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Nemkevich A, Spackman MA, Corry B. Simulations of guest transport in clathrates of Dianin's compound and hydroquinone. Chemistry 2013; 19:2676-84. [PMID: 23297109 DOI: 10.1002/chem.201202035] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2012] [Revised: 10/31/2012] [Indexed: 11/06/2022]
Abstract
Clathrates have been proposed for use in a variety of applications including gas storage, mixture separation and catalysis due to the potential for controlled guest diffusion through their porous lattices. Here molecular dynamics simulations are employed to study guest transport in clathrates of hydroquinone (HQ) and Dianin's compound (DC). Systems investigated were HQ with methanol and acetonitrile, and DC with methanol and ethanol. Simulations were set up with one guest in the pore, two guests in the pore and one vacancy in the pore and a filled pore, and free-energy barriers for movement between cavities of the pore were estimated for all cases. Comparison between these simulations indicates that guest transport most likely proceeds by molecules moving from full to empty cavities consecutively, one by one, rather than in a concerted manner. Thus, the presence of empty cavities is very important for guest transport, which becomes more energetically demanding in fully loaded systems. Flexibility of the host can assist guest transport. In the studied DC clathrates transport occurs via an intermediate conformation in which the hydroxyl group of the alcohol guest molecule participates in the hydrogen-bonded ring of the host. We also address the issue of the number of methanol guest molecules that DC accommodates, for which conflicting information exists. We found that this is likely to be temperature dependent and suggest that under some conditions the system is most likely non-stoichiometric.
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Affiliation(s)
- Alexandra Nemkevich
- School of Chemistry and Biochemistry, University of Western Australia, Australia
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Harper JK, Strohmeier M, Grant DM. Pursuing structure in microcrystalline solids with independent molecules in the unit cell using 1H-13C correlation data. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2007; 189:20-31. [PMID: 17869558 PMCID: PMC2819409 DOI: 10.1016/j.jmr.2007.06.017] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2007] [Accepted: 06/23/2007] [Indexed: 05/14/2023]
Abstract
The (1)H-(13)C solid-state NMR heteronuclear correlation (HETCOR) experiment is demonstrated to provide shift assignments in certain powders that have two or more structurally independent molecules in the unit cell (i.e. multiple molecules per asymmetric unit). Although this class of solids is often difficult to characterize using other methods, HETCOR provides both the conventional assignment of shifts to molecular positions and associates many resonances with specific molecules in the asymmetric unit. Such assignments facilitate conformational characterization of the individual molecules of the asymmetric unit and the first such characterization solely from solid-state NMR data is described. HETCOR offers advantages in sensitivity over prior methods that assign resonances in the asymmetric unit by (13)C-(13)C correlations and therefore allows shorter average analysis times in natural abundance materials. The (1)H-(13)C analysis is demonstrated first on materials with known shift assignments from INADEQUATE data (santonin and Ca(OAc)(2) phase I) to verify the technique and subsequently is extended to a pair of unknown solids: (+)-catechin and Ca(OAc)(2) phase II. Sufficient sensitivity and resolution is achieved in the spectra to provide assignments to one of the specific molecules of the asymmetric unit at over 54% of the sites.
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Affiliation(s)
- James K. Harper
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, UT 84112, USA
| | - Mark Strohmeier
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, UT 84112, USA
| | - David M. Grant
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, UT 84112, USA
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Molecular Structure and Carbon-13 Chemical Shielding Tensors Obtained from Nuclear Magnetic Resonance. ACTA ACUST UNITED AC 2007. [DOI: 10.1002/9780470147283.ch1] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Brutscher B, Boisbouvier J, Pardi A, Marion D, Simorre JP. Improved Sensitivity and Resolution in 1H−13C NMR Experiments of RNA. J Am Chem Soc 1998. [DOI: 10.1021/ja982853l] [Citation(s) in RCA: 78] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Bernhard Brutscher
- Contribution from the Institut de Biologie Structurale, Jean-Pierre Ebel C.N.R.S.-C.E.A. 41, Avenue des Martyrs, 38027 Grenoble Cedex, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, 80309-0215
| | - Jérôme Boisbouvier
- Contribution from the Institut de Biologie Structurale, Jean-Pierre Ebel C.N.R.S.-C.E.A. 41, Avenue des Martyrs, 38027 Grenoble Cedex, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, 80309-0215
| | - Arthur Pardi
- Contribution from the Institut de Biologie Structurale, Jean-Pierre Ebel C.N.R.S.-C.E.A. 41, Avenue des Martyrs, 38027 Grenoble Cedex, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, 80309-0215
| | - Dominique Marion
- Contribution from the Institut de Biologie Structurale, Jean-Pierre Ebel C.N.R.S.-C.E.A. 41, Avenue des Martyrs, 38027 Grenoble Cedex, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, 80309-0215
| | - Jean-Pierre Simorre
- Contribution from the Institut de Biologie Structurale, Jean-Pierre Ebel C.N.R.S.-C.E.A. 41, Avenue des Martyrs, 38027 Grenoble Cedex, France, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, 80309-0215
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Belosludov RV, Belosludov VR, Zubkus VE. The lattice dynamics of β‐hydroquinone clathrate. J Chem Phys 1995. [DOI: 10.1063/1.470513] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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von Szentpály L, Shamovsky IL, Ghosh R, Zubkus VE, Tornau EE. Computer simulation studies on β‐quinol clathrates with various gases. Interdependence of host and guest molecules. J Chem Phys 1994. [DOI: 10.1063/1.468124] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Bernhard T, Zimmermann H, Haeberlen U. The orientations and dynamics of ethanol guest molecules in the clathrate of Dianin's compound. Mol Phys 1992. [DOI: 10.1080/00268979200103031] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Zubkus VE, Shamovsky IL, Tornau EE. Computer‐simulation studies of β‐quinol clathrate with various gases. Molecular interactions and crystal structure. J Chem Phys 1992. [DOI: 10.1063/1.463380] [Citation(s) in RCA: 22] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Zubkus V, Shamovsky I. Molecular interactions, structure and stability of β-quinol clathrate. Chem Phys Lett 1992. [DOI: 10.1016/0009-2614(92)86125-2] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Ripmeester JA, Ratcliffe CI. Solid State NMR Studies of Host-Guest Materials. ACTA ACUST UNITED AC 1992. [DOI: 10.1007/978-94-015-7989-6_1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/07/2023]
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Bernhard T, Haeberlen U. Rotational tunneling of CD3 groups in the hydroquinone/methanol clathrate single-crystal and powder deuterium NMR spectra. Chem Phys Lett 1991. [DOI: 10.1016/s0009-2614(91)85147-o] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Plant DV, Lawandy NM. Far-infrared studies of the phase transitions in beta -quinol-methanol and methanol-D4 clathrates. PHYSICAL REVIEW. B, CONDENSED MATTER 1989; 40:4952-4957. [PMID: 9992493 DOI: 10.1103/physrevb.40.4952] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Kanesaka I, Ishida M, Kawai K. Infrared study on phase transition in β‐quinol‐methanol or ‐acetonitrile clathrate. J Chem Phys 1989. [DOI: 10.1063/1.457195] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Agaki T, Imashiro F, Terao T, Hirota N, Hayashi S. A study of hydrogen-bond dynamics in carboxylic acids by NMR T1 measurements: isotope effects and hydrogen-bond length dependence. Chem Phys Lett 1987. [DOI: 10.1016/0009-2614(87)80567-5] [Citation(s) in RCA: 30] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Sastry DL, Takegoshi K, McDowell CA. Determination of the 13C chemical-shift tensors in a single crystal of methyl α-d-glucopyranoside. Carbohydr Res 1987. [DOI: 10.1016/0008-6215(87)80096-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Terao T, Miura H, Saika A. Dipolar SASS NMR spectroscopy: Separation of heteronuclear dipolar powder patterns in rotating solids. J Chem Phys 1986. [DOI: 10.1063/1.450902] [Citation(s) in RCA: 85] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Miura H, Terao T, Saika A. Heteronuclear two-dimensional J spectroscopy in rigid solids. ACTA ACUST UNITED AC 1986. [DOI: 10.1016/0022-2364(86)90353-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Takegoshi K, McDowell C. 13C chemical shielding tensors in single crystals of tetraacetylethane. Chem Phys Lett 1986. [DOI: 10.1016/0009-2614(86)80005-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Takegoshi K, Naito A, McDowell C. Intermolecular hydrogen-bonding effects on the 13C NMR shielding tensor of the carbonyl carbon nucleus in a single crystal of dimedone. ACTA ACUST UNITED AC 1985. [DOI: 10.1016/0022-2364(85)90373-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Schneider VE, Tornau EE, Vlasova AA, Gurskas AA. Clathrate formation and phase transitions in ?-hydroquinone. J INCL PHENOM MACRO 1985. [DOI: 10.1007/bf00655727] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Nagaoka S, Terao T, Imashiro F, Saika A, Hirota N, Hayashi S. An NMR relaxation study on the proton transfer in the hydrogen bonded carboxylic acid dimers. J Chem Phys 1983. [DOI: 10.1063/1.445610] [Citation(s) in RCA: 167] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Okazaki M, Naito A, McDowell C. Effects of restricted molecular motion on the high-resolution solid-state 13C CP MAS NMR spectrum of the nitrile group of the stearonitrile-urea inclusion complex. Chem Phys Lett 1983. [DOI: 10.1016/0009-2614(83)87253-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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