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Table 1 Score function and ACO parameters.

From: Improved packing of protein side chains with parallel ant colonies

Thread ID

Score function

Score terms

α

β

  

A

B

C

D

E

F

G

H

I

G

K

L

M

N

O

P

Q

  

1

standard

0.8

0.44

0.65

0.004

0.49

0.56

1.17

1.17

1.17

1.1

0.5

2

5

5

1

0

0

3

1

2

score12

0.8

0.44

0.65

0.004

0.49

0.56

1.17

0.585

1.17

1.1

1

1

1

1

1

0

0

1

1

3

score12 full

0.8

0.44

0.65

0.004

0.49

0.56

1.17

0.585

1.17

1.1

0.5

2

5

5

1

0

0

1

2

4

score12minpack

0.8

0.44

0.65

0.004

0.49

0.56

1.17

0.585

1.17

1

1

1

1

1

1

0

0

1

3

5

score13

0.6921

0.1754

0.5253

-0.00764

0.53

0.63

1.322

0.336

2

1.883

0.5

2

5

5

1

0.571

0

2

1

7

score13

0.6921

0.1754

0.5253

-0.00764

0.53

0.63

1.322

0.336

2

1.883

0.5

2

5

5

1

0.571

0

1

1

8

pack no hb env dep

0.8

0.1

0.65

0.004

0.49

0.56

1.17

1.17

1.17

3.1

1

1

1

1

1

0

1

3

1

6

RosettaHoles score

The RosettaHoles scores are based on packing information about a cavity ball and the local region surrounding it, most importantly the contact surface area of atoms surrounding the cavity with respect to a sequence of probe radii.

1

2