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. Author manuscript; available in PMC: 2016 Feb 16.
Published in final edited form as: J Phys Chem B. 2008 Feb 27;112(11):3509–3521. doi: 10.1021/jp709729d

TABLE 6.

Summary of Drude Polarizable and Charmm NMA Propertiesa

properties experiment CHARMM Drude (unscaled/vthole) Drude (scaled/vthole)
ΔHvap (T = 373 K), kcal/mol –15.1, –13.8 –13.4 ± 0.01 –15.3 ± 0.01 –14.2 ± 0.01
<v> (T = 373 K), Å3 135.9 133.0 ± 0.05 135.6 ± 0.05 134.6 ± 0.05
ΔGhydr (T = 298 K), kcal/mol –10.1 –7.8 ± 0.2 –10.9 ± 0.2 –10.0 ± 0.2
ε (T = 373 K) 100.0 37 ± 2 92 ± 5 56 ± 2
τD (T = 308 K) 590, 740 140 ± 20 660 ± 60 260 ± 40
diffusion (T = 373 K), Å2/ps 0.14, 0.12 0.20 ± 0.01 0.13 ± 0.01 0.17 ± 0.01
a

The Drude model corresponds to the optimal choice of LJ parameters from the unscaled/vthole class of electrostatic models. The TIP3P95 and SWM4-NDP20 water models are used to solvate the CHARMM and Drude NMA models, respectively. Models are compared to experimental data.1013,77,78,98101 The diffusion constant is calculated from a simulation at 373 K from the asymptotic time dependence of the mean-square displacement of the molecules as a function of time, 〈Δr(t)2〉 → 6Dt. The experimental diffusion constants correspond to a linear interpolation of available temperature-dependent data101 to T = 373K and an estimate at T = 373K.100 The MD results include a correction for finite size effects in periodic boundary conditions, D = Dpbc + 2.837297kBT/(6πηL).102 The viscosity at T = 373 K is estimated from available temperature-dependent data, assuming η ∝ 1/T.101