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Hilla P, Vaara J. NMR chemical shift of confined 129Xe: coordination number, paramagnetic channels and molecular dynamics in a cryptophane-A biosensor. Phys Chem Chem Phys 2023; 25:22719-22733. [PMID: 37606522 DOI: 10.1039/d3cp02695g] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/23/2023]
Abstract
Advances in hyperpolarisation and indirect detection have enabled the development of xenon nuclear magnetic resonance (NMR) biosensors (XBSs) for molecule-selective sensing in down to picomolar concentration. Cryptophanes (Crs) are popular cages for hosting the Xe "spy". Understanding the microscopic host-guest chemistry has remained a challenge in the XBS field. While early NMR computations of XBSs did not consider the important effects of host dynamics and explicit solvent, here we model the motionally averaged, relativistic NMR chemical shift (CS) of free Xe, Xe in a prototypic CrA cage and Xe in a water-soluble CrA derivative, each in an explicit H2O solvent, over system configurations generated at three different levels of molecular dynamics (MD) simulations. We confirm the "contact-type" character of the Xe CS, arising from the increased availability of paramagnetic channels, magnetic couplings between occupied and virtual orbitals through the short-ranged orbital hyperfine operator, when neighbouring atoms are in contact with Xe. Remarkably, the Xe CS in the present, highly dynamic and conformationally flexible situations is found to depend linearly on the coordination number of the Xe atom. We interpret the high- and low-CS situations in terms of the magnetic absorption spectrum and choose our preference among the used MD methods based on comparison with the experimental CS. We check the role of spin-orbit coupling by comparing with fully relativistic CS calculations. The study outlines the computational workflow required to realistically model the CS of Xe confined in dynamic cavity structures under experimental conditions, and contributes to microscopic understanding of XBSs.
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Affiliation(s)
- Perttu Hilla
- NMR Research Unit, P.O. Box 3000, FI-90014 University of Oulu, Finland.
| | - Juha Vaara
- NMR Research Unit, P.O. Box 3000, FI-90014 University of Oulu, Finland.
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2
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Krivdin LB. Computational NMR of heavy nuclei involving 109Ag, 113Cd, 119Sn, 125Te, 195Pt, 199Hg, 205Tl, and 207Pb. RUSSIAN CHEMICAL REVIEWS 2021. [DOI: 10.1070/rcr4976] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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3
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Vı́cha J, Novotný J, Komorovsky S, Straka M, Kaupp M, Marek R. Relativistic Heavy-Neighbor-Atom Effects on NMR Shifts: Concepts and Trends Across the Periodic Table. Chem Rev 2020; 120:7065-7103. [DOI: 10.1021/acs.chemrev.9b00785] [Citation(s) in RCA: 64] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Jan Vı́cha
- Centre of Polymer Systems, Tomas Bata University in Zlı́n, tř. Tomáše Bati 5678, CZ-76001 Zlı́n, Czechia
| | - Jan Novotný
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Stanislav Komorovsky
- Institute of Inorganic Chemistry, Slovak Academy of Sciences, Dúbravská cesta 9, SK-84536 Bratislava, Slovakia
| | - Michal Straka
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, CZ-16610 Prague, Czechia
| | - Martin Kaupp
- Institute of Chemistry, Technische Universität Berlin, Strasse des 17. Juni 135, D-10623 Berlin, Germany
| | - Radek Marek
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
- Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
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4
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Melo JI, Maldonado AF, Aucar GA. Performance of the LRESC Model on top of DFT Functionals for Relativistic NMR Shielding Calculations. J Chem Inf Model 2020; 60:722-730. [PMID: 31877038 DOI: 10.1021/acs.jcim.9b00912] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The linear response within the elimination of the small component model (LRESC) is an insightful and computationally efficient method for including relativistic effects on molecular properties like the nuclear magnetic shielding constants, spin-rotation constant, g-tensor, and electric field gradient of heavy atom containing molecules with atoms belonging up to the sixth row of the periodic table. One of its main advantages is its capacity to analyze the electronic origin of the different relativistic correcting terms. Until now, it was always applied on top of Hartree-Fock ground-state wave functions (LRESC/HF) to calculate and analyze NMR shieldings. In this work, we show the performance of the LRESC formalism on top of some density functional theory (DFT) functionals to compute tin shielding constants in SnX4 (X = H, F, Cl, Br, I) molecular systems. We analyze the performance of each LRESC/DFT scheme on reproducing the electronic mechanisms of the shieldings, taking as a benchmark the results of relativistic calculations at the RPA level of approach (4c/RPA). As in previous works, we divide the LRESC relativistic correcting terms into two groups: core-dependent and ligand-dependent contributions. It is shown here that core-dependent corrections are well-reproduced for the selected DFT functionals, but some differences arise in the ligand-dependent ones. We focus on the performance of different functionals, including the same electron correlation part but containing different amounts of HF exchange. The best results are obtained for the BHandHLYP functional (50% of HF exchange) and the worst for BLYP (0%). When the percentage of HF exchange increases, ligand-dependent contributions are better described, and the final LRESC/DFT results are closer to those obtained with LRESC/HF and 4c/RPA methods. The spin-orbit correction to the shielding constant is one of the main ligand-dependent contributions (there are two more) with total value depending on the amount of HF exchange included in the functional. When the amount of HF exchange decreases, the spin-orbit contribution becomes larger, overestimating the shielding constant even when nonrelativisitc DFT values are much smaller than the nonrelativistic HF ones, as it happens for the heaviest molecular system studied here (SnI4).
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Affiliation(s)
- Juan I Melo
- Departamento de Física, Facultad de Ciencias Exactas y Naturales , Universidad de Buenos Aires and IFIBA CONICET , Buenos Aires 1428 , Argentina
| | - Alejandro F Maldonado
- Physics Department, Natural and Exact Science Faculty, Northeastern University of Argentina and Institute of Modelling and Innovation on Technology , IMIT CONICET-UNNE , Corrientes W3404AAS , Argentina
| | - Gustavo A Aucar
- Physics Department, Natural and Exact Science Faculty, Northeastern University of Argentina and Institute of Modelling and Innovation on Technology , IMIT CONICET-UNNE , Corrientes W3404AAS , Argentina
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5
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Yoshizawa T, Hada M. Calculations of nuclear magnetic shielding constants based on the exact two-component relativistic method. J Chem Phys 2017; 147:154104. [DOI: 10.1063/1.5001256] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023] Open
Affiliation(s)
- Terutaka Yoshizawa
- Department of Chemistry, Graduate School of Science and Engineering, Tokyo Metropolitan University, 1-1 Minami-Osawa, Hachioji, Tokyo 192-0397,
Japan
| | - Masahiko Hada
- Department of Chemistry, Graduate School of Science and Engineering, Tokyo Metropolitan University, 1-1 Minami-Osawa, Hachioji, Tokyo 192-0397,
Japan
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6
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Komulainen S, Roukala J, Zhivonitko VV, Javed MA, Chen L, Holden D, Hasell T, Cooper A, Lantto P, Telkki VV. Inside information on xenon adsorption in porous organic cages by NMR. Chem Sci 2017; 8:5721-5727. [PMID: 28989612 PMCID: PMC5621166 DOI: 10.1039/c7sc01990d] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2017] [Accepted: 06/14/2017] [Indexed: 11/21/2022] Open
Abstract
A solid porous molecular crystal formed from an organic cage, CC3, has unprecedented performance for the separation of rare gases. Here, xenon was used as an internal reporter providing extraordinarily versatile information about the gas adsorption phenomena in the cage and window cavities of the material. 129Xe NMR measurements combined with state-of-the-art quantum chemical calculations allowed the determination of the occupancies of the cavities, binding constants, thermodynamic parameters as well as the exchange rates of Xe between the cavities. Chemical exchange saturation transfer (CEST) experiments revealed a minor window cavity site with a significantly lower exchange rate than other sites. Diffusion measurements showed significantly reduced mobility of xenon with loading. 129Xe spectra also revealed that the cage cavity sites are preferred at lower loading levels, due to more favourable binding, whereas window sites come to dominate closer to saturation because of their greater prevalence.
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Affiliation(s)
- Sanna Komulainen
- NMR Research Unit , University of Oulu , P.O.Box 3000 , 90014 Oulu , Finland .
| | - Juho Roukala
- NMR Research Unit , University of Oulu , P.O.Box 3000 , 90014 Oulu , Finland .
| | - Vladimir V Zhivonitko
- Laboratory of Magnetic Resonance Microimaging , International Tomography Center SB RAS , Department of Natural Sciences , Novosibirsk State University , Instututskaya St. 3A, Pirogova St. 2 , 630090 Novosibirsk , Russia
| | | | - Linjiang Chen
- Department of Chemistry , Centre for Materials Discovery , University of Liverpool , Crown Street , Liverpool L69 7ZD , UK
| | - Daniel Holden
- Department of Chemistry , Centre for Materials Discovery , University of Liverpool , Crown Street , Liverpool L69 7ZD , UK
| | - Tom Hasell
- Department of Chemistry , Centre for Materials Discovery , University of Liverpool , Crown Street , Liverpool L69 7ZD , UK
| | - Andrew Cooper
- Department of Chemistry , Centre for Materials Discovery , University of Liverpool , Crown Street , Liverpool L69 7ZD , UK
| | - Perttu Lantto
- NMR Research Unit , University of Oulu , P.O.Box 3000 , 90014 Oulu , Finland .
| | - Ville-Veikko Telkki
- NMR Research Unit , University of Oulu , P.O.Box 3000 , 90014 Oulu , Finland .
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7
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Selent M, Nyman J, Roukala J, Ilczyszyn M, Oilunkaniemi R, Bygrave PJ, Laitinen R, Jokisaari J, Day GM, Lantto P. Clathrate Structure Determination by Combining Crystal Structure Prediction with Computational and Experimental 129 Xe NMR Spectroscopy. Chemistry 2017; 23:5258-5269. [PMID: 28111848 PMCID: PMC5763392 DOI: 10.1002/chem.201604797] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2016] [Indexed: 11/09/2022]
Abstract
An approach is presented for the structure determination of clathrates using NMR spectroscopy of enclathrated xenon to select from a set of predicted crystal structures. Crystal structure prediction methods have been used to generate an ensemble of putative structures of o- and m-fluorophenol, whose previously unknown clathrate structures have been studied by 129 Xe NMR spectroscopy. The high sensitivity of the 129 Xe chemical shift tensor to the chemical environment and shape of the crystalline cavity makes it ideal as a probe for porous materials. The experimental powder NMR spectra can be used to directly confirm or reject hypothetical crystal structures generated by computational prediction, whose chemical shift tensors have been simulated using density functional theory. For each fluorophenol isomer one predicted crystal structure was found, whose measured and computed chemical shift tensors agree within experimental and computational error margins and these are thus proposed as the true fluorophenol xenon clathrate structures.
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Affiliation(s)
- Marcin Selent
- NMR Research Unit, Faculty of Science, University of Oulu, 90014, Oulu, Finland.,Faculty of Chemistry, Wrocław University, Joliot Curie 14, 50-383, Wrocław, Poland
| | - Jonas Nyman
- Computational Systems Chemistry, School of Chemistry, University of Southampton, Southampton, UK
| | - Juho Roukala
- NMR Research Unit, Faculty of Science, University of Oulu, 90014, Oulu, Finland
| | - Marek Ilczyszyn
- Faculty of Chemistry, Wrocław University, Joliot Curie 14, 50-383, Wrocław, Poland
| | - Raija Oilunkaniemi
- Laboratory of Inorganic Chemistry, University of Oulu, 90014, Oulu, Finland
| | - Peter J Bygrave
- Computational Systems Chemistry, School of Chemistry, University of Southampton, Southampton, UK
| | - Risto Laitinen
- Laboratory of Inorganic Chemistry, University of Oulu, 90014, Oulu, Finland
| | - Jukka Jokisaari
- NMR Research Unit, Faculty of Science, University of Oulu, 90014, Oulu, Finland
| | - Graeme M Day
- Computational Systems Chemistry, School of Chemistry, University of Southampton, Southampton, UK
| | - Perttu Lantto
- NMR Research Unit, Faculty of Science, University of Oulu, 90014, Oulu, Finland
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8
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Roukala J, Zhu J, Giri C, Rissanen K, Lantto P, Telkki VV. Encapsulation of xenon by a self-assembled Fe4L6 metallosupramolecular cage. J Am Chem Soc 2015; 137:2464-7. [PMID: 25671394 DOI: 10.1021/ja5130176] [Citation(s) in RCA: 71] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report (129)Xe NMR experiments showing that a Fe4L6 metallosupramolecular cage can encapsulate xenon in water with a binding constant of 16 M(-1). The observations pave the way for exploiting metallosupramolecular cages as economical means to extract rare gases as well as (129)Xe NMR-based bio-, pH, and temperature sensors. Xe in the Fe4L6 cage has an unusual chemical shift downfield from free Xe in water. The exchange rate between the encapsulated and free Xe was determined to be about 10 Hz, potentially allowing signal amplification via chemical exchange saturation transfer. Computational treatment showed that dynamical effects of Xe motion as well as relativistic effects have significant contributions to the chemical shift of Xe in the cage and enabled the replication of the observed linear temperature dependence of the shift.
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Affiliation(s)
- Juho Roukala
- NMR Research Group, Centre for Molecular Materials, University of Oulu , 90014 Oulu, Finland
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9
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Yoshizawa T, Hada M. Gauge-origin dependence of NMR shielding constants in the Douglas–Kroll–Hess method. Chem Phys Lett 2015. [DOI: 10.1016/j.cplett.2014.10.066] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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10
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Standara S, Kulhánek P, Marek R, Straka M. 129Xe NMR chemical shift in Xe@C60calculated at experimental conditions: Essential role of the relativity, dynamics, and explicit solvent. J Comput Chem 2013; 34:1890-8. [DOI: 10.1002/jcc.23334] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2013] [Revised: 04/17/2013] [Accepted: 04/19/2013] [Indexed: 11/11/2022]
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11
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Abuzaid N, Kantola AM, Vaara J. Magnetic field-induced nuclear quadrupole coupling in atomic 131Xe. Mol Phys 2013. [DOI: 10.1080/00268976.2013.793840] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Nuha Abuzaid
- a NMR Research Group, Department of Physics , University of Oulu , Oulu , Finland
| | - Anu M. Kantola
- a NMR Research Group, Department of Physics , University of Oulu , Oulu , Finland
| | - Juha Vaara
- a NMR Research Group, Department of Physics , University of Oulu , Oulu , Finland
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12
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Vaara J, Hanni M, Jokisaari J. Nuclear spin-spin coupling in a van der Waals-bonded system: Xenon dimer. J Chem Phys 2013; 138:104313. [DOI: 10.1063/1.4793745] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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13
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Lantto P, Kangasvieri S, Vaara J. Electron correlation and relativistic effects in the secondary NMR isotope shifts of CSe2. Phys Chem Chem Phys 2013; 15:17468-78. [DOI: 10.1039/c3cp51904j] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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14
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Lantto P, Kangasvieri S, Vaara J. Rovibrational effects on NMR shieldings in a heavy-element system: XeF2. J Chem Phys 2012; 137:214309. [DOI: 10.1063/1.4768471] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
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15
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Gerber RB, Tsivion E, Khriachtchev L, Räsänen M. Intrinsic lifetimes and kinetic stability in media of noble-gas hydrides. Chem Phys Lett 2012. [DOI: 10.1016/j.cplett.2012.05.069] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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16
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Gąszowski D, Ilczyszyn M. Does hydrogen bonding to xenon affect its 129Xe NMR chemical shift? Computational study on selected Brønsted acid–xenon complexes. Chem Phys Lett 2012. [DOI: 10.1016/j.cplett.2012.04.043] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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17
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Lantto P, Standara S, Riedel S, Vaara J, Straka M. Exploring new 129Xe chemical shift ranges in HXeY compounds: hydrogen more relativistic than xenon. Phys Chem Chem Phys 2012; 14:10944-52. [DOI: 10.1039/c2cp41240c] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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18
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Jankowska J, Sadlej J. Spectroscopic parameters in noble gas molecule: HXeF and its complex with HF. Chem Phys Lett 2011. [DOI: 10.1016/j.cplett.2011.10.034] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
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19
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Cukras J, Sadlej J. Theoretical predictions of the spectroscopic parameters in noble-gas molecules: HXeOH and its complex with water. Phys Chem Chem Phys 2011; 13:15455-67. [PMID: 21804992 DOI: 10.1039/c1cp21359h] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We employ state-of-the-art methods and basis sets to study the effect of inserting the Xe atom into the water molecule and the water dimer on their NMR parameters. Our aim is to obtain predictions for the future experimental investigation of novel xenon complexes by NMR spectroscopy. Properties such as molecular structure and energetics have been studied by supermolecular approaches using HF, MP2, CCSD, CCSD(T) and MP4 methods. The bonding in HXeOH···H(2)O complexes has been analyzed by Symmetry-Adapted Perturbation Theory to provide the intricate insight into the nature of the interaction. We focus on vibrational spectra, NMR shielding and spin-spin coupling constants-experimental signals that reflect the electronic structures of the compounds. The parameters have been calculated at electron-correlated and Dirac-Hartree-Fock relativistic levels. This study has elucidated that the insertion of the Xe atom greatly modifies the NMR properties, including both the electron correlation and relativistic effects, the (129)Xe shielding constants decrease in HXeOH and HXeOH···H(2)O in comparison to Xe atom; the (17)O, as a neighbour of Xe, is deshielded too. The HXeOH···H(2)O complex in its most stable form is stabilized mainly by induction and dispersion energies.
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Affiliation(s)
- Janusz Cukras
- Department of Chemistry, University of Warsaw, Pasteura 1, 02-093 Warsaw, Poland
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20
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Lantto P, Jackowski K, Makulski W, Olejniczak M, Jaszuński M. NMR Shielding Constants in PH3, Absolute Shielding Scale, and the Nuclear Magnetic Moment of 31P. J Phys Chem A 2011; 115:10617-23. [DOI: 10.1021/jp2052739] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Perttu Lantto
- Department of Physics, University of Oulu, P.O. Box 3000, FI-90014 Oulu, Finland
| | - Karol Jackowski
- Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093 Warsaw, Poland
| | | | | | - Michał Jaszuński
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44, 01-224 Warsaw, Poland
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21
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Standara S, Kulhánek P, Marek R, Horníček J, Bouř P, Straka M. Simulations of 129Xe NMR chemical shift of atomic xenon dissolved in liquid benzene. Theor Chem Acc 2011. [DOI: 10.1007/s00214-011-0930-z] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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22
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Ruiz de Azúa MC, Giribet CG, Melo JI. NMR nuclear magnetic shielding anisotropy of linear molecules within the linear response within the elimination of the small component approach. J Chem Phys 2011; 134:034123. [DOI: 10.1063/1.3528717] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
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23
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Roukala J, Maldonado AF, Vaara J, Aucar GA, Lantto P. Relativistic effects on group-12 metal nuclear shieldings. Phys Chem Chem Phys 2011; 13:21016-25. [DOI: 10.1039/c1cp22043h] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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24
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Pennanen TO, Macháček J, Taubert S, Vaara J, Hnyk D. Ferrocene-like iron bis(dicarbollide), [3-FeIII-(1,2-C2B9H11)2]−. The first experimental and theoretical refinement of a paramagnetic 11B NMR spectrum. Phys Chem Chem Phys 2010; 12:7018-25. [DOI: 10.1039/b923891c] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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25
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Standara S, Maliňáková K, Marek R, Marek J, Hocek M, Vaara J, Straka M. Understanding the NMR chemical shifts for 6-halopurines: role of structure, solvent and relativistic effects. Phys Chem Chem Phys 2010; 12:5126-39. [DOI: 10.1039/b921383j] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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26
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Kantola AM, Lantto P, Vaara J, Jokisaari J. Carbon and proton shielding tensors in methyl halides. Phys Chem Chem Phys 2010; 12:2679-92. [DOI: 10.1039/b923506j] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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27
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Hyvärinen M, Vaara J, Goldammer A, Kutzky B, Hegetschweiler K, Kaupp M, Straka M. Characteristic Spin−Orbit Induced 1H(CH2) Chemical Shifts upon Deprotonation of Group 9 Polyamine Aqua and Alcohol Complexes. J Am Chem Soc 2009; 131:11909-18. [PMID: 19650656 DOI: 10.1021/ja903637m] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Marja Hyvärinen
- Laboratory of Physical Chemistry, P.O. Box 55 (A.I. Virtasen aukio 1), University of Helsinki, FIN-00014, Helsinki, Finland, NMR Research Group, Department of Physical Sciences, P.O. Box 3000, FIN-90014, University of Oulu, Finland, Universität des Saarlandes, Anorganische Chemie, Postfach 15 11 50, D-66041 Saarbrücken, Germany, Universität Würzburg, Am Hubland, D-97074 Würzburg, Germany, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE
| | - Juha Vaara
- Laboratory of Physical Chemistry, P.O. Box 55 (A.I. Virtasen aukio 1), University of Helsinki, FIN-00014, Helsinki, Finland, NMR Research Group, Department of Physical Sciences, P.O. Box 3000, FIN-90014, University of Oulu, Finland, Universität des Saarlandes, Anorganische Chemie, Postfach 15 11 50, D-66041 Saarbrücken, Germany, Universität Würzburg, Am Hubland, D-97074 Würzburg, Germany, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE
| | - Anna Goldammer
- Laboratory of Physical Chemistry, P.O. Box 55 (A.I. Virtasen aukio 1), University of Helsinki, FIN-00014, Helsinki, Finland, NMR Research Group, Department of Physical Sciences, P.O. Box 3000, FIN-90014, University of Oulu, Finland, Universität des Saarlandes, Anorganische Chemie, Postfach 15 11 50, D-66041 Saarbrücken, Germany, Universität Würzburg, Am Hubland, D-97074 Würzburg, Germany, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE
| | - Barbara Kutzky
- Laboratory of Physical Chemistry, P.O. Box 55 (A.I. Virtasen aukio 1), University of Helsinki, FIN-00014, Helsinki, Finland, NMR Research Group, Department of Physical Sciences, P.O. Box 3000, FIN-90014, University of Oulu, Finland, Universität des Saarlandes, Anorganische Chemie, Postfach 15 11 50, D-66041 Saarbrücken, Germany, Universität Würzburg, Am Hubland, D-97074 Würzburg, Germany, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE
| | - Kaspar Hegetschweiler
- Laboratory of Physical Chemistry, P.O. Box 55 (A.I. Virtasen aukio 1), University of Helsinki, FIN-00014, Helsinki, Finland, NMR Research Group, Department of Physical Sciences, P.O. Box 3000, FIN-90014, University of Oulu, Finland, Universität des Saarlandes, Anorganische Chemie, Postfach 15 11 50, D-66041 Saarbrücken, Germany, Universität Würzburg, Am Hubland, D-97074 Würzburg, Germany, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE
| | - Martin Kaupp
- Laboratory of Physical Chemistry, P.O. Box 55 (A.I. Virtasen aukio 1), University of Helsinki, FIN-00014, Helsinki, Finland, NMR Research Group, Department of Physical Sciences, P.O. Box 3000, FIN-90014, University of Oulu, Finland, Universität des Saarlandes, Anorganische Chemie, Postfach 15 11 50, D-66041 Saarbrücken, Germany, Universität Würzburg, Am Hubland, D-97074 Würzburg, Germany, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE
| | - Michal Straka
- Laboratory of Physical Chemistry, P.O. Box 55 (A.I. Virtasen aukio 1), University of Helsinki, FIN-00014, Helsinki, Finland, NMR Research Group, Department of Physical Sciences, P.O. Box 3000, FIN-90014, University of Oulu, Finland, Universität des Saarlandes, Anorganische Chemie, Postfach 15 11 50, D-66041 Saarbrücken, Germany, Universität Würzburg, Am Hubland, D-97074 Würzburg, Germany, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE
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Zaccari D, Melo JI, Ruiz de Azúa MC, Giribet CG. Relativistic two-component geometric approximation of the electron-positron contribution to magnetic properties in terms of Breit-Pauli spinors. J Chem Phys 2009; 130:084102. [PMID: 19256592 DOI: 10.1063/1.3063639] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
An alternative approach for the calculation of the electron-positron (e-p) contribution to magnetic properties based on two-component Breit-Pauli spinors is presented. In it, the elimination of the small component scheme is applied to the inverse propagator matrix of e-p pairs. The effect of the positronic manifold is expressed as an operator acting on Breit-Pauli spinors. The operator form thus obtained sums up the relativistic correction as a geometric series and as a result a totally different behavior in the vicinity of a nucleus is obtained as compared to the one of the linear response approximation. This feature has deep influence in numerical values of the e-p contribution to the nuclear magnetic shielding of heavy atoms. Numerical calculations carried out for Kr, Xe, and I show that with this approach, the e-p contributions to this property are in good agreement with those of four-component methods.
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Affiliation(s)
- Daniel Zaccari
- Departamento de Fisica, Facultad de Ciencias Exactas, Fisicoquimicas y Naturales, Universidad Nacional de Rio Cuarto, Ruta 36, km 601, 5800 Rio Cuarto, Cordoba, Argentina
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Zheng A, Liu SB, Deng F. 13C shielding tensors of crystalline amino acids and peptides: Theoretical predictions based on periodic structure models. J Comput Chem 2009; 30:222-35. [DOI: 10.1002/jcc.21118] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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Pluta T, Avramopoulos A, Papadopoulos MG, Leszczynski J. On the origin of the large electron correlation contribution to the hyperpolarizabilities of some diacetylene rare gas compounds. J Chem Phys 2008; 129:144308. [PMID: 19045148 DOI: 10.1063/1.2987303] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
A comprehensive study of the linear and nonlinear molecular optical properties of HRgC(4)H, where Rg = Ar,Kr,Xe, has been performed. Dynamical electron correlation effects were computed by employing the coupled cluster methodology. A large electron correlation contribution to the nonlinear properties of HArC(4)H has been revealed. This contribution decreases by increasing the atomic number of the inserted rare gas atom. In order to interpret the origin of this noteworthy property, the complete active space self-consistent field method was employed. We have performed a systematic study of the linear and nonlinear electric properties by modifying the active space. The calculations have shown the significant contribution of the doubly excited sigma(*2) configuration and a negligible contribution of pi(*2). A quite remarkable discrepancy between numerically and analytically evaluated hyperpolarizabilities has also been observed for HArC(4)H. This was attributed to the contribution of near degenerate states.
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Affiliation(s)
- Tadeusz Pluta
- Institute of Chemistry, University of Silesia, PL-40006 Katowice, Poland.
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Straka M, Lantto P, Vaara J. Toward Calculations of the 129Xe Chemical Shift in Xe@C60 at Experimental Conditions: Relativity, Correlation, and Dynamics. J Phys Chem A 2008; 112:2658-68. [DOI: 10.1021/jp711674y] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Michal Straka
- Laboratory of Physical Chemistry, Department of Chemistry, University of Helsinki, P.O. Box 55 (A. I. Virtasen aukio 1), FIN-00014 Helsinki, Finland, Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE-16610 Praha 6, Czech Republic, and NMR Research Group, Department of Physical Sciences, University of Oulu, P. O. Box 3000, FIN-90014 Oulu, Finland
| | - Perttu Lantto
- Laboratory of Physical Chemistry, Department of Chemistry, University of Helsinki, P.O. Box 55 (A. I. Virtasen aukio 1), FIN-00014 Helsinki, Finland, Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE-16610 Praha 6, Czech Republic, and NMR Research Group, Department of Physical Sciences, University of Oulu, P. O. Box 3000, FIN-90014 Oulu, Finland
| | - Juha Vaara
- Laboratory of Physical Chemistry, Department of Chemistry, University of Helsinki, P.O. Box 55 (A. I. Virtasen aukio 1), FIN-00014 Helsinki, Finland, Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo n. 2., CZE-16610 Praha 6, Czech Republic, and NMR Research Group, Department of Physical Sciences, University of Oulu, P. O. Box 3000, FIN-90014 Oulu, Finland
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