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Dale BL, Halcovitch NR, Peach MJG, Griffin JM. Investigation of structure and dynamics in a photochromic molecular crystal by NMR crystallography. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2019; 57:230-242. [PMID: 30452093 DOI: 10.1002/mrc.4805] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2018] [Revised: 11/01/2018] [Accepted: 11/07/2018] [Indexed: 06/09/2023]
Abstract
A photochromic anil, N-(3,5-di-t-butylsalicylidene)-4-amino-pyridine, has been studied by single-crystal X-ray diffraction, multinuclear magic-angle spinning NMR, and first-principles density functional theory (DFT) calculations. Interpretation of the solid-state NMR data on the basis of calculated chemical shifts confirms the structure is primarily composed of molecules in the ground-state enol tautomer, whereas thermally activated cis-keto and photoisomerised trans-keto states exist as low-level defects with populations that are too low to detect experimentally. Variable temperature 13 C NMR data reveal evidence for solid-state dynamics, which is found to be associated with fast rotational motion of t-butyl groups and 180° flips of the pyridine ring, contrasting the time-averaged structure obtained by X-ray diffraction. Comparison of calculated chemical shifts for the full crystal structure and an isolated molecule also reveals evidence for an intermolecular hydrogen bond involving the pyridine ring and an adjacent imine carbon, which facilitates the flipping motion. The DFT calculations also reveal that the molecular conformation in the crystal structure is very close to the energetic minimum for an isolated molecule, indicating that the ring dynamics arise as a result of considerable steric freedom of the pyridine ring and which also allows the molecule to adopt a favourable conformation for photochromism.
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Affiliation(s)
- Benjamin L Dale
- Department of Chemistry, Lancaster University, Lancaster, UK
| | | | | | - John M Griffin
- Department of Chemistry, Lancaster University, Lancaster, UK
- Materials Science Institute, Lancaster University, Lancaster, UK
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Dekhil M, Mollica G, Bonniot TT, Ziarelli F, Thureau P, Viel S. Determining carbon-carbon connectivities in natural abundance organic powders using dipolar couplings. Chem Commun (Camb) 2016; 52:8565-8. [PMID: 27319808 DOI: 10.1039/c6cc04202c] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present a solid-state NMR methodology capable of investigating the carbon skeleton of natural abundance organic powders. The methodology is based on the (13)C-(13)C dipolar coupling interaction and allows carbon-carbon connectivities to be unambiguously established for a wide range of organic solids. This methodology is particularly suitable for disordered solids, such as natural or synthetic macromolecules, which cannot be studied using conventional diffraction or NMR techniques.
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Affiliation(s)
- Myriam Dekhil
- Aix-Marseille Université, CNRS, ICR (UMR 7273), 13397 Marseille, France.
| | - Giulia Mollica
- Aix-Marseille Université, CNRS, ICR (UMR 7273), 13397 Marseille, France.
| | | | - Fabio Ziarelli
- Aix-Marseille Université, Centrale Marseille, CNRS, Fédération des Sciences Chimiques de Marseille (FR 1739), 13397 Marseille, France
| | - Pierre Thureau
- Aix-Marseille Université, CNRS, ICR (UMR 7273), 13397 Marseille, France.
| | - Stéphane Viel
- Aix-Marseille Université, CNRS, ICR (UMR 7273), 13397 Marseille, France. and Institut Universitaire de France, 75005 Paris, France
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Dumez JN, Emsley L. A master-equation approach to the description of proton-driven spin diffusion from crystal geometry using simulated zero-quantum lineshapes. Phys Chem Chem Phys 2011; 13:7363-70. [PMID: 21431110 DOI: 10.1039/c1cp00004g] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Measurements of proton-driven carbon-13 spin diffusion (PDSD) by NMR spectroscopy are a central component of structural analyses of biomolecules in the solid-state. However, the quantitative link between experimental PDSD data and structural information is difficult to make. Here we observe that a master-equation approach can be used to model full PDSD dynamics accurately in polycrystalline (13)C-labelled L-histidine·HCl·H(2)O under magic-angle spinning. In the master-equation approach, PDSD rates and effective dipolar couplings are related by a function of the carbon-carbon zero-quantum lineshapes; we find that numerical simulations of the zero-quantum lineshapes are sufficiently accurate so as to allow the calculation of PDSD rates that are in good agreement with the measured rates, directly from crystal geometry and with no adjustable parameters. Finally, using carbon-carbon internuclear distances we illustrate the potential of the master-equation approach for structural studies. Generalisation of these results to proton-driven carbon-13 spin diffusion in more complex molecular systems is readily envisaged.
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Affiliation(s)
- Jean-Nicolas Dumez
- Université de Lyon (CNRS/ENS Lyon/UCB Lyon1), Centre de RMN à très hauts champs, 5 rue de la Doua, 69100 Villeurbanne, France
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Tyrosine alkyl esters as prodrug: the structure and intermolecular interactions of l-tyrosine methyl ester compared to l-tyrosine and its ethyl and n-butyl esters. Struct Chem 2011. [DOI: 10.1007/s11224-010-9723-6] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Schneider R, Seidel K, Etzkorn M, Lange A, Becker S, Baldus M. Probing Molecular Motion by Double-Quantum (13C,13C) Solid-State NMR Spectroscopy: Application to Ubiquitin. J Am Chem Soc 2009; 132:223-33. [DOI: 10.1021/ja906283h] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Robert Schneider
- Department for NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany, and Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - Karsten Seidel
- Department for NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany, and Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - Manuel Etzkorn
- Department for NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany, and Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - Adam Lange
- Department for NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany, and Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - Stefan Becker
- Department for NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany, and Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - Marc Baldus
- Department for NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany, and Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
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Hologne M, Chen Z, Reif B. Characterization of dynamic processes using deuterium in uniformly 2H,13C,15N enriched peptides by MAS solid-state NMR. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2006; 179:20-8. [PMID: 16289962 DOI: 10.1016/j.jmr.2005.10.014] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2005] [Revised: 09/29/2005] [Accepted: 10/24/2005] [Indexed: 05/05/2023]
Abstract
We present in this paper 2H,13C MAS correlation experiments that are performed on a uniformly 2H,13C,15N labeled sample of Nac-Val, and on the uniformly 2H,15N labeled dipeptide Nac-Val-Leu-OH. The experiments involve the measurement of 2H T1 relaxation times at two different magnetic fields, as well as the measurement of the 2H tensor parameters by evolution of the 2H chemical shift. The data are interpreted quantitatively to differentiate between different side chain motional models.
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Affiliation(s)
- Maggy Hologne
- Forschungsinstitut für Molekulare Pharmakologie (FMP) Robert-Rössle-Str. 10 13125 Berlin, Germany
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Seidel K, Etzkorn M, Sonnenberg L, Griesinger C, Sebald A, Baldus M. Studying Molecular 3D Structure and Dynamics by High-Resolution Solid-State NMR: Application to l-Tyrosine-Ethylester. J Phys Chem A 2005; 109:2436-42. [PMID: 16833543 DOI: 10.1021/jp045605m] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A unified approach to the study of 3D conformation and molecular dynamics using magic-angle-spinning solid-state NMR is demonstrated on a uniformly 13C-labeled sample of L-tyrosine-ethylester.
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Affiliation(s)
- Karsten Seidel
- Max-Planck-Institute for Biophysical Chemistry, Department of NMR-Based Structural Biology, Am Fassberg 11, 37077 Göttingen, Germany
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Wolak JE, Knutson J, Martin JD, Boyle P, Sargent AL, White JL. Dynamic Disorder and Conformer Exchange in the Crystalline Monomer of Polycarbonate. J Phys Chem B 2003. [DOI: 10.1021/jp036527q] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- J. E. Wolak
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695-8204, and Department of Chemistry, East Carolina University, Greenville, North Carolina 27858
| | - J. Knutson
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695-8204, and Department of Chemistry, East Carolina University, Greenville, North Carolina 27858
| | - J. D. Martin
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695-8204, and Department of Chemistry, East Carolina University, Greenville, North Carolina 27858
| | - P. Boyle
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695-8204, and Department of Chemistry, East Carolina University, Greenville, North Carolina 27858
| | - Andrew L. Sargent
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695-8204, and Department of Chemistry, East Carolina University, Greenville, North Carolina 27858
| | - Jeffery L. White
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695-8204, and Department of Chemistry, East Carolina University, Greenville, North Carolina 27858
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