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EVA summary for category sec (3)

Contents

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		290	39
JPRED		213	33	method/jpred.html
PHD		278	39	method/phd.html
PHDpsi		278	39	method/phdpsi.html
PROF1		270	37	method/prof1.html
PSIpred		271	38	method/psipred.html
PSSP		222	29	method/pssp.html
SAM-T99sec		154	26	method/samt99_sec.html
SSpro		252	35	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: 113 proteins and 8 methods (HTML - ASCII)
set 2: 184 proteins and 7 methods (HTML - ASCII)
set 3: 206 proteins and 6 methods (HTML - ASCII)
set 4: 269 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	113	dssp	1	PROF1	77.3	+/-0.8	73.8	+/-1.4	54.8	+/-1.4	75.2	+/-1.4	75.4	+/-1.4	57.5	+/-1.4	74.9	+/-1.4	72.6	+/-1.4	75.0	+/-1.4	69.6	+/-1.4	68.5	+/-1.4	2.1	+/-1.4	0.37	+/-1.41	0.67	+/-1.41	0.62	+/-1.41	0.56	+/-1.41	82.3	+/-1.4	5.6	+/-1.4	3.9	+/-1.4
				PSIpred	77.3	+/-0.9	75.2	+/-1.4	53.4	+/-1.4	76.5	+/-1.4	74.1	+/-1.4	57.1	+/-1.4	74.6	+/-1.4	73.1	+/-1.4	77.9	+/-1.4	67.5	+/-1.4	69.9	+/-1.4	2.4	+/-1.4	0.38	+/-1.41	0.67	+/-1.41	0.61	+/-1.41	0.56	+/-1.41	85.0	+/-1.4	5.2	+/-1.4	4.4	+/-1.4
				SAM-T99sec	76.5	+/-0.9	77.2	+/-1.4	49.8	+/-1.4	71.8	+/-1.4	72.1	+/-1.4	60.3	+/-1.4	74.9	+/-1.4	71.8	+/-1.4	77.2	+/-1.4	65.9	+/-1.4	65.7	+/-1.4	1.9	+/-1.4	0.36	+/-1.41	0.67	+/-1.41	0.62	+/-1.41	0.54	+/-1.41	80.5	+/-1.4	6.2	+/-1.4	4.8	+/-1.4
				SSpro	76.4	+/-0.9	76.4	+/-1.4	48.4	+/-1.4	76.7	+/-1.4	73.7	+/-1.4	58.1	+/-1.4	74.3	+/-1.4	70.6	+/-1.4	77.1	+/-1.4	65.1	+/-1.4	67.8	+/-1.4	2.4	+/-1.4	0.36	+/-1.41	0.69	+/-1.41	0.61	+/-1.41	0.55	+/-1.41	78.8	+/-1.4	6.0	+/-1.4	5.6	+/-1.4
common 1	113	dssp	2	JPRED	75.6	+/-0.8	66.5	+/-1.4	44.2	+/-1.4	81.9	+/-1.4	74.2	+/-1.4	59.9	+/-1.4	68.5	+/-1.4	68.7	+/-1.4	69.5	+/-1.4	62.8	+/-1.4	67.2	+/-1.4	1.8	+/-1.4	0.34	+/-1.41	0.67	+/-1.41	0.60	+/-1.41	0.53	+/-1.41	78.8	+/-1.4	6.5	+/-1.4	5.8	+/-1.4
				PHDpsi	74.7	+/-0.8	71.5	+/-1.4	50.4	+/-1.4	73.1	+/-1.4	71.1	+/-1.4	55.4	+/-1.4	72.3	+/-1.4	69.1	+/-1.4	72.5	+/-1.4	65.2	+/-1.4	64.8	+/-1.4	2.9	+/-1.4	0.25	+/-1.41	0.64	+/-1.41	0.58	+/-1.41	0.52	+/-1.41	80.5	+/-1.4	6.2	+/-1.4	4.9	+/-1.4
common 1	113	dssp	3	PHD	72.0	+/-0.9	69.9	+/-1.4	50.7	+/-1.4	69.6	+/-1.4	68.9	+/-1.4	51.6	+/-1.4	71.2	+/-1.4	68.1	+/-1.4	71.5	+/-1.4	64.3	+/-1.4	63.4	+/-1.4	3.8	+/-1.4	0.21	+/-1.41	0.60	+/-1.41	0.57	+/-1.41	0.49	+/-1.41	77.9	+/-1.4	7.6	+/-1.4	5.9	+/-1.4
common 1	113	dssp	4	PSSP	63.8	+/-1.0	58.2	+/-1.4	47.1	+/-1.4	64.8	+/-1.4	63.6	+/-1.4	42.8	+/-1.4	63.9	+/-1.4	58.6	+/-1.4	59.1	+/-1.4	60.4	+/-1.4	57.0	+/-1.4	6.3	+/-1.4	0.19	+/-1.41	0.47	+/-1.41	0.45	+/-1.41	0.38	+/-1.41	71.7	+/-1.4	9.3	+/-1.4	7.7	+/-1.4

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 2			Sorted alphabetically for identical ranks!		MORE SCORES
common 2	184	dssp	1	PROF1	77.3	+/-0.6	72.2	+/-2.0	54.6	+/-2.3	75.6	+/-1.0	74.8	+/-2.0	56.5	+/-2.4	74.8	+/-0.8	73.0	+/-0.9	73.8	+/-1.8	72.3	+/-1.9	69.3	+/-1.1	2.1	+/-0.2	0.37	+/-0.01	0.67	+/-0.01	0.65	+/-0.02	0.56	+/-0.01	81.0	+/-2.9	5.7	+/-0.5	4.1	+/-0.3
				PSIpred	77.1	+/-0.7	73.8	+/-2.0	53.5	+/-2.4	76.7	+/-0.9	74.9	+/-2.0	56.0	+/-2.5	74.3	+/-1.0	72.6	+/-1.1	76.3	+/-1.8	70.5	+/-2.0	69.7	+/-1.1	2.2	+/-0.2	0.38	+/-0.01	0.67	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	81.0	+/-2.9	5.3	+/-0.5	4.4	+/-0.4
				SSpro	76.7	+/-0.7	74.6	+/-1.9	49.7	+/-2.2	76.7	+/-0.9	73.5	+/-2.0	57.4	+/-2.5	74.4	+/-0.9	71.6	+/-1.1	75.6	+/-1.7	69.0	+/-1.9	68.6	+/-1.2	2.4	+/-0.2	0.36	+/-0.01	0.68	+/-0.01	0.64	+/-0.02	0.56	+/-0.01	79.9	+/-3.0	5.9	+/-0.5	5.0	+/-0.4
common 2	184	dssp	2	JPRED	75.0	+/-0.7	64.5	+/-2.1	44.5	+/-2.1	82.5	+/-0.9	74.0	+/-2.2	58.7	+/-2.6	68.5	+/-0.9	69.1	+/-1.1	68.4	+/-2.0	66.0	+/-2.1	68.4	+/-1.2	2.4	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	74.5	+/-3.2	7.5	+/-0.6	5.8	+/-0.4
common 2	184	dssp	3	PHDpsi	74.9	+/-0.7	70.2	+/-2.0	50.3	+/-2.3	73.3	+/-1.1	71.4	+/-2.0	54.5	+/-2.4	72.7	+/-0.8	69.4	+/-1.0	71.2	+/-1.8	67.9	+/-2.0	65.7	+/-1.2	3.0	+/-0.3	0.28	+/-0.05	0.64	+/-0.02	0.60	+/-0.02	0.52	+/-0.01	77.7	+/-3.1	6.3	+/-0.6	5.1	+/-0.4
common 2	184	dssp	4	PHD	72.0	+/-0.7	68.1	+/-2.1	49.7	+/-2.1	69.9	+/-1.1	68.1	+/-2.1	50.8	+/-2.3	71.5	+/-0.9	67.9	+/-1.0	69.7	+/-1.9	66.5	+/-1.9	63.7	+/-1.2	4.1	+/-0.3	0.24	+/-0.05	0.59	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	76.1	+/-3.2	7.6	+/-0.6	5.9	+/-0.5
common 2	184	dssp	5	PSSP	63.8	+/-0.8	57.5	+/-1.8	45.4	+/-2.0	65.5	+/-0.9	63.3	+/-2.1	42.2	+/-2.0	63.8	+/-1.0	58.9	+/-0.9	58.9	+/-1.8	62.0	+/-1.9	58.1	+/-1.1	6.6	+/-0.4	0.19	+/-0.01	0.45	+/-0.02	0.47	+/-0.02	0.38	+/-0.01	69.6	+/-3.4	9.8	+/-0.7	7.5	+/-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	206	dssp	1	PROF1	76.9	+/-0.6	72.3	+/-1.8	54.5	+/-2.2	75.6	+/-0.9	75.1	+/-1.8	56.4	+/-2.2	74.6	+/-0.8	72.9	+/-0.9	73.7	+/-1.6	72.1	+/-1.8	69.3	+/-1.0	2.2	+/-0.2	0.37	+/-0.01	0.66	+/-0.01	0.65	+/-0.02	0.56	+/-0.01	82.0	+/-2.7	5.6	+/-0.5	4.0	+/-0.3
				PSIpred	76.6	+/-0.7	73.7	+/-1.8	53.6	+/-2.2	76.3	+/-0.8	74.6	+/-1.9	55.8	+/-2.3	74.3	+/-0.9	72.4	+/-1.0	75.9	+/-1.7	70.5	+/-1.9	69.6	+/-1.0	2.5	+/-0.3	0.37	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	80.1	+/-2.8	5.4	+/-0.5	4.4	+/-0.4
				SSpro	76.1	+/-0.7	73.9	+/-1.8	50.3	+/-2.0	76.7	+/-0.8	73.8	+/-1.8	57.5	+/-2.3	74.0	+/-0.8	71.3	+/-1.0	74.9	+/-1.6	69.2	+/-1.8	68.6	+/-1.1	2.6	+/-0.2	0.36	+/-0.01	0.67	+/-0.01	0.64	+/-0.02	0.55	+/-0.01	81.6	+/-2.7	6.2	+/-0.5	5.2	+/-0.4
common 3	206	dssp	2	JPRED	74.9	+/-0.6	64.5	+/-1.9	45.1	+/-2.0	82.8	+/-0.8	74.5	+/-2.0	59.9	+/-2.4	68.6	+/-0.8	69.6	+/-1.0	68.7	+/-1.8	66.6	+/-1.9	69.1	+/-1.1	2.5	+/-0.3	0.34	+/-0.01	0.64	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	76.7	+/-3.0	7.6	+/-0.5	5.8	+/-0.4
common 3	206	dssp	3	PHDpsi	74.8	+/-0.6	70.9	+/-1.8	51.0	+/-2.1	73.3	+/-1.0	72.2	+/-1.9	55.0	+/-2.2	72.8	+/-0.7	69.8	+/-0.9	71.8	+/-1.7	68.7	+/-1.8	66.1	+/-1.1	3.0	+/-0.3	0.29	+/-0.04	0.64	+/-0.01	0.61	+/-0.02	0.53	+/-0.01	79.6	+/-2.8	6.2	+/-0.5	5.0	+/-0.4
common 3	206	dssp	4	PHD	71.5	+/-0.7	67.9	+/-1.9	50.1	+/-2.0	69.9	+/-1.0	68.3	+/-1.9	50.8	+/-2.1	71.3	+/-0.9	67.6	+/-0.9	69.2	+/-1.7	66.8	+/-1.8	63.8	+/-1.1	4.2	+/-0.3	0.25	+/-0.04	0.58	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	77.2	+/-2.9	7.7	+/-0.6	5.9	+/-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	269	dssp	1	PROF1	77.1	+/-0.6	72.6	+/-1.6	53.4	+/-1.9	75.4	+/-0.8	75.5	+/-1.6	55.1	+/-2.0	74.3	+/-0.8	73.1	+/-0.8	75.5	+/-1.4	72.6	+/-1.6	69.0	+/-0.9	2.3	+/-0.2	0.37	+/-0.01	0.67	+/-0.01	0.66	+/-0.01	0.56	+/-0.01	81.0	+/-2.4	5.8	+/-0.4	4.3	+/-0.3
				PSIpred	76.7	+/-0.6	74.0	+/-1.6	52.2	+/-2.0	76.0	+/-0.8	75.0	+/-1.7	54.9	+/-2.1	73.6	+/-0.9	72.2	+/-0.9	76.8	+/-1.4	71.2	+/-1.6	69.2	+/-0.9	2.4	+/-0.2	0.37	+/-0.01	0.66	+/-0.01	0.65	+/-0.02	0.55	+/-0.01	79.2	+/-2.5	5.8	+/-0.5	4.4	+/-0.3
common 4	269	dssp	2	PHDpsi	74.8	+/-0.6	71.3	+/-1.6	49.2	+/-1.9	72.8	+/-0.9	72.6	+/-1.6	53.2	+/-2.0	71.9	+/-0.8	70.2	+/-0.8	73.7	+/-1.4	68.4	+/-1.6	65.3	+/-1.0	2.9	+/-0.2	0.29	+/-0.03	0.64	+/-0.01	0.62	+/-0.02	0.52	+/-0.01	77.7	+/-2.5	6.5	+/-0.5	5.0	+/-0.4
common 4	269	dssp	3	PHD	72.1	+/-0.6	69.0	+/-1.7	48.5	+/-1.8	69.3	+/-1.0	69.3	+/-1.7	49.9	+/-1.9	70.8	+/-0.9	68.2	+/-0.8	71.2	+/-1.5	67.0	+/-1.6	63.2	+/-1.0	3.8	+/-0.2	0.26	+/-0.03	0.59	+/-0.01	0.60	+/-0.02	0.48	+/-0.01	76.2	+/-2.6	7.8	+/-0.5	5.6	+/-0.4

All results

Last update: Feb 8, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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