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Table 1 Server prediction results improved by 3D-Jury. 3J1,A– the default on-line version of 3D-Jury, uses one model of the default servers [7]; N s – number of targets better predicted (in terms of MaxSub score) by the server; N j – number of targets better predictedby 3J1,A, in parentheses: number of improvable targets, i.e. those with a suboptimal choice of the first model; Q%, Q % m a x MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGrbqudaqhaaWcbaGaeiyjaucabaGaemyBa0MaemyyaeMaemiEaGhaaaaa@32FD@ – see Methods: Measures for comparing model selection methods Servers are ordered by N j -N s descending, three servers with ∑MaxS s = 0 are not shown. Servers not improved by the re-ranking of models (N s > N j ) are shown in italics. 3J1,Aselects better models on the whole for 50 servers out of the 56 shown, considering either Q% or the number of targets. Re-ranking of models by 3D-Jury does not improve the performance of 6 servers.

From: Evaluation of 3D-Jury on CASP7 models

Server

N s

N j

Q % ( Q % m a x ) MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGrbqudaWgaaWcbaGaeiyjaucabeaakiabcIcaOiabdgfarnaaDaaaleaacqGGLaqjaeaacqWGTbqBcqWGHbqycqWG4baEaaGccqGGPaqkaaa@36EC@

R s

Server

N s

N j

Q % ( Q % m a x ) MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGrbqudaWgaaWcbaGaeiyjaucabeaakiabcIcaOiabdgfarnaaDaaaleaacqGGLaqjaeaacqWGTbqBcqWGHbqycqWG4baEaaGccqGGPaqkaaa@36EC@

R s

protinfo-ab [22]

9

32(54)

1.8(4.4)

24

raptor-ace [23]

18

27(50)

2.1(7.5)

8

3d-jigsaw [24]

9

31(38)

10.7(12.8)

51

fugue [25]

9

17(25)

5.4(9.0)

35

ma-opus-server

11

28(43)

9.0(13.2)

28

function [26]

14

21(40)

1.3(5.6)

11

sam_t06_server [27]

13

30(47)

7.7(13.4)

25

gtg [28]

4

11(16)

6.5(8.2)

54

caspita-fox [29]

11

27(37)

10.4(15.6)

40

huber-torda-server [30]

9

16(25)

8.3(10.6)

47

forecast-s

6

22(28)

5.9(8.6)

49

sp4 [31]

12

19(36)

3.2(7.6)

10

3d-jigsaw_populus [24]

13

28(38)

4.7(7.1)

48

sparks2 [31]

13

20(32)

3.7(7.5)

16

loopp [32]

14

29(39)

6.8(9.9)

33

ffas03 [13]

20

26(42)

1.5(9.2)

19

ma-opus-server2

5

20(32)

9.4(13.9)

52

frankenstein [33]

6

12(14)

4.9(7.1)

55

sam-t02 [34]

11

26(34)

4.1(6.8)

27

keasar-server [35]

19

25(52)

5.9(12.5)

34

3d-jigsaw_recom [24]

11

25(36)

4.1(7.1)

50

pmodeller6 [2]

30

36(59)

-1.2(9.0)

2

forte2 [36]

9

23(29)

7.2(11.2)

41

uni-eid_sfst

11

17(35)

3.4(8.3)

31

phyre-2 [19]

9

23(39)

0.6(3.8)

30

circle [26]

21

26(53)

0.1(5.9)

4

robetta [37]

20

34(63)

1.3(12.4)

6

foldpro [10]

10

15(30)

0.8(3.7)

15

genesilicometaserver [33]

16

29(44)

1.3(5.7)

13

fugmod [25]

12

16(22)

4.7(8.6)

37

mgenthreader [38]

11

24(39)

1.3(8.6)

26

sp3 [31]

15

18(30)

1.9(5.8)

9

karypis.srv [39]

12

24(38)

5.1(11.3)

43

3dpro [10]

11

13(32)

-0.5(4.2)

20

karypis.srv.2 [39]

12

24(42)

2.7(9.4)

46

ORFeus-2 [17]

17

19(44)

1.3(9.5)

29

sam-t99 [40]

14

26(39)

3.0(6.4)

42

raptor [23]

20

22(44)

2.5(10.6)

12

forte1 [36]

11

22(27)

7.5(12.0)

38

uni-eid bnmx

16

18(39)

0.5(7.2)

21

pdbblast [18]

10

21(33)

3.2(7.3)

39

metatasser [41]

16

17(40)

1.5(5.7)

14

rokky [42]

9

20(44)

5.7(11.6)

36

protinfo [22]

25

26(52)

1.7(9.9)

22

abipro

0

10(28)

79.5(213.4)

56

distill [43]

12

11(33)

-0.6(7.3)

53

fams [26]

21

31(50)

2.8(7.7)

7

inub [44]

16

15(38)

1.2(8.1)

17

nfold [16]

11

21(32)

4.8(9.7)

32

pcons6 [2]

26

22(50)

-2.3(6.0)

3

raptoress [23]

15

25(45)

5.4(5.4)

18

famsd [26]

23

18(36)

-1.1(4.4)

5

bilab-enable

13

22(36)

7.2(7.2)

44

zhang-server [45]

23

18(54)

-0.4(5.1)

1

3D-PSSM [19]

7

16(38)

5.2(12.4)

45

BasD [12]

23

16(42)

1.1(7.5)

23