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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	386	54	method/index.html

JPred	290	47	method/jpred.html
PHD	364	54	method/phd.html
PHDpsi	364	54	method/phdpsi.html
PROF	354	52	method/prof1.html
PROF_king	263	39	method/prof_king.html
PSIpred	353	53	method/psipred.html
PSSP	306	44	method/pssp.html
SAM-T99sec	208	39	method/samt99_sec.html
SSpro	313	44	method/sspro.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: 127 proteins and 9 methods (HTML - ASCII)
- set 2: 147 proteins and 7 methods (HTML - ASCII)
- set 3: 259 proteins and 6 methods (HTML - ASCII)
- set 4: 348 proteins and 4 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	127	dssp	1	JPred	74.9	+/-0.9	71.7	+/-2.6	84.1	+/-2.9	57.9	+/-2.9	73.3	+/-3.6	80.5	+/-1.3	69.1	+/-1.2	67.6	+/-1.4	69.0	+/-2.3	63.3	+/-2.6	66.1	+/-1.5	1.9	+/-0.3	0.33	+/-0.01	0.65	+/-0.02	0.58	+/-0.02	0.54	+/-0.02	79.5	+/-3.6	7.3	+/-0.7	5.2	+/-0.5
				PHDpsi	74.2	+/-0.8	78.1	+/-2.5	81.2	+/-2.6	63.8	+/-3.1	67.7	+/-3.3	71.4	+/-1.4	73.2	+/-1.1	67.7	+/-1.2	71.9	+/-2.1	65.9	+/-2.6	62.8	+/-1.5	2.9	+/-0.3	0.25	+/-0.06	0.67	+/-0.02	0.58	+/-0.02	0.53	+/-0.01	79.5	+/-3.6	7.0	+/-0.7	4.7	+/-0.5
				PROF	76.2	+/-0.8	79.7	+/-2.4	83.4	+/-2.5	69.0	+/-3.2	70.0	+/-3.2	73.2	+/-1.4	75.1	+/-1.1	71.0	+/-1.3	74.6	+/-2.0	68.8	+/-2.5	66.6	+/-1.5	2.3	+/-0.2	0.35	+/-0.01	0.70	+/-0.02	0.62	+/-0.02	0.56	+/-0.01	81.1	+/-3.5	6.4	+/-0.7	4.1	+/-0.4
				PROF_king	73.6	+/-0.9	72.4	+/-2.7	85.5	+/-2.8	71.3	+/-3.4	64.6	+/-3.2	74.6	+/-1.3	71.4	+/-1.2	66.8	+/-1.3	66.7	+/-2.4	67.6	+/-2.6	65.2	+/-1.4	2.8	+/-0.3	0.31	+/-0.01	0.67	+/-0.02	0.60	+/-0.02	0.53	+/-0.02	84.3	+/-3.2	8.2	+/-0.7	6.5	+/-0.6
				PSIpred	75.9	+/-0.9	81.3	+/-2.5	82.2	+/-2.6	68.8	+/-3.3	71.1	+/-3.4	74.7	+/-1.2	74.6	+/-1.2	70.8	+/-1.4	76.3	+/-2.2	67.0	+/-2.6	67.3	+/-1.4	2.5	+/-0.3	0.36	+/-0.01	0.70	+/-0.02	0.63	+/-0.03	0.57	+/-0.02	83.5	+/-3.3	6.1	+/-0.6	4.6	+/-0.5
				SAM-T99sec	75.8	+/-0.9	84.0	+/-2.5	78.0	+/-2.4	62.1	+/-3.0	75.4	+/-3.5	70.9	+/-1.5	75.8	+/-1.3	70.3	+/-1.3	76.1	+/-2.0	66.3	+/-2.5	64.5	+/-1.5	1.9	+/-0.2	0.34	+/-0.01	0.68	+/-0.02	0.61	+/-0.02	0.54	+/-0.02	81.1	+/-3.5	7.0	+/-0.8	4.5	+/-0.4
				SSpro	75.4	+/-0.9	80.5	+/-2.4	81.7	+/-2.5	63.2	+/-3.1	71.8	+/-3.5	75.3	+/-1.3	74.2	+/-1.1	68.4	+/-1.5	74.8	+/-2.0	64.8	+/-2.6	65.5	+/-1.5	2.5	+/-0.3	0.34	+/-0.01	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.02	78.0	+/-3.7	7.1	+/-0.7	5.5	+/-0.5
common 1	127	dssp	2	PHD	71.7	+/-0.9	75.3	+/-2.5	77.3	+/-2.6	60.9	+/-2.9	61.9	+/-3.0	68.3	+/-1.4	71.8	+/-1.2	66.6	+/-1.3	70.5	+/-2.1	65.1	+/-2.5	61.5	+/-1.4	3.6	+/-0.3	0.21	+/-0.06	0.62	+/-0.02	0.52	+/-0.02	0.49	+/-0.01	78.7	+/-3.6	8.4	+/-0.8	5.5	+/-0.5
common 1	127	dssp	3	PSSP	64.0	+/-1.0	63.3	+/-2.4	71.2	+/-2.6	55.1	+/-2.6	48.0	+/-2.6	64.9	+/-1.2	64.8	+/-1.3	57.7	+/-1.2	58.1	+/-2.1	61.4	+/-2.4	56.5	+/-1.4	6.1	+/-0.5	0.20	+/-0.01	0.48	+/-0.02	0.38	+/-0.03	0.38	+/-0.01	75.6	+/-3.8	10.3	+/-0.9	8.0	+/-0.6

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	147	dssp	1	JPred	74.9	+/-0.8	71.7	+/-2.4	84.1	+/-2.5	57.9	+/-2.6	73.3	+/-3.2	81.2	+/-1.1	68.6	+/-1.0	68.5	+/-1.2	68.7	+/-2.1	64.9	+/-2.4	67.2	+/-1.3	1.9	+/-0.2	0.33	+/-0.01	0.65	+/-0.02	0.58	+/-0.02	0.54	+/-0.01	78.2	+/-3.4	7.3	+/-0.6	5.4	+/-0.4
				PHDpsi	74.4	+/-0.7	78.1	+/-2.2	81.2	+/-2.3	63.8	+/-2.8	67.7	+/-2.9	72.1	+/-1.2	72.8	+/-1.0	69.0	+/-1.1	72.7	+/-1.9	66.9	+/-2.3	64.4	+/-1.4	2.8	+/-0.3	0.26	+/-0.06	0.67	+/-0.02	0.58	+/-0.02	0.53	+/-0.01	79.6	+/-3.3	6.7	+/-0.6	4.9	+/-0.4
				PROF	76.3	+/-0.8	79.7	+/-2.1	83.4	+/-2.2	69.0	+/-2.9	70.0	+/-2.9	73.9	+/-1.2	74.5	+/-1.0	71.8	+/-1.1	74.5	+/-1.8	70.2	+/-2.3	67.6	+/-1.3	2.2	+/-0.2	0.35	+/-0.01	0.70	+/-0.02	0.62	+/-0.02	0.56	+/-0.01	82.3	+/-3.2	6.1	+/-0.6	4.1	+/-0.4
				PSIpred	76.2	+/-0.8	81.3	+/-2.2	82.2	+/-2.3	68.8	+/-3.0	71.1	+/-3.1	75.2	+/-1.0	74.3	+/-1.0	71.8	+/-1.2	76.4	+/-1.9	68.8	+/-2.4	68.5	+/-1.3	2.4	+/-0.3	0.36	+/-0.01	0.70	+/-0.02	0.63	+/-0.02	0.57	+/-0.01	84.4	+/-3.0	5.8	+/-0.6	4.5	+/-0.5
				SAM-T99sec	75.9	+/-0.8	84.0	+/-2.2	78.0	+/-2.1	62.1	+/-2.7	75.4	+/-3.2	71.5	+/-1.5	74.7	+/-1.2	70.9	+/-1.2	75.6	+/-1.8	67.8	+/-2.2	65.4	+/-1.5	1.9	+/-0.2	0.35	+/-0.01	0.68	+/-0.02	0.61	+/-0.02	0.54	+/-0.01	81.0	+/-3.2	6.6	+/-0.7	4.5	+/-0.4
				SSpro	75.7	+/-0.8	80.5	+/-2.1	81.7	+/-2.2	63.2	+/-2.8	71.8	+/-3.1	75.9	+/-1.1	74.2	+/-1.0	69.7	+/-1.3	75.0	+/-1.8	66.7	+/-2.3	67.0	+/-1.4	2.5	+/-0.2	0.35	+/-0.01	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.01	79.6	+/-3.3	6.6	+/-0.6	5.3	+/-0.5
common 2	147	dssp	2	PHD	71.9	+/-0.8	75.3	+/-2.2	77.3	+/-2.3	60.9	+/-2.6	61.9	+/-2.7	69.2	+/-1.3	71.5	+/-1.1	67.5	+/-1.1	71.2	+/-1.9	65.9	+/-2.3	62.9	+/-1.3	3.7	+/-0.3	0.23	+/-0.06	0.62	+/-0.02	0.52	+/-0.02	0.49	+/-0.01	78.9	+/-3.4	8.2	+/-0.7	5.7	+/-0.5

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	259	dssp	1	PROF	76.4	+/-0.6	79.7	+/-1.6	83.4	+/-1.7	69.0	+/-2.1	70.0	+/-2.2	75.0	+/-0.8	74.2	+/-0.7	72.3	+/-0.8	74.3	+/-1.4	71.1	+/-1.6	68.6	+/-0.9	2.2	+/-0.2	0.36	+/-0.01	0.70	+/-0.01	0.62	+/-0.01	0.56	+/-0.01	82.2	+/-2.4	5.8	+/-0.4	4.1	+/-0.3
				PSIpred	76.2	+/-0.6	81.3	+/-1.6	82.2	+/-1.7	68.8	+/-2.2	71.1	+/-2.3	75.7	+/-0.8	74.1	+/-0.8	71.8	+/-0.9	76.2	+/-1.4	69.8	+/-1.7	68.6	+/-0.9	2.5	+/-0.2	0.37	+/-0.01	0.70	+/-0.01	0.63	+/-0.02	0.57	+/-0.01	80.7	+/-2.5	5.5	+/-0.4	4.5	+/-0.3
				SSpro	75.8	+/-0.6	80.5	+/-1.6	81.7	+/-1.6	63.2	+/-2.0	71.8	+/-2.3	76.3	+/-0.8	73.9	+/-0.7	70.6	+/-0.9	74.8	+/-1.4	68.6	+/-1.6	67.8	+/-1.0	2.6	+/-0.2	0.35	+/-0.01	0.69	+/-0.01	0.60	+/-0.02	0.56	+/-0.01	81.1	+/-2.4	6.2	+/-0.4	5.0	+/-0.3
common 3	259	dssp	2	JPred	74.7	+/-0.6	71.7	+/-1.7	84.1	+/-1.9	57.9	+/-1.9	73.3	+/-2.3	82.6	+/-0.7	68.5	+/-0.8	69.3	+/-0.9	69.2	+/-1.6	66.1	+/-1.7	68.6	+/-1.0	2.4	+/-0.2	0.34	+/-0.01	0.65	+/-0.01	0.58	+/-0.02	0.54	+/-0.01	77.2	+/-2.6	7.7	+/-0.5	5.5	+/-0.3
				PHDpsi	74.5	+/-0.5	78.1	+/-1.7	81.2	+/-1.7	63.8	+/-2.1	67.7	+/-2.2	73.2	+/-0.9	72.6	+/-0.7	69.4	+/-0.8	72.5	+/-1.4	67.8	+/-1.6	65.4	+/-1.0	2.9	+/-0.2	0.29	+/-0.03	0.67	+/-0.01	0.58	+/-0.02	0.53	+/-0.01	78.8	+/-2.5	6.4	+/-0.5	4.9	+/-0.3
common 3	259	dssp	3	PHD	71.6	+/-0.6	75.3	+/-1.7	77.3	+/-1.7	60.9	+/-1.9	61.9	+/-2.0	70.0	+/-0.9	71.3	+/-0.8	67.2	+/-0.8	70.1	+/-1.5	66.4	+/-1.6	63.1	+/-1.0	4.0	+/-0.2	0.25	+/-0.03	0.62	+/-0.01	0.52	+/-0.02	0.49	+/-0.01	77.6	+/-2.6	7.8	+/-0.5	5.7	+/-0.4

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	348	dssp	1	PROF	76.3	+/-0.5	79.7	+/-1.5	83.4	+/-1.6	69.0	+/-1.9	70.0	+/-2.0	74.5	+/-0.7	74.1	+/-0.7	72.2	+/-0.7	75.2	+/-1.2	70.7	+/-1.4	68.0	+/-0.8	2.4	+/-0.2	0.36	+/-0.01	0.70	+/-0.01	0.62	+/-0.01	0.56	+/-0.01	81.9	+/-2.1	5.9	+/-0.4	4.6	+/-0.3
				PSIpred	76.2	+/-0.6	81.3	+/-1.5	82.2	+/-1.5	68.8	+/-2.0	71.1	+/-2.1	75.2	+/-0.7	73.6	+/-0.7	71.5	+/-0.8	76.8	+/-1.2	69.3	+/-1.5	68.2	+/-0.8	2.3	+/-0.2	0.36	+/-0.01	0.70	+/-0.01	0.63	+/-0.01	0.57	+/-0.01	81.3	+/-2.1	5.8	+/-0.4	4.5	+/-0.3
common 4	348	dssp	2	PHDpsi	74.4	+/-0.5	78.1	+/-1.5	81.2	+/-1.6	63.8	+/-1.8	67.7	+/-2.0	72.6	+/-0.8	71.9	+/-0.7	69.4	+/-0.7	73.6	+/-1.2	66.8	+/-1.5	64.5	+/-0.9	2.8	+/-0.2	0.29	+/-0.02	0.67	+/-0.01	0.58	+/-0.01	0.53	+/-0.01	77.9	+/-2.2	6.5	+/-0.4	5.0	+/-0.3
common 4	348	dssp	3	PHD	71.7	+/-0.5	75.3	+/-1.5	77.3	+/-1.5	60.9	+/-1.7	61.9	+/-1.8	69.5	+/-0.8	70.8	+/-0.7	67.4	+/-0.7	71.4	+/-1.2	65.1	+/-1.5	62.7	+/-0.8	3.9	+/-0.2	0.26	+/-0.02	0.62	+/-0.01	0.52	+/-0.01	0.49	+/-0.01	76.1	+/-2.3	7.9	+/-0.5	5.8	+/-0.3

Last update: May 16, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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EVA summary for category sec (3)

About secondary structure prediction methods evaluated

Comparison of secondary structure prediction methods (detail level 3)

Set 1

Set 2

Set 3

Set 4