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Table 1 Effect of Solvation with three training proteins

From: A protein folding potential that places the native states of a large number of proteins near a local minimum

 

without solvation (PIE3)

with solvation (PSE3)

protein

ρ

rmsd (Å)

ρ

rmsd (Å)

1ayi

0.165

2.03

0.150

1.87

1bk2

0.212

2.04

0.118

1.13

1ubi

0.128

1.47

0.168

1.94

1ame

0.386

3.99

0.606

6.04

1ayd

0.492

6.39

0.440

5.60

1bm8

0.651

8.17

0.390

4.79

1enh

0.363

3.55

0.324

3.27

1gzi

0.355

3.66

0.456

4.43

1igd

0.928

11.15

0.220

2.50

1mjc

0.750

8.45

0.313

3.29

1pgb

0.450

4.73

0.278

2.82

1ptf

0.820

9.85

0.450

5.07

1pwt

0.296

3.03

0.187

1.90

1szt

0.867

11.50

0.181

2.92

1vcc

0.625

7.67

0.423

4.91