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  Constant pH simulations with the coarse-grained MARTINI model—Application to oleic acid aggregates.

Bennett, W. F. D., Chen, A. W., Donnini, S., Groenhof, G., & Tieleman, D. P. (2013). Constant pH simulations with the coarse-grained MARTINI model—Application to oleic acid aggregates. Canadian Journal of Chemistry, 91(9), 839-846. doi:10.1139/cjc-2013-0010.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0014-C463-5 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0027-CB9C-1
Genre: Journal Article

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Bennett, W. F. D., Author
Chen, A. W., Author
Donnini, S.1, Author              
Groenhof, G.1, Author              
Tieleman, D. P., Author
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1Department of Theoretical and Computational Biophysics, MPI for biophysical chemistry, Max Planck Society, ou_578631              

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 Abstract: Long chain fatty acids are biologically important molecules with complex and pH sensitive aggregation behavior. The carboxylic head group of oleic acid is ionizable, with the pKa shifting to larger values, even above a value of 7, in certain aggregate states. While experiments have determined the macroscopic phase behavior, we have yet to understand the molecular level details for this complex behavior. This level of detail is likely required to fully appreciate the role of fatty acids in biology and for nanoscale biotechnological and industrial applications. Here, we introduce the use of constant pH molecular dynamics (MD) simulations with the coarse-grained MARTINI model and apply the method to oleic acid aggregates and a model lipid bilayer. By running simulations at different constant pH values, we determined titration curves and the resulting pKa for oleic acid in different environments. The coarse-grained model predicts positive pKa shifts, with a shift from 4.8 in water to 6.5 in a small micelle, and 6.6 in a dioleoylphosphatidylcholine (DOPC) bilayer, similar to experimental estimates. The size of the micelles increased as the pH increased, and correlated with the fraction of deprotonated oleic acid. We show this combination of constant pH MD and the coarse-grained MARTINI model can be used to model pH-dependent surfactant phase behavior. This suggests a large number of potential new applications of large-scale MARTINI simulations in other biological systems with ionizable molecules.

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Language(s): eng - English
 Dates: 2013-04-102013-09
 Publication Status: Published in print
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 Rev. Method: Peer
 Identifiers: DOI: 10.1139/cjc-2013-0010
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Title: Canadian Journal of Chemistry
Source Genre: Journal
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Pages: - Volume / Issue: 91 (9) Sequence Number: - Start / End Page: 839 - 846 Identifier: -