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EVA summary for category sec (3)

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Local link to information about methods evaluated
All prediction results for category sec (i.e. secondary structure)
Explanations of measures for prediction accuracy

For older versions see:

bup_common/index.html

About secondary structure methods evaluated

method		nprot	nweek	detailed results for method
ALL		349	45
JPred		261	39	method/jpred.html
PHD		329	45	method/phd.html
PHDpsi		329	45	method/phdpsi.html
PROF1		319	43	method/prof1.html
PROF_king		243	33	method/prof_king.html
PSIpred		322	44	method/psipred.html
PSSP		272	35	method/pssp.html
SAM-T99sec		182	31	method/samt99_sec.html
SSpro		303	41	method/sspro.html

Comparison of secondary structure 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: 122 proteins and 9 methods (HTML - ASCII)
set 2: 138 proteins and 8 methods (HTML - ASCII)
set 3: 252 proteins and 6 methods (HTML - ASCII)
set 4: 318 proteins and 4 methods (HTML - 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	122	dssp	1	JPred	74.6	+/-0.9	71.7	+/-2.7	84.8	+/-3.0	58.2	+/-2.9	74.4	+/-3.6	80.3	+/-1.3	68.5	+/-1.2	67.3	+/-1.4	68.2	+/-2.4	62.9	+/-2.7	65.8	+/-1.5	2.0	+/-0.3	0.33	+/-0.01	0.66	+/-0.02	0.59	+/-0.03	0.55	+/-0.02	79.5	+/-3.7	7.5	+/-0.7	5.3	+/-0.5
				PHDpsi	74.0	+/-0.8	78.2	+/-2.6	81.8	+/-2.7	64.1	+/-3.1	68.6	+/-3.3	71.2	+/-1.4	72.7	+/-1.1	67.7	+/-1.3	71.2	+/-2.2	65.6	+/-2.6	62.8	+/-1.5	3.0	+/-0.3	0.24	+/-0.07	0.68	+/-0.02	0.58	+/-0.02	0.54	+/-0.02	80.3	+/-3.6	7.1	+/-0.7	4.7	+/-0.5
				PROF1	76.0	+/-0.9	79.9	+/-2.4	84.1	+/-2.5	69.1	+/-3.2	70.8	+/-3.3	73.0	+/-1.4	74.6	+/-1.1	70.9	+/-1.3	74.1	+/-2.0	68.6	+/-2.5	66.6	+/-1.5	2.4	+/-0.2	0.34	+/-0.01	0.71	+/-0.02	0.63	+/-0.02	0.57	+/-0.02	81.1	+/-3.6	6.5	+/-0.7	4.0	+/-0.4
				PROF_king	73.4	+/-0.9	72.5	+/-2.7	85.7	+/-2.8	71.1	+/-3.4	65.2	+/-3.3	74.4	+/-1.3	71.0	+/-1.2	66.6	+/-1.4	65.8	+/-2.4	67.3	+/-2.6	65.2	+/-1.4	2.9	+/-0.3	0.31	+/-0.01	0.67	+/-0.02	0.60	+/-0.02	0.54	+/-0.02	85.2	+/-3.2	8.3	+/-0.7	6.6	+/-0.7
				PSIpred	75.9	+/-0.9	81.2	+/-2.5	83.0	+/-2.7	68.8	+/-3.3	71.7	+/-3.5	74.9	+/-1.2	74.3	+/-1.2	71.0	+/-1.4	75.7	+/-2.2	66.9	+/-2.6	67.8	+/-1.4	2.6	+/-0.3	0.36	+/-0.02	0.71	+/-0.02	0.63	+/-0.03	0.57	+/-0.02	83.6	+/-3.4	6.2	+/-0.6	4.5	+/-0.5
				SAM-T99sec	75.7	+/-0.9	83.6	+/-2.5	79.4	+/-2.5	62.6	+/-3.0	75.7	+/-3.6	70.8	+/-1.6	75.5	+/-1.3	70.3	+/-1.3	75.7	+/-2.1	66.3	+/-2.5	64.4	+/-1.6	2.0	+/-0.2	0.34	+/-0.01	0.69	+/-0.02	0.62	+/-0.02	0.55	+/-0.02	82.0	+/-3.5	7.0	+/-0.8	4.6	+/-0.5
				SSpro	75.2	+/-1.0	80.5	+/-2.4	81.9	+/-2.5	63.3	+/-3.1	71.8	+/-3.5	75.2	+/-1.3	73.8	+/-1.1	68.2	+/-1.5	74.4	+/-2.0	64.4	+/-2.6	65.4	+/-1.6	2.5	+/-0.3	0.34	+/-0.02	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.02	78.7	+/-3.7	7.1	+/-0.7	5.4	+/-0.5
common 1	122	dssp	2	PHD	71.5	+/-0.9	75.4	+/-2.5	78.0	+/-2.6	61.4	+/-2.9	62.6	+/-3.0	68.1	+/-1.5	71.4	+/-1.2	66.8	+/-1.3	70.1	+/-2.2	64.9	+/-2.5	61.7	+/-1.4	3.8	+/-0.3	0.21	+/-0.07	0.62	+/-0.02	0.53	+/-0.02	0.50	+/-0.01	78.7	+/-3.7	8.5	+/-0.8	5.5	+/-0.6
common 1	122	dssp	3	PSSP	63.9	+/-1.0	63.6	+/-2.3	72.1	+/-2.6	55.9	+/-2.7	48.8	+/-2.6	64.7	+/-1.2	64.4	+/-1.3	57.8	+/-1.2	57.9	+/-2.1	61.6	+/-2.5	56.6	+/-1.4	6.1	+/-0.5	0.20	+/-0.01	0.49	+/-0.02	0.40	+/-0.03	0.38	+/-0.02	74.6	+/-4.0	10.4	+/-0.9	7.9	+/-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	138	dssp	1	JPred	74.7	+/-0.8	71.7	+/-2.4	84.8	+/-2.7	58.2	+/-2.7	74.4	+/-3.3	80.9	+/-1.2	68.2	+/-1.0	68.3	+/-1.3	68.6	+/-2.2	64.2	+/-2.4	66.8	+/-1.4	1.9	+/-0.2	0.33	+/-0.01	0.66	+/-0.02	0.59	+/-0.02	0.55	+/-0.01	77.5	+/-3.6	7.3	+/-0.6	5.5	+/-0.4
				PHDpsi	74.2	+/-0.8	78.2	+/-2.3	81.8	+/-2.4	64.1	+/-2.9	68.6	+/-3.1	71.9	+/-1.3	72.2	+/-1.0	68.8	+/-1.2	72.2	+/-2.0	66.2	+/-2.4	64.3	+/-1.4	2.9	+/-0.3	0.26	+/-0.06	0.68	+/-0.02	0.58	+/-0.02	0.54	+/-0.01	79.7	+/-3.4	6.8	+/-0.6	4.8	+/-0.4
				PROF1	76.4	+/-0.8	79.9	+/-2.1	84.1	+/-2.3	69.1	+/-3.0	70.8	+/-3.1	73.6	+/-1.3	74.2	+/-1.0	71.8	+/-1.2	74.4	+/-1.9	70.0	+/-2.3	67.6	+/-1.4	2.2	+/-0.2	0.35	+/-0.01	0.71	+/-0.02	0.63	+/-0.02	0.57	+/-0.01	81.9	+/-3.3	6.1	+/-0.6	4.0	+/-0.4
				PSIpred	76.4	+/-0.9	81.2	+/-2.2	83.0	+/-2.4	68.8	+/-3.1	71.7	+/-3.2	75.4	+/-1.1	74.1	+/-1.1	72.1	+/-1.3	76.4	+/-2.0	68.4	+/-2.4	68.8	+/-1.3	2.5	+/-0.3	0.37	+/-0.01	0.71	+/-0.02	0.63	+/-0.02	0.57	+/-0.01	84.1	+/-3.1	5.9	+/-0.6	4.4	+/-0.5
				SAM-T99sec	75.9	+/-0.8	83.6	+/-2.2	79.4	+/-2.2	62.6	+/-2.8	75.7	+/-3.3	71.1	+/-1.6	74.5	+/-1.3	71.0	+/-1.2	75.8	+/-1.9	67.6	+/-2.3	65.1	+/-1.5	1.9	+/-0.2	0.35	+/-0.01	0.69	+/-0.02	0.62	+/-0.02	0.55	+/-0.01	81.2	+/-3.3	6.5	+/-0.7	4.6	+/-0.4
				SSpro	75.6	+/-0.9	80.5	+/-2.1	81.9	+/-2.2	63.3	+/-2.9	71.8	+/-3.2	75.6	+/-1.2	73.8	+/-1.0	69.5	+/-1.4	75.2	+/-1.9	66.0	+/-2.4	66.6	+/-1.4	2.5	+/-0.3	0.35	+/-0.01	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.02	79.7	+/-3.4	6.6	+/-0.7	5.3	+/-0.5
common 2	138	dssp	2	PHD	71.8	+/-0.9	75.4	+/-2.3	78.0	+/-2.4	61.4	+/-2.7	62.6	+/-2.8	68.9	+/-1.3	71.1	+/-1.1	67.6	+/-1.2	71.0	+/-2.0	65.5	+/-2.3	62.8	+/-1.3	3.7	+/-0.3	0.22	+/-0.06	0.62	+/-0.02	0.53	+/-0.02	0.50	+/-0.01	78.3	+/-3.5	8.2	+/-0.7	5.6	+/-0.5
common 2	138	dssp	3	PSSP	63.6	+/-0.9	63.6	+/-2.1	72.1	+/-2.4	55.9	+/-2.5	48.8	+/-2.4	64.7	+/-1.1	63.9	+/-1.2	58.0	+/-1.1	58.6	+/-1.9	61.2	+/-2.2	56.7	+/-1.3	6.4	+/-0.4	0.19	+/-0.01	0.49	+/-0.02	0.40	+/-0.03	0.38	+/-0.01	71.7	+/-3.8	9.9	+/-0.8	7.8	+/-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 3			Sorted alphabetically for identical ranks!		MORE SCORES
common 3	252	dssp	1	PROF1	76.4	+/-0.6	79.9	+/-1.6	84.1	+/-1.7	69.1	+/-2.2	70.8	+/-2.2	74.9	+/-0.9	74.1	+/-0.7	72.4	+/-0.8	74.1	+/-1.4	71.2	+/-1.6	68.6	+/-0.9	2.3	+/-0.2	0.36	+/-0.01	0.71	+/-0.01	0.63	+/-0.02	0.57	+/-0.01	82.5	+/-2.4	5.8	+/-0.4	4.0	+/-0.3
				PSIpred	76.3	+/-0.6	81.2	+/-1.6	83.0	+/-1.7	68.8	+/-2.2	71.7	+/-2.3	75.9	+/-0.8	74.0	+/-0.8	72.0	+/-0.9	76.0	+/-1.4	69.9	+/-1.7	69.0	+/-0.9	2.5	+/-0.2	0.37	+/-0.01	0.71	+/-0.01	0.63	+/-0.02	0.57	+/-0.01	81.0	+/-2.5	5.6	+/-0.4	4.3	+/-0.3
				SSpro	75.8	+/-0.6	80.5	+/-1.6	81.9	+/-1.6	63.3	+/-2.0	71.8	+/-2.3	76.3	+/-0.8	73.8	+/-0.7	70.7	+/-0.9	74.8	+/-1.4	68.5	+/-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	81.7	+/-2.4	6.2	+/-0.4	4.9	+/-0.3
common 3	252	dssp	2	JPred	74.6	+/-0.6	71.7	+/-1.8	84.8	+/-1.9	58.2	+/-2.0	74.4	+/-2.4	82.5	+/-0.8	68.3	+/-0.8	69.2	+/-0.9	68.8	+/-1.6	66.1	+/-1.7	68.6	+/-1.0	2.4	+/-0.2	0.33	+/-0.01	0.66	+/-0.01	0.59	+/-0.02	0.55	+/-0.01	77.4	+/-2.6	7.8	+/-0.5	5.5	+/-0.3
				PHDpsi	74.5	+/-0.6	78.2	+/-1.7	81.8	+/-1.7	64.1	+/-2.1	68.6	+/-2.2	73.1	+/-0.9	72.4	+/-0.7	69.6	+/-0.8	72.2	+/-1.4	67.9	+/-1.6	65.6	+/-1.0	2.9	+/-0.2	0.29	+/-0.03	0.68	+/-0.01	0.58	+/-0.02	0.54	+/-0.01	79.4	+/-2.6	6.3	+/-0.5	4.8	+/-0.3
common 3	252	dssp	3	PHD	71.5	+/-0.6	75.4	+/-1.7	78.0	+/-1.7	61.4	+/-1.9	62.6	+/-2.0	69.9	+/-0.9	71.1	+/-0.8	67.3	+/-0.9	69.8	+/-1.5	66.4	+/-1.6	63.2	+/-1.0	4.1	+/-0.2	0.25	+/-0.03	0.62	+/-0.01	0.53	+/-0.02	0.50	+/-0.01	77.8	+/-2.6	7.8	+/-0.5	5.6	+/-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	318	dssp	1	PROF1	76.7	+/-0.5	79.9	+/-1.5	84.1	+/-1.5	69.1	+/-2.0	70.8	+/-2.1	74.9	+/-0.8	73.9	+/-0.7	72.8	+/-0.8	75.6	+/-1.2	71.9	+/-1.5	68.6	+/-0.8	2.3	+/-0.2	0.36	+/-0.01	0.71	+/-0.01	0.63	+/-0.01	0.57	+/-0.01	81.4	+/-2.2	5.9	+/-0.4	4.3	+/-0.3
				PSIpred	76.5	+/-0.6	81.2	+/-1.5	83.0	+/-1.5	68.8	+/-2.0	71.7	+/-2.1	75.8	+/-0.7	73.4	+/-0.8	72.0	+/-0.8	76.8	+/-1.3	70.8	+/-1.5	68.9	+/-0.9	2.4	+/-0.2	0.37	+/-0.01	0.71	+/-0.01	0.63	+/-0.02	0.57	+/-0.01	80.2	+/-2.2	5.9	+/-0.4	4.2	+/-0.3
common 4	318	dssp	2	PHDpsi	74.6	+/-0.5	78.2	+/-1.5	81.8	+/-1.5	64.1	+/-1.9	68.6	+/-2.0	72.8	+/-0.9	71.7	+/-0.7	70.1	+/-0.7	73.8	+/-1.2	68.0	+/-1.5	65.2	+/-0.9	2.8	+/-0.2	0.30	+/-0.03	0.68	+/-0.01	0.58	+/-0.01	0.54	+/-0.01	77.7	+/-2.3	6.6	+/-0.5	4.8	+/-0.3
common 4	318	dssp	3	PHD	72.0	+/-0.5	75.4	+/-1.5	78.0	+/-1.6	61.4	+/-1.8	62.6	+/-1.9	69.5	+/-0.9	70.6	+/-0.8	68.0	+/-0.8	71.4	+/-1.3	66.8	+/-1.5	62.9	+/-0.9	3.8	+/-0.2	0.26	+/-0.03	0.62	+/-0.01	0.53	+/-0.01	0.50	+/-0.01	76.7	+/-2.4	7.9	+/-0.5	5.5	+/-0.3

All results

Last update: Mar 28, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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