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EVA summary for category sec (3)

Contents

Local link to information about methods evaluated
All prediction results for secondary structure

Common subset 1
Common subset 2
Common subset 3
Common subset 4

All prediction results in ASCII (raw text)
Explanations of measures for prediction accuracy
For older versions of the results

About secondary structure prediction methods evaluated

Method	Nprot	Nweek	Detailed results for method
ALL	243	72	method/index.html

APSSP	0	0	method/apssp.html
APSSP2	122	40	method/apssp2.html
HYPROSP II	0	0	method/hyprospII.html
JPred	0	0	method/jpred.html
JUFO	0	0	method/jufo.html
mlrprdsec	0	0	method/mlrprdsec.html
PHD	0	0	method/phd.html
PHDpsi	229	70	method/phdpsi.html
Porter	73	24	method/porter.html
PROF_king	230	69	method/prof_king.html
PROFsec	232	70	method/profsec.html
Prospect	94	33	method/prospect.html
PSIpred	224	68	method/psipred.html
PSSP	0	0	method/pssp.html
SABLE	232	70	method/sable.html
SABLE2	159	52	method/sable2.html
SAM-T99sec	204	63	method/samt99_sec.html
SCRATCH (SSpro3)	207	64	method/scratch.html
SSpro1	0	0	method/sspro1.html
SSpro2	0	0	method/sspro2.html
SSpro4	144	48	method/sspro4.html
yaspin	157	49	method/yaspin.html

Comparison of secondary structure prediction methods (detail level 3)

Averages compiled over different subsets

The reason for compiling different averages is that not ALL proteins were predicted by all methods!
Only proteins with no significant sequence identity to previously known PDB proteins are reported, here.
The following subsets are given:
- set 1: 80 proteins and 6 methods (HTML - ASCII)
- set 2: 175 proteins and 5 methods (HTML - ASCII)
- set 3: 175 proteins and 5 methods (HTML - ASCII)
- set 4: 179 proteins and 4 methods (HTML - ASCII)
- set 5: 179 proteins and 4 methods (HTML - ASCII)
- set 6: 212 proteins and 3 methods (HTML - ASCII)
Detail level 3 (this file) as ASCII

subset	nprot	sots	rank	method	Q3	ERRsigQ3	Q3H%o	ERRsigQ3H%o	Q3H%p	ERRsigQ3H%p	Q3E%o	ERRsigQ3E%o	Q3E%p	ERRsigQ3E%p	Q3L%o	ERRsigQ3L%o	Q3L%p	ERRsigQ3L%p	sov	ERRsigsov	sovH	ERRsigsovH	sovE	ERRsigsovE	sovL	ERRsigsovL	BAD	ERRsigBAD	info	ERRsiginfo	corrH	ERRsigcorrH	corrE	ERRsigcorrE	corrL	ERRsigcorrL	class	ERRsigclass	contDH	ERRsigcontDH	contDE	ERRsigcontDE
Set 1			Sorted alphabetically for identical ranks!		MORE SCORES
common 1	80	dssp	1	PROFsec	75.5	+/-1.4	67.0	+/-3.6	73.8	+/-3.8	41.3	+/-5.4	38.2	+/-5.1	74.9	+/-1.6	74.6	+/-1.8	74.9	+/-1.9	78.3	+/-2.8	75.9	+/-3.3	71.3	+/-2.0	4.1	+/-0.8	0.37	+/-0.02	0.65	+/-0.03	0.70	+/-0.04	0.56	+/-0.02	81.2	+/-4.4	8.7	+/-1.1	7.0	+/-0.9
				PSIpred	76.8	+/-1.4	72.9	+/-3.7	73.4	+/-3.5	35.2	+/-5.5	36.7	+/-6.0	73.5	+/-1.9	76.2	+/-1.7	75.4	+/-2.0	82.1	+/-2.5	72.3	+/-3.9	69.2	+/-2.2	2.8	+/-0.6	0.37	+/-0.02	0.67	+/-0.03	0.73	+/-0.04	0.55	+/-0.02	83.8	+/-4.2	8.7	+/-1.2	5.5	+/-0.9
				SAM-T99sec	77.2	+/-1.2	75.0	+/-3.6	71.0	+/-3.5	34.7	+/-4.9	43.7	+/-5.7	74.2	+/-2.1	76.7	+/-1.9	74.6	+/-1.5	80.9	+/-2.5	72.5	+/-3.4	71.2	+/-2.2	4.1	+/-0.7	0.39	+/-0.02	0.67	+/-0.03	0.71	+/-0.03	0.59	+/-0.02	87.5	+/-3.7	7.6	+/-0.9	7.3	+/-0.9
common 1	80	dssp	2	PHDpsi	73.4	+/-1.4	68.2	+/-3.9	71.3	+/-3.8	37.5	+/-5.0	36.6	+/-5.1	69.4	+/-2.2	75.7	+/-1.9	69.5	+/-1.9	73.7	+/-3.2	73.9	+/-3.4	65.2	+/-2.4	5.2	+/-1.1	0.34	+/-0.02	0.64	+/-0.03	0.68	+/-0.04	0.52	+/-0.02	85.0	+/-4.0	9.3	+/-1.2	8.7	+/-1.3
common 1	80	dssp	3	PROF_king	71.6	+/-1.5	62.1	+/-3.7	75.0	+/-3.7	37.5	+/-5.3	33.9	+/-5.0	74.5	+/-1.7	71.0	+/-1.9	67.7	+/-2.0	72.5	+/-3.1	72.6	+/-3.6	65.6	+/-2.0	5.6	+/-1.2	0.32	+/-0.02	0.62	+/-0.03	0.68	+/-0.04	0.51	+/-0.02	82.5	+/-4.3	12.3	+/-1.5	10.0	+/-1.3
				Prospect	71.1	+/-1.6	63.8	+/-3.7	67.8	+/-3.9	34.3	+/-5.1	39.9	+/-5.2	74.8	+/-1.7	69.6	+/-2.1	68.7	+/-2.2	75.4	+/-3.1	71.0	+/-3.6	66.2	+/-2.2	5.3	+/-1.1	0.32	+/-0.02	0.59	+/-0.03	0.69	+/-0.04	0.49	+/-0.03	82.5	+/-4.3	11.2	+/-1.5	9.8	+/-1.3

subset	nprot	sots	rank	method	Q3	ERRsigQ3	Q3H%o	ERRsigQ3H%o	Q3H%p	ERRsigQ3H%p	Q3E%o	ERRsigQ3E%o	Q3E%p	ERRsigQ3E%p	Q3L%o	ERRsigQ3L%o	Q3L%p	ERRsigQ3L%p	sov	ERRsigsov	sovH	ERRsigsovH	sovE	ERRsigsovE	sovL	ERRsigsovL	BAD	ERRsigBAD	info	ERRsiginfo	corrH	ERRsigcorrH	corrE	ERRsigcorrE	corrL	ERRsigcorrL	class	ERRsigclass	contDH	ERRsigcontDH	contDE	ERRsigcontDE
Set 2			Sorted alphabetically for identical ranks!		MORE SCORES
common 2	175	dssp	1	PSIpred	77.4	+/-0.9	71.9	+/-2.6	70.9	+/-2.5	38.9	+/-3.5	42.8	+/-3.8	73.9	+/-1.3	76.0	+/-1.1	75.3	+/-1.2	81.0	+/-1.7	73.2	+/-2.4	70.0	+/-1.4	2.5	+/-0.4	0.37	+/-0.01	0.68	+/-0.02	0.72	+/-0.02	0.56	+/-0.02	85.1	+/-2.7	7.7	+/-0.7	5.3	+/-0.5
				SAM-T99sec	77.2	+/-0.8	74.8	+/-2.5	69.2	+/-2.4	38.8	+/-3.2	47.6	+/-3.7	72.5	+/-1.4	75.6	+/-1.3	74.5	+/-1.1	82.1	+/-1.7	74.1	+/-2.1	69.1	+/-1.4	3.2	+/-0.4	0.38	+/-0.01	0.66	+/-0.02	0.71	+/-0.02	0.57	+/-0.02	83.4	+/-2.8	7.3	+/-0.5	6.7	+/-0.6
common 2	175	dssp	2	PROFsec	76.2	+/-0.8	66.5	+/-2.5	73.8	+/-2.6	43.8	+/-3.5	43.8	+/-3.3	76.5	+/-1.1	73.2	+/-1.1	74.9	+/-1.2	78.7	+/-1.8	76.9	+/-2.0	71.8	+/-1.3	3.2	+/-0.4	0.37	+/-0.01	0.67	+/-0.02	0.71	+/-0.02	0.55	+/-0.01	82.3	+/-2.9	8.0	+/-0.7	6.4	+/-0.5
common 2	175	dssp	3	PHDpsi	74.3	+/-0.9	69.1	+/-2.6	69.6	+/-2.6	39.4	+/-3.2	42.0	+/-3.3	70.9	+/-1.4	74.2	+/-1.2	70.6	+/-1.2	76.4	+/-2.0	73.4	+/-2.2	66.4	+/-1.5	4.1	+/-0.6	0.34	+/-0.01	0.66	+/-0.02	0.68	+/-0.02	0.53	+/-0.01	79.4	+/-3.1	8.6	+/-0.7	7.5	+/-0.8
common 2	175	dssp	4	PROF_king	71.7	+/-0.9	58.4	+/-2.6	71.7	+/-2.8	40.4	+/-3.4	38.1	+/-3.2	75.6	+/-1.0	68.3	+/-1.3	66.9	+/-1.4	69.0	+/-2.2	73.3	+/-2.3	66.9	+/-1.3	4.5	+/-0.6	0.31	+/-0.01	0.62	+/-0.02	0.68	+/-0.03	0.49	+/-0.02	80.0	+/-3.0	10.9	+/-0.9	8.5	+/-0.7

subset	nprot	sots	rank	method	Q3	ERRsigQ3	Q3H%o	ERRsigQ3H%o	Q3H%p	ERRsigQ3H%p	Q3E%o	ERRsigQ3E%o	Q3E%p	ERRsigQ3E%p	Q3L%o	ERRsigQ3L%o	Q3L%p	ERRsigQ3L%p	sov	ERRsigsov	sovH	ERRsigsovH	sovE	ERRsigsovE	sovL	ERRsigsovL	BAD	ERRsigBAD	info	ERRsiginfo	corrH	ERRsigcorrH	corrE	ERRsigcorrE	corrL	ERRsigcorrL	class	ERRsigclass	contDH	ERRsigcontDH	contDE	ERRsigcontDE
Set 3			Sorted alphabetically for identical ranks!		MORE SCORES
common 3	175	dssp	1	PSIpred	77.4	+/-0.9	71.9	+/-2.6	70.9	+/-2.5	38.9	+/-3.5	42.8	+/-3.8	73.9	+/-1.3	76.0	+/-1.1	75.3	+/-1.2	81.0	+/-1.7	73.2	+/-2.4	70.0	+/-1.4	2.5	+/-0.4	0.37	+/-0.01	0.68	+/-0.02	0.72	+/-0.02	0.56	+/-0.02	85.1	+/-2.7	7.7	+/-0.7	5.3	+/-0.5
				SAM-T99sec	77.2	+/-0.8	74.8	+/-2.5	69.2	+/-2.4	38.8	+/-3.2	47.6	+/-3.7	72.5	+/-1.4	75.6	+/-1.3	74.5	+/-1.1	82.1	+/-1.7	74.1	+/-2.1	69.1	+/-1.4	3.2	+/-0.4	0.38	+/-0.01	0.66	+/-0.02	0.71	+/-0.02	0.57	+/-0.02	83.4	+/-2.8	7.3	+/-0.5	6.7	+/-0.6
common 3	175	dssp	2	PROFsec	76.2	+/-0.8	66.5	+/-2.5	73.8	+/-2.6	43.8	+/-3.5	43.8	+/-3.3	76.5	+/-1.1	73.2	+/-1.1	74.9	+/-1.2	78.7	+/-1.8	76.9	+/-2.0	71.8	+/-1.3	3.2	+/-0.4	0.37	+/-0.01	0.67	+/-0.02	0.71	+/-0.02	0.55	+/-0.01	82.3	+/-2.9	8.0	+/-0.7	6.4	+/-0.5
common 3	175	dssp	3	PHDpsi	74.3	+/-0.9	69.1	+/-2.6	69.6	+/-2.6	39.4	+/-3.2	42.0	+/-3.3	70.9	+/-1.4	74.2	+/-1.2	70.6	+/-1.2	76.4	+/-2.0	73.4	+/-2.2	66.4	+/-1.5	4.1	+/-0.6	0.34	+/-0.01	0.66	+/-0.02	0.68	+/-0.02	0.53	+/-0.01	79.4	+/-3.1	8.6	+/-0.7	7.5	+/-0.8
common 3	175	dssp	4	PROF_king	71.7	+/-0.9	58.4	+/-2.6	71.7	+/-2.8	40.4	+/-3.4	38.1	+/-3.2	75.6	+/-1.0	68.3	+/-1.3	66.9	+/-1.4	69.0	+/-2.2	73.3	+/-2.3	66.9	+/-1.3	4.5	+/-0.6	0.31	+/-0.01	0.62	+/-0.02	0.68	+/-0.03	0.49	+/-0.02	80.0	+/-3.0	10.9	+/-0.9	8.5	+/-0.7

subset	nprot	sots	rank	method	Q3	ERRsigQ3	Q3H%o	ERRsigQ3H%o	Q3H%p	ERRsigQ3H%p	Q3E%o	ERRsigQ3E%o	Q3E%p	ERRsigQ3E%p	Q3L%o	ERRsigQ3L%o	Q3L%p	ERRsigQ3L%p	sov	ERRsigsov	sovH	ERRsigsovH	sovE	ERRsigsovE	sovL	ERRsigsovL	BAD	ERRsigBAD	info	ERRsiginfo	corrH	ERRsigcorrH	corrE	ERRsigcorrE	corrL	ERRsigcorrL	class	ERRsigclass	contDH	ERRsigcontDH	contDE	ERRsigcontDE
Set 4			Sorted alphabetically for identical ranks!		MORE SCORES
common 4	179	dssp	1	PROFsec	76.4	+/-0.8	66.6	+/-2.5	73.7	+/-2.6	43.4	+/-3.4	43.4	+/-3.3	76.7	+/-1.0	73.3	+/-1.1	74.9	+/-1.2	79.0	+/-1.8	76.9	+/-2.0	72.1	+/-1.3	3.2	+/-0.4	0.37	+/-0.01	0.67	+/-0.02	0.71	+/-0.02	0.56	+/-0.01	82.7	+/-2.8	7.9	+/-0.6	6.3	+/-0.5
				PSIpred	77.3	+/-0.9	71.9	+/-2.6	70.7	+/-2.5	38.5	+/-3.5	42.2	+/-3.7	73.5	+/-1.3	76.0	+/-1.1	75.3	+/-1.2	81.2	+/-1.7	73.1	+/-2.4	69.9	+/-1.4	2.5	+/-0.3	0.37	+/-0.01	0.68	+/-0.02	0.73	+/-0.02	0.55	+/-0.02	85.5	+/-2.6	7.9	+/-0.7	5.3	+/-0.5
				SAM-T99sec	77.1	+/-0.8	74.8	+/-2.5	69.0	+/-2.4	38.5	+/-3.1	47.1	+/-3.7	72.1	+/-1.4	75.6	+/-1.3	74.4	+/-1.1	82.3	+/-1.6	74.0	+/-2.1	68.8	+/-1.4	3.1	+/-0.4	0.37	+/-0.01	0.66	+/-0.02	0.71	+/-0.02	0.56	+/-0.02	83.8	+/-2.8	7.4	+/-0.5	6.9	+/-0.6
common 4	179	dssp	2	PHDpsi	74.3	+/-0.9	69.2	+/-2.6	69.4	+/-2.6	39.0	+/-3.2	41.7	+/-3.3	70.7	+/-1.3	74.3	+/-1.2	70.4	+/-1.3	76.4	+/-1.9	73.2	+/-2.2	66.3	+/-1.5	4.1	+/-0.6	0.34	+/-0.01	0.66	+/-0.02	0.68	+/-0.02	0.53	+/-0.01	79.9	+/-3.0	8.7	+/-0.7	7.6	+/-0.8

subset	nprot	sots	rank	method	Q3	ERRsigQ3	Q3H%o	ERRsigQ3H%o	Q3H%p	ERRsigQ3H%p	Q3E%o	ERRsigQ3E%o	Q3E%p	ERRsigQ3E%p	Q3L%o	ERRsigQ3L%o	Q3L%p	ERRsigQ3L%p	sov	ERRsigsov	sovH	ERRsigsovH	sovE	ERRsigsovE	sovL	ERRsigsovL	BAD	ERRsigBAD	info	ERRsiginfo	corrH	ERRsigcorrH	corrE	ERRsigcorrE	corrL	ERRsigcorrL	class	ERRsigclass	contDH	ERRsigcontDH	contDE	ERRsigcontDE
Set 5			Sorted alphabetically for identical ranks!		MORE SCORES
common 5	179	dssp	1	PROFsec	76.4	+/-0.8	66.6	+/-2.5	73.7	+/-2.6	43.4	+/-3.4	43.4	+/-3.3	76.7	+/-1.0	73.3	+/-1.1	74.9	+/-1.2	79.0	+/-1.8	76.9	+/-2.0	72.1	+/-1.3	3.2	+/-0.4	0.37	+/-0.01	0.67	+/-0.02	0.71	+/-0.02	0.56	+/-0.01	82.7	+/-2.8	7.9	+/-0.6	6.3	+/-0.5
				PSIpred	77.3	+/-0.9	71.9	+/-2.6	70.7	+/-2.5	38.5	+/-3.5	42.2	+/-3.7	73.5	+/-1.3	76.0	+/-1.1	75.3	+/-1.2	81.2	+/-1.7	73.1	+/-2.4	69.9	+/-1.4	2.5	+/-0.3	0.37	+/-0.01	0.68	+/-0.02	0.73	+/-0.02	0.55	+/-0.02	85.5	+/-2.6	7.9	+/-0.7	5.3	+/-0.5
				SAM-T99sec	77.1	+/-0.8	74.8	+/-2.5	69.0	+/-2.4	38.5	+/-3.1	47.1	+/-3.7	72.1	+/-1.4	75.6	+/-1.3	74.4	+/-1.1	82.3	+/-1.6	74.0	+/-2.1	68.8	+/-1.4	3.1	+/-0.4	0.37	+/-0.01	0.66	+/-0.02	0.71	+/-0.02	0.56	+/-0.02	83.8	+/-2.8	7.4	+/-0.5	6.9	+/-0.6
common 5	179	dssp	2	PHDpsi	74.3	+/-0.9	69.2	+/-2.6	69.4	+/-2.6	39.0	+/-3.2	41.7	+/-3.3	70.7	+/-1.3	74.3	+/-1.2	70.4	+/-1.3	76.4	+/-1.9	73.2	+/-2.2	66.3	+/-1.5	4.1	+/-0.6	0.34	+/-0.01	0.66	+/-0.02	0.68	+/-0.02	0.53	+/-0.01	79.9	+/-3.0	8.7	+/-0.7	7.6	+/-0.8

subset	nprot	sots	rank	method	Q3	ERRsigQ3	Q3H%o	ERRsigQ3H%o	Q3H%p	ERRsigQ3H%p	Q3E%o	ERRsigQ3E%o	Q3E%p	ERRsigQ3E%p	Q3L%o	ERRsigQ3L%o	Q3L%p	ERRsigQ3L%p	sov	ERRsigsov	sovH	ERRsigsovH	sovE	ERRsigsovE	sovL	ERRsigsovL	BAD	ERRsigBAD	info	ERRsiginfo	corrH	ERRsigcorrH	corrE	ERRsigcorrE	corrL	ERRsigcorrL	class	ERRsigclass	contDH	ERRsigcontDH	contDE	ERRsigcontDE
Set 6			Sorted alphabetically for identical ranks!		MORE SCORES
common 6	212	dssp	1	PSIpred	77.8	+/-0.8	72.2	+/-2.4	69.8	+/-2.4	37.1	+/-3.2	41.7	+/-3.5	74.0	+/-1.1	76.9	+/-1.0	75.4	+/-1.1	80.6	+/-1.6	72.6	+/-2.3	70.4	+/-1.2	2.5	+/-0.3	0.37	+/-0.01	0.69	+/-0.02	0.74	+/-0.02	0.56	+/-0.01	85.4	+/-2.4	7.9	+/-0.6	5.3	+/-0.5
common 6	212	dssp	2	PROFsec	76.7	+/-0.8	67.4	+/-2.2	73.4	+/-2.4	42.0	+/-3.2	42.4	+/-3.1	77.1	+/-0.9	73.7	+/-1.0	74.8	+/-1.1	79.2	+/-1.6	76.2	+/-1.9	71.8	+/-1.1	3.1	+/-0.4	0.37	+/-0.01	0.68	+/-0.02	0.72	+/-0.02	0.56	+/-0.01	82.1	+/-2.6	7.8	+/-0.6	6.1	+/-0.5
common 6	212	dssp	3	PHDpsi	75.0	+/-0.8	70.3	+/-2.3	69.6	+/-2.4	37.6	+/-3.0	40.7	+/-3.1	71.4	+/-1.2	75.1	+/-1.1	70.9	+/-1.2	77.0	+/-1.7	72.4	+/-2.1	67.0	+/-1.3	3.8	+/-0.5	0.35	+/-0.01	0.66	+/-0.02	0.69	+/-0.02	0.53	+/-0.01	81.6	+/-2.7	8.3	+/-0.6	7.1	+/-0.7

Last update: Apr 9, 2008
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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