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Predicting Octanol/Water Partition Coefficients Using Molecular Simulation for the SAMPL7 Challenge: Comparing the Use of Neat and Water Saturated 1-Octanol

Sabatino, Spencer Johnathan
http://orcid.org/0000-0002-1462-7475
http://rave.ohiolink.edu/etdc/view?acc_num=miami1649850465588173

Abstract Details

2022, Master of Science, Miami University, Chemical, Paper and Biomedical Engineering.
The need for more efficient drug design and development has become more prevalent in just the last few years, leading to the development of the SAMPL challenges to promote exploration of methods to compute physical properties key to drug development. Blind predictions of octanol/water partition coefficients at 298.15 K for 22 drug-like compounds were made for the SAMPL7 challenge. The octanol/water partition coefficients were predicted using solvation free energies computed using molecular dynamics simulations, wherein we considered the use of both pure and water-saturated 1- octanol to model the octanol-rich phase. Water and 1-octanol were modeled using TIP4P and TrAPPE-UA, respectively, which have been shown to well reproduce the experimental mutual solubility, and the solutes were modeled using GAFF. After the close of the SAMPL7 challenge, we additionally made predictions using TIP4P/2005 water. We found that the predictions were sensitive to the choice of water force field. However, the effect of water in the octanol-rich phase was found to be even more significant and non-negligible. The effect of inclusion of water was additionally sensitive to the chemical structure of the solute.
Andrew Paluch (Advisor)
Alim Dewan (Committee Member)
Jason Boock (Committee Member)
51 p.
Chemical Engineering
SAMPL7; SAMPL; log P; log D; solvation free energy; molecular simulation; partition coefficient; distribution coefficient; property prediction

Recommended Citations

Citations

  • Sabatino, S. J. (2022). Predicting Octanol/Water Partition Coefficients Using Molecular Simulation for the SAMPL7 Challenge: Comparing the Use of Neat and Water Saturated 1-Octanol [Master's thesis, Miami University]. OhioLINK Electronic Theses and Dissertations Center. http://rave.ohiolink.edu/etdc/view?acc_num=miami1649850465588173

    APA Style (7th edition)

  • Sabatino, Spencer. Predicting Octanol/Water Partition Coefficients Using Molecular Simulation for the SAMPL7 Challenge: Comparing the Use of Neat and Water Saturated 1-Octanol. 2022. Miami University, Master's thesis. OhioLINK Electronic Theses and Dissertations Center, http://rave.ohiolink.edu/etdc/view?acc_num=miami1649850465588173.

    MLA Style (8th edition)

  • Sabatino, Spencer. "Predicting Octanol/Water Partition Coefficients Using Molecular Simulation for the SAMPL7 Challenge: Comparing the Use of Neat and Water Saturated 1-Octanol." Master's thesis, Miami University, 2022. http://rave.ohiolink.edu/etdc/view?acc_num=miami1649850465588173

    Chicago Manual of Style (17th edition)

miami1649850465588173
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This open access ETD is published by Miami University and OhioLINK.