2 x 1.98 +/- 0.03 A and 2 x 1.95 +/- 0.03 A) and a long Cu-O(ax) bond (2.35 +/- 0.05 A). The four equatorial ligands were D2d-distorted from the mean equatorial plane by +/-(17 +/- 4) degrees, so that the overall symmetry of [Cu(H2O)5]2+ is C2v. The four-coordinate MXAN fit was nearly as good, but the water ligands (4 x 1.96 +/- 0.02 A) migrated +/-(13 +/- 4) degrees from the mean equatorial plane, making the [Cu(H2O)4]2+ model again D2d-distorted. Spectroscopically calibrated DFT calculations were carried out on the C2v elongate square-pyramidal and D2d-distorted four-coordinate MXAN copper models, providing comparative electronic structures of the experimentally observed geometries. These calculations showed 0.85e spin on Cu(II) and 0.03e electron spin on each of the four equatorial water oxygens. All covalent bonding was restricted to the equatorial plane. In the square-pyramidal model, the electrostatic Cu-O(ax) bond was worth only 96.8 kJ mol(-1), compared to 304.6 kJ mol(-1) for each Cu-O(eq) bond. Both MXAN and DFT showed the potential well of the axial bond to be broad and flat, allowing large low-energy excursions. The irregular geometry and D2d-distorted equatorial ligand set sustained by unconstrained [Cu(H2O)5]2+ warrants caution in drawing conclusions regarding structural preferences from small molecule crystal structures and raises questions about the site-structural basis of the rack-induced bonding hypothesis of blue copper proteins. Further, previously neglected protein folding thermodynamic consequences of the rack-bonding hypothesis indicate an experimental disconfirmation.
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Affiliation(s)
- Patrick Frank
- Department of Chemistry, Stanford University, Stanford, California 94305-5080, USA.
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30
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Cordeiro MND, Gomes JA. Ab initiocopper-water interaction potential for the simulation of aqueous solutions. J Comput Chem 2004. [DOI: 10.1002/jcc.540140602] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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31
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Schwenk CF, Rode BM. Extendedab initioquantum mechanical/molecular mechanical molecular dynamics simulations of hydrated Cu2+. J Chem Phys 2003. [DOI: 10.1063/1.1614224] [Citation(s) in RCA: 89] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Pasquarello A, Petri I, Salmon PS, Parisel O, Car R, Toth E, Powell DH, Fischer HE, Helm L, Merbach A. First solvation shell of the Cu(II) aqua ion: evidence for fivefold coordination. Science 2001; 291:856-9. [PMID: 11157161 DOI: 10.1126/science.291.5505.856] [Citation(s) in RCA: 323] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
We determined the structure of the hydrated Cu(II) complex by both neutron diffraction and first-principles molecular dynamics. In contrast with the generally accepted picture, which assumes an octahedrally solvated Cu(II) ion, our experimental and theoretical results favor fivefold coordination. The simulation reveals that the solvated complex undergoes frequent transformations between square pyramidal and trigonal bipyramidal configurations. We argue that this picture is also consistent with experimental data obtained previously by visible near-infrared absorption, x-ray absorption near-edge structure, and nuclear magnetic resonance methods. The preference of the Cu(II) ion for fivefold instead of sixfold coordination, which occurs for other cations of comparable charge and size, results from a Jahn-Teller destabilization of the octahedral complex.
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Affiliation(s)
- A Pasquarello
- Institut Romand de Recherche Numérique en Physique des Matériaux (IRRMA), PPH-Ecublens, CH-1015 Lausanne, Switzerland.
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34
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Pazo-LLorente R, Gonzalez-Romero E, Bravo-Diaz C. Competitive homolytic and heterolytic dediazoniation mechanisms: Rate constants and product distribution of methoxy-, hydroxy-, and hydro-dediazoniation of 3- and 4-methylbenzenediazonium salts in acidic MeOH/H2O mixtures. INT J CHEM KINET 2000. [DOI: 10.1002/(sici)1097-4601(2000)32:4<210::aid-kin3>3.0.co;2-8] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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Bravo-Díaz C, Romsted LS, Harbowy M, Romero-Nieto ME, Gonzalez-Romero E. Rates and pH-dependent product distributions of the CuCl2-catalyzed dediazoniation ofp-nitrobenzenediazonium tetrafluoroborate in aqueous acid. J PHYS ORG CHEM 1999. [DOI: 10.1002/(sici)1099-1395(199902)12:2<130::aid-poc107>3.0.co;2-9] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Pazo-Llorente R, Sarabia-Rodriguez MJ, Gonzalez-Romero E, Bravo-Diaz C. Solvolysis of o-methylbenzenediazonium tetrafluoroborate in acidic methanol-water mixtures. Further evidence for nucleophilic attack on a solvent separated aryl cation. INT J CHEM KINET 1999. [DOI: 10.1002/(sici)1097-4601(1999)31:8<531::aid-kin2>3.0.co;2-k] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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37
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D’Angelo P, Bottari E, Festa MR, Nolting HF, Pavel NV. Structural investigation of copper(II) chloride solutions using x-ray absorption spectroscopy. J Chem Phys 1997. [DOI: 10.1063/1.474638] [Citation(s) in RCA: 45] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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38
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W. Neilson G, K. Adya A. Chapter 4. Neutron diffraction studies on liquids. ACTA ACUST UNITED AC 1997. [DOI: 10.1039/pc093101] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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39
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Price WE, Woolf LA. Intradiffusion coefficients of all species in aqueous gallium perchlorate solutions and solution viscosities at 25�C. J SOLUTION CHEM 1993. [DOI: 10.1007/bf00646599] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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40
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Curtiss L, Halley JW, Wang XR. Jahn-Teller effect in liquids: General principles and a molecular-dynamics simulation of the cupric ion in water. PHYSICAL REVIEW LETTERS 1992; 69:2435-2438. [PMID: 10046484 DOI: 10.1103/physrevlett.69.2435] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
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Cordeiro MD, Gomes JA, González-Lafont A, Lluch JM, Bertrán J. The role of many-body interactions in the stability of hydrated Cu2+ clusters. Chem Phys 1990. [DOI: 10.1016/0301-0104(90)87071-i] [Citation(s) in RCA: 22] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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43
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