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. Author manuscript; available in PMC: 2010 Jun 4.
Published in final edited form as: J Phys Chem B. 2009 Jun 4;113(22):7950–7964. doi: 10.1021/jp900308y

TABLE 3.

Results in kcal/mol for energy and free energy components and their difference (Δ) between the free and bound microstates for Rtmpl=13 and Rwater=14Å#

Eloop-tmpl Eloop -loop
FwaterTI(ch)
FwaterTI(LJ)
Eloop
FwaterTI
Fsum Etotal
80 waters ρwater= 0.0139 ns= 40
Free −71 −41 −63 28 −112 −35 −147 −1247
Bound −141 −7 −47 15 −148 −32 −180 −1256
Δ1 70 (1) −34 (2) −16 (1) 13 (1) 36 (2) −3 (1) 33 (3) 9 (3)
100 waters ρwater= 0.0174 ns=40
Free −89 −49 −41 26 −138 −15 −153 −1469
Bound −142 −6 −47 21 −148 −26 −172 −1460
Δ1 53 (1) −43 (1) 6 (1) 5 (1) 10 (1) 11 (1) 21 (1) −9 (5)
120 waters ρwater= 0.0209 ns=40
Free −89 −40 −58 61 −129 3 −126 −1668
Bound −144 −7 −52 29 −151 −23 −174 −1693
Δ1 55 (1) −33 (1) −6 (1) 32 (1) 22 (1) 26 (1) 48 (1) 25 (1)
140 waters ρwater= 0.0244 ns=40
Free −86 −43 −71 +90 −129 19 −110 −1884
Bound −143 −6 −50 75 (4) −149 25 −124 −1879
Δ1 57 (2) −37 (3) −21 (1) 15 (1) 20 (1) −6 (1) 14 (1) −5 (1)
160 waters ρwater= 0.0278 ns=40 double integration
Free −91 −20 −81 84 −111 3 −108 −2075
Bound −146 −10 −50 84 −156 34 −122 −2087
Δ2 54 (1) −9 (1) −31 (1) 0 (2) 45 (1) −31 (1) 14 (2) 12 (3)
180 waters ρwater= 0.0313 ns=80 double integrations
Free −82 −21(0) −90 +94 −103 4 −99 −2285
Bound −131 −5(4) −49 106 −136 57 −79 −2274
Δ3 48 (1) −16 (1) −41 (1) −12 (1) 33 (1) −53 (1) −20 (2) −11 (1)
200 waters ρwater= 0.0348 ns=40 double integration
Free −68 −33 −106 122 −101 16 −85 −2478
Bound −136 −2 −60 126 −133 66 −67 −2452
Δ2 68 (1) −31 (1) −46 (1) −4 (1) 32 (1) −50 (2) −18 (2) −33 (8)
220 waters ρwater= 0.0383 ns=40
Free −78 −42 −76 +137 −120 61 −59 −2584
Bound −134 −3 −62 +143 −137 81 −56 −2571
Δ1 56 (1) −39 (1) −14 (1) −6 (1) 17 (1) −20 (1) −3 (2) −13 (3)
#

For explanations, see Table 2. The errors in Δ appear in parenthesis, e.g., −46 (2) =−46±2; thus, the 2 kcal/mol is the difference between the value which appears in the table and the value obtained for a smaller sample size, ns: 1for ns=20; 2 the largest difference obtained with ns=20 or ns=40 with single integration; 3for ns=40 with single integration.