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The AMBER 8 version of ANTECHAMBER omits improper torsions for some molecules for which improper torsions are included in some later versions of ANTECHAMBER. Hence, there may be some systematic differences in the parameters generated with this version of ANTECHAMBER compared to those generated with some later versions. These improper torsions typically seem to involve aromatic hydrogens and carbons in molecules such as phenol and o-cresol and enforce hydrogen planarity. We have tested the robustness of our results to these parameters by repeating our calculations for several molecules (phenol and o-cresol) with parameters generated using ANTECHAMBER version 1.2.4 and found that any differences in computed hydration free energies were within the statistical uncertainty; hence we have not further examined this issue here
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The AMBER 8 version of ANTECHAMBER omits improper torsions for some molecules for which improper torsions are included in some later versions of ANTECHAMBER. Hence, there may be some systematic differences in the parameters generated with this version of ANTECHAMBER compared to those generated with some later versions. These improper torsions typically seem to involve aromatic hydrogens and carbons in molecules such as phenol and o-cresol and enforce hydrogen planarity. We have tested the robustness of our results to these parameters by repeating our calculations for several molecules (phenol and o-cresol) with parameters generated using ANTECHAMBER version 1.2.4 and found that any differences in computed hydration free energies were within the statistical uncertainty; hence we have not further examined this issue here.
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43 in the data and thus also represents an underestimate of the true uncertainty.
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43 in the data and thus also represents an underestimate of the true uncertainty.
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