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. Author manuscript; available in PMC: 2016 Mar 1.
Published in final edited form as: J Mol Graph Model. 2014 Dec 5;56:60–73. doi: 10.1016/j.jmgm.2014.11.003

Table 1.

Binding free energy components for the HIV-pr/TMC114 complex for double bound (2T) by using the MM-PBSA method calculated from 50 snapshots extracted from 11th-20th ns.a

Componentb WT-1T V32I-2T M46L-2T
Mean Stdc Mean Stdc Mean Stdc
ΔEele −43.54 5.32 −73.50 5.95 −63.13 8.09
ΔEydw −64.64 4.13 −88.25 3.99 −93.41 5.28
ΔEint 0.00 0.00 0.00 0.00 −3.14 1.63
ΔGnp −6.93 0.10 −9.69 0.21 −10.41 0.36
ΔGpb 74.01 3.03 113.82 6.28 112.38 8.22
ΔGpol 30.46 3.73 40.32 4.49 51.24 5.54
ΔH −41.11 3.93 −57.62 4.12 −55.71 5.49
-TΔS 26.44 7.53 46.37 8.47 44.93 8.86
ΔG −14.67
−15.33d
8.49
6.11
−11.25 9.41 −10.78 10.42
Δ Gexp −15.20e
−13.20f
−11.6g −11.3g
a

All values are given in kcal/mol.

b

Component: ΔEele, electrostatic energy in the gas phase; ΔEvdw, van der Waals energy; ΔGnp, nonpolar solvation energy; ΔGpb, polar solvation energy; ΔGpolEele + ΔGpb; TΔS, total entropy contribution; ΔH = ΔEele + ΔEvdw + ΔGpb+ ΔGnp; ΔG = ΔHTΔS.

c

Standard error of mean values.

d

Meher and Wang 2012. [7]

e

King et al. 2004.[48]

f

Kovalevsky et al. 2006.[4]

g

Kovalevsky et al. 2006.[27]