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Khairy Y, Alvarez F, Arbe A, Colmenero J. Disentangling Self-Atomic Motions in Polyisobutylene by Molecular Dynamics Simulations. Polymers (Basel) 2021; 13:polym13040670. [PMID: 33672368 PMCID: PMC7927061 DOI: 10.3390/polym13040670] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Revised: 02/08/2021] [Accepted: 02/17/2021] [Indexed: 01/16/2023] Open
Abstract
We present fully atomistic molecular dynamics simulations on polyisobutylene (PIB) in a wide temperature range above the glass transition. The cell is validated by direct comparison of magnitudes computed from the simulation and measured by neutron scattering on protonated samples reported in previous works. Once the reliability of the simulation is assured, we exploit the information in the atomic trajectories to characterize the dynamics of the different kinds of atoms in PIB. All of them, including main-chain carbons, show a crossover from Gaussian to non-Gaussian behavior in the intermediate scattering function that can be described in terms of the anomalous jump diffusion model. The full characterization of the methyl-group hydrogen motions requires accounting for rotational motions. We show that the usually assumed statistically independence of rotational and segmental motions fails in this case. We apply the rotational rate distribution model to correlation functions calculated for the relative positions of methyl-group hydrogens with respect to the carbon atom at which they are linked. The contributions to the vibrational density of states are also discussed. We conclude that methyl-group rotations are coupled with the main-chain dynamics. Finally, we revise in the light of the simulations the hypothesis and conclusions made in previously reported neutron scattering investigations on protonated samples trying to address the origin of the dielectric β-process.
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Affiliation(s)
- Yasmin Khairy
- Physics Department, Faculty of Science, Zagazig University, Zagazig 44519, Egypt;
- Centro de Física de Materiales (CSIC, UPV/EHU), Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain; (F.A.); (A.A.)
| | - Fernando Alvarez
- Centro de Física de Materiales (CSIC, UPV/EHU), Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain; (F.A.); (A.A.)
- Materials Physics Center MPC, Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain
- Departamento de Polímeros y Materiales Avanzados: Física, Química y Tecnología (UPV/EHU), Apartado 1072, E-20080 San Sebastián, Spain
| | - Arantxa Arbe
- Centro de Física de Materiales (CSIC, UPV/EHU), Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain; (F.A.); (A.A.)
- Materials Physics Center MPC, Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain
| | - Juan Colmenero
- Centro de Física de Materiales (CSIC, UPV/EHU), Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain; (F.A.); (A.A.)
- Materials Physics Center MPC, Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain
- Departamento de Polímeros y Materiales Avanzados: Física, Química y Tecnología (UPV/EHU), Apartado 1072, E-20080 San Sebastián, Spain
- Donostia International Physics Center (DIPC), Paseo Manuel de Lardizabal 4, E-20018 San Sebastián, Spain
- Correspondence:
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Tsapatsaris N, Kolesov BA, Fischer J, Boldyreva EV, Daemen L, Eckert J, Bordallo HN. Polymorphism of Paracetamol: A New Understanding of Molecular Flexibility through Local Methyl Dynamics. Mol Pharm 2014; 11:1032-41. [DOI: 10.1021/mp400707m] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
| | - Boris A. Kolesov
- Institute of Inorganic Chemistry SB RAS, Novosibirsk 630090, Russia
- REC-008 Novosibirsk State University, ul. Pirogova 2, Novosibirsk 630090, Russia
| | | | - Elena V. Boldyreva
- REC-008 Novosibirsk State University, ul. Pirogova 2, Novosibirsk 630090, Russia
- Institute of Solid-State Chemistry and Mechanochemistry SB RAS, Kutateladze 18, Novosibirsk 630128, Russia
| | - Luke Daemen
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Juergen Eckert
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
- Department
of Chemistry, University of South Florida, Tampa, Florida 33620, United States
| | - Heloisa N. Bordallo
- European Spallation Source ESS AB, P.O. Box 176, Lund 221 00, Sweden
- Niels Bohr Institute, Universitetsparken
5, Copenhagen 2100, Denmark
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Bordallo HN, Zakharov BA, Boldyreva EV, Johnson MR, Koza MM, Seydel T, Fischer J. Application of Incoherent Inelastic Neutron Scattering in Pharmaceutical Analysis: Relaxation Dynamics in Phenacetin. Mol Pharm 2012; 9:2434-41. [DOI: 10.1021/mp2006032] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Heloisa N. Bordallo
- Niels Bohr Institute University of Copenhagen, Universitetsparken 5, 2100,
Copenhagen, Denmark
| | - Boris A. Zakharov
- REC-008 Novosibirsk State University, ul. Pirogova 2, Novosibirsk 630090,
Russia
- Institute of Solid State Chemistry and Mechanochemistry, ul. Kutateladze
18, Novosibirsk 630128, Russia
| | - Elena V. Boldyreva
- REC-008 Novosibirsk State University, ul. Pirogova 2, Novosibirsk 630090,
Russia
- Institute of Solid State Chemistry and Mechanochemistry, ul. Kutateladze
18, Novosibirsk 630128, Russia
| | - Mark R. Johnson
- Institut Laue-Langevin, BP 156, 38042
Grenoble Cedex 9, France
| | | | - Tilo Seydel
- Institut Laue-Langevin, BP 156, 38042
Grenoble Cedex 9, France
| | - Jennifer Fischer
- Forschungszentrum Jülich, Institut of Complex Systems, Marie Göcking,
ICS-3 52425 Jülich, Germany
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Deriu A, Bari MTD, Gerelli Y. Dynamics of Nanostructures for Drug Delivery: the Potential of QENS. ACTA ACUST UNITED AC 2010. [DOI: 10.1524/zpch.2010.6101] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
Abstract
In recent biomedical studies different nanocarrier systems have been proposed for ´smart´ drug delivery. The engineering of these systems requires as a prerequisite a detailed knowledge of their structure and dynamics at the molecular level. Quasielastic neutron scattering is an ideal tool for dynamic studies of these complex systems since it provides information on molecular motions in a time window which is important to relate the local dynamics to the macroscopic functional properties of the drug vectors. Some selected examples referring to different nanostructures will be analysed in the following.
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Smuda C, Busch S, Schellenberg R, Unruh T. Methyl group dynamics in polycrystalline and liquid ubiquinone Q(0) studied by neutron scattering. J Phys Chem B 2009; 113:916-22. [PMID: 19123914 DOI: 10.1021/jp807601g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We present a quasi-elastic neutron scattering (QENS) study on the methyl group dynamics of ubiquinone Q(0) in the solid and liquid state. For solid ubiquinone Q(0), the dynamics can be described with three Lorentzian functions in the framework of a jump model among three equidistant sites on a circle. According to the known molecular structure of Q(0) in the solid state, this is consistent with three nonequivalent methyl groups in the molecule. From the temperature-dependent analysis of the QENS spectra, the activation energies were determined. The barrier heights could be evaluated from librational bands in the inelastic part of the spectra. The results from neutron spectroscopy are compared to Gaussian 03 calculations leading to an assignment of the activation energies to the different methyl groups in Q(0). The dynamics of Q(0) in the liquid state is evaluated with a scattering function taking into account three different molecular motions. It is demonstrated that the temperature dependence of the long-range diffusion and isotropic rotational diffusion exhibit an Arrhenius-like behavior, whereas the process of methyl group rotation in the liquid phase is virtually free of a barrier.
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Affiliation(s)
- Christoph Smuda
- Forschungsneutronenquelle Heinz Maier-Leibnitz, Technische Universitat Munchen, Lichtenbergstrasse 1, D-85747 Garching b. Munchen, Germany
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