Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations

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Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations. / Larsen, Anders Støttrup; Rantanen, Jukka; Johansson, Kristoffer E.

In: Journal of Pharmaceutical Sciences, Vol. 106, No. 1, 2017, p. 348-355.

Research output: Contribution to journalJournal articleResearchpeer-review

Harvard

Larsen, AS, Rantanen, J & Johansson, KE 2017, 'Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations', Journal of Pharmaceutical Sciences, vol. 106, no. 1, pp. 348-355. https://doi.org/10.1016/j.xphs.2016.10.005

APA

Larsen, A. S., Rantanen, J., & Johansson, K. E. (2017). Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations. Journal of Pharmaceutical Sciences, 106(1), 348-355. https://doi.org/10.1016/j.xphs.2016.10.005

Vancouver

Larsen AS, Rantanen J, Johansson KE. Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations. Journal of Pharmaceutical Sciences. 2017;106(1):348-355. https://doi.org/10.1016/j.xphs.2016.10.005

Author

Larsen, Anders Støttrup ; Rantanen, Jukka ; Johansson, Kristoffer E. / Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations. In: Journal of Pharmaceutical Sciences. 2017 ; Vol. 106, No. 1. pp. 348-355.

Bibtex

@article{57d6e724c2fc452d83c5124e97fe98b3,
title = "Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations",
abstract = "Molecular dynamics (MD) simulations have evolved to an increasingly reliable and accessible technique and are today implemented in many areas of biomedical sciences. We present a generally applicable method to study dehydration of hydrates based on MD simulations and apply this approach to the dehydration of ampicillin trihydrate. The crystallographic unit cell of the trihydrate is used to construct the simulation cell containing 216 ampicillin and 648 water molecules. This system is dehydrated by removing water molecules during a 2200 ps simulation, and depending on the computational dehydration rate, different dehydrated structures were observed. Removing all water molecules immediately and removing water relatively fast (10 water molecules/10 ps) resulted in an amorphous system, whereas relatively slow computational dehydration (3 water molecules/10 ps) resulted in a crystalline anhydrate. The structural changes could be followed in real time, and in addition, an intermediate amorphous phase was identified. The computationally identified dehydrated structure (anhydrate) was slightly different from the experimentally known anhydrate structure suggesting that the simulated computational structure could represent a kinetically trapped dehydration intermediate.",
author = "Larsen, {Anders St{\o}ttrup} and Jukka Rantanen and Johansson, {Kristoffer E}",
note = "Copyright {\circledC} 2016 American Pharmacists Association{\circledR}. Published by Elsevier Inc. All rights reserved.",
year = "2017",
doi = "10.1016/j.xphs.2016.10.005",
language = "English",
volume = "106",
pages = "348--355",
journal = "Journal of Pharmaceutical Sciences",
issn = "0022-3549",
publisher = "Elsevier",
number = "1",

}

RIS

TY - JOUR

T1 - Computational Dehydration of Crystalline Hydrates Using Molecular Dynamics Simulations

AU - Larsen, Anders Støttrup

AU - Rantanen, Jukka

AU - Johansson, Kristoffer E

N1 - Copyright © 2016 American Pharmacists Association®. Published by Elsevier Inc. All rights reserved.

PY - 2017

Y1 - 2017

N2 - Molecular dynamics (MD) simulations have evolved to an increasingly reliable and accessible technique and are today implemented in many areas of biomedical sciences. We present a generally applicable method to study dehydration of hydrates based on MD simulations and apply this approach to the dehydration of ampicillin trihydrate. The crystallographic unit cell of the trihydrate is used to construct the simulation cell containing 216 ampicillin and 648 water molecules. This system is dehydrated by removing water molecules during a 2200 ps simulation, and depending on the computational dehydration rate, different dehydrated structures were observed. Removing all water molecules immediately and removing water relatively fast (10 water molecules/10 ps) resulted in an amorphous system, whereas relatively slow computational dehydration (3 water molecules/10 ps) resulted in a crystalline anhydrate. The structural changes could be followed in real time, and in addition, an intermediate amorphous phase was identified. The computationally identified dehydrated structure (anhydrate) was slightly different from the experimentally known anhydrate structure suggesting that the simulated computational structure could represent a kinetically trapped dehydration intermediate.

AB - Molecular dynamics (MD) simulations have evolved to an increasingly reliable and accessible technique and are today implemented in many areas of biomedical sciences. We present a generally applicable method to study dehydration of hydrates based on MD simulations and apply this approach to the dehydration of ampicillin trihydrate. The crystallographic unit cell of the trihydrate is used to construct the simulation cell containing 216 ampicillin and 648 water molecules. This system is dehydrated by removing water molecules during a 2200 ps simulation, and depending on the computational dehydration rate, different dehydrated structures were observed. Removing all water molecules immediately and removing water relatively fast (10 water molecules/10 ps) resulted in an amorphous system, whereas relatively slow computational dehydration (3 water molecules/10 ps) resulted in a crystalline anhydrate. The structural changes could be followed in real time, and in addition, an intermediate amorphous phase was identified. The computationally identified dehydrated structure (anhydrate) was slightly different from the experimentally known anhydrate structure suggesting that the simulated computational structure could represent a kinetically trapped dehydration intermediate.

U2 - 10.1016/j.xphs.2016.10.005

DO - 10.1016/j.xphs.2016.10.005

M3 - Journal article

VL - 106

SP - 348

EP - 355

JO - Journal of Pharmaceutical Sciences

JF - Journal of Pharmaceutical Sciences

SN - 0022-3549

IS - 1

ER -

ID: 169356436