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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		284	38
JPRED		206	31	method/jpred.html
PHD		274	38	method/phd.html
PHDpsi		274	38	method/phdpsi.html
PROF		270	36	method/prof.html
PSIpred		267	37	method/psipred.html
PSSP		218	28	method/pssp.html
SAM-T99sec		145	25	method/samt99_sec.html
SSpro		248	34	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: 109 proteins and 8 methods
set 2: 178 proteins and 7 methods
set 3: 200 proteins and 6 methods
set 4: 266 proteins and 4 methods

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	109	dssp	1	PROF	76.3	+/-0.9	71.5	+/-1.4	56.3	+/-1.4	74.4	+/-1.4	75.6	+/-1.4	56.4	+/-1.4	74.0	+/-1.4	71.5	+/-1.4	73.1	+/-1.4	70.9	+/-1.4	67.8	+/-1.4	2.4	+/-1.4	0.35	+/-1.44	0.66	+/-1.44	0.62	+/-1.44	0.55	+/-1.44	82.6	+/-1.4	6.5	+/-1.4	4.5	+/-1.4
				PSIpred	77.6	+/-0.9	75.7	+/-1.4	53.4	+/-1.4	76.8	+/-1.4	74.1	+/-1.4	57.2	+/-1.4	75.0	+/-1.4	73.5	+/-1.4	78.7	+/-1.4	67.8	+/-1.4	70.2	+/-1.4	2.2	+/-1.4	0.38	+/-1.44	0.68	+/-1.44	0.61	+/-1.44	0.57	+/-1.44	86.2	+/-1.4	5.1	+/-1.4	4.3	+/-1.4
				SAM-T99sec	76.9	+/-0.9	77.6	+/-1.4	49.7	+/-1.4	72.0	+/-1.4	72.3	+/-1.4	60.7	+/-1.4	75.2	+/-1.4	72.3	+/-1.4	77.5	+/-1.4	66.4	+/-1.4	66.3	+/-1.4	1.8	+/-1.4	0.36	+/-1.44	0.67	+/-1.44	0.63	+/-1.44	0.55	+/-1.44	81.7	+/-1.4	6.0	+/-1.4	4.9	+/-1.4
				SSpro	76.6	+/-1.0	76.2	+/-1.4	48.8	+/-1.4	77.0	+/-1.4	73.6	+/-1.4	58.3	+/-1.4	74.4	+/-1.4	70.8	+/-1.4	77.4	+/-1.4	65.9	+/-1.4	68.0	+/-1.4	2.3	+/-1.4	0.36	+/-1.44	0.69	+/-1.44	0.62	+/-1.44	0.55	+/-1.44	80.7	+/-1.4	5.9	+/-1.4	5.6	+/-1.4
common 1	109	dssp	2	JPRED	75.9	+/-0.9	66.8	+/-1.4	44.1	+/-1.4	82.0	+/-1.4	74.1	+/-1.4	59.9	+/-1.4	68.7	+/-1.4	68.8	+/-1.4	69.7	+/-1.4	63.2	+/-1.4	67.3	+/-1.4	1.7	+/-1.4	0.34	+/-1.44	0.68	+/-1.44	0.60	+/-1.44	0.53	+/-1.44	79.8	+/-1.4	6.5	+/-1.4	5.7	+/-1.4
				PHDpsi	75.2	+/-0.8	71.8	+/-1.4	50.6	+/-1.4	73.5	+/-1.4	71.1	+/-1.4	55.8	+/-1.4	72.5	+/-1.4	69.4	+/-1.4	72.9	+/-1.4	65.8	+/-1.4	65.2	+/-1.4	2.7	+/-1.4	0.25	+/-1.44	0.65	+/-1.44	0.59	+/-1.44	0.52	+/-1.44	81.7	+/-1.4	6.1	+/-1.4	4.9	+/-1.4
common 1	109	dssp	3	PHD	72.5	+/-0.9	70.2	+/-1.4	51.1	+/-1.4	70.1	+/-1.4	69.4	+/-1.4	51.7	+/-1.4	71.4	+/-1.4	68.4	+/-1.4	72.0	+/-1.4	65.2	+/-1.4	63.5	+/-1.4	3.6	+/-1.4	0.22	+/-1.44	0.61	+/-1.44	0.58	+/-1.44	0.49	+/-1.44	78.0	+/-1.4	7.7	+/-1.4	5.9	+/-1.4
common 1	109	dssp	4	PSSP	64.0	+/-1.0	58.0	+/-1.4	46.9	+/-1.4	65.0	+/-1.4	63.4	+/-1.4	42.7	+/-1.4	63.8	+/-1.4	58.7	+/-1.4	58.9	+/-1.4	60.8	+/-1.4	57.5	+/-1.4	6.2	+/-1.4	0.19	+/-1.44	0.47	+/-1.44	0.46	+/-1.44	0.38	+/-1.44	71.6	+/-1.4	9.5	+/-1.4	7.6	+/-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	178	dssp	1	PROF	76.4	+/-0.7	70.9	+/-2.1	55.3	+/-2.3	74.5	+/-1.0	74.3	+/-2.1	55.2	+/-2.4	74.1	+/-0.9	72.1	+/-1.0	72.9	+/-1.9	72.8	+/-1.8	68.3	+/-1.2	2.4	+/-0.2	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	83.1	+/-2.8	6.0	+/-0.6	4.9	+/-0.4
				PSIpred	77.3	+/-0.7	74.0	+/-2.0	53.2	+/-2.4	76.8	+/-0.9	74.7	+/-2.1	55.9	+/-2.5	74.5	+/-1.0	72.8	+/-1.1	76.8	+/-1.9	70.6	+/-2.0	69.7	+/-1.1	2.2	+/-0.2	0.38	+/-0.01	0.67	+/-0.02	0.65	+/-0.02	0.56	+/-0.01	82.0	+/-2.9	5.3	+/-0.5	4.4	+/-0.4
				SSpro	76.8	+/-0.7	74.5	+/-2.0	49.8	+/-2.2	76.8	+/-0.9	73.3	+/-2.0	57.4	+/-2.5	74.5	+/-0.9	71.8	+/-1.1	75.9	+/-1.8	69.5	+/-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	81.5	+/-2.9	5.8	+/-0.5	5.0	+/-0.4
common 2	178	dssp	2	JPRED	75.3	+/-0.7	64.8	+/-2.2	44.4	+/-2.2	82.6	+/-0.9	73.9	+/-2.3	58.9	+/-2.7	68.7	+/-0.9	69.2	+/-1.2	68.6	+/-2.0	66.4	+/-2.1	68.5	+/-1.2	2.3	+/-0.3	0.34	+/-0.01	0.66	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	75.3	+/-3.2	7.5	+/-0.6	5.8	+/-0.4
				PHDpsi	75.2	+/-0.7	70.6	+/-2.1	50.3	+/-2.3	73.5	+/-1.1	71.3	+/-2.1	54.7	+/-2.4	72.9	+/-0.8	69.7	+/-1.0	71.5	+/-1.9	68.5	+/-2.0	65.9	+/-1.3	2.9	+/-0.3	0.28	+/-0.05	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	78.7	+/-3.1	6.2	+/-0.6	5.0	+/-0.4
common 2	178	dssp	3	PHD	72.3	+/-0.8	68.4	+/-2.1	49.8	+/-2.2	70.1	+/-1.2	68.2	+/-2.1	50.9	+/-2.3	71.7	+/-1.0	68.1	+/-1.0	69.9	+/-1.9	67.1	+/-2.0	63.7	+/-1.2	3.9	+/-0.3	0.24	+/-0.05	0.60	+/-0.02	0.60	+/-0.02	0.49	+/-0.01	76.4	+/-3.2	7.6	+/-0.6	5.8	+/-0.5
common 2	178	dssp	4	PSSP	63.8	+/-0.8	57.3	+/-1.9	45.0	+/-2.0	65.7	+/-0.9	63.1	+/-2.2	42.1	+/-2.0	63.8	+/-1.0	58.9	+/-1.0	58.7	+/-1.8	62.3	+/-2.0	58.4	+/-1.1	6.6	+/-0.4	0.19	+/-0.01	0.45	+/-0.02	0.48	+/-0.02	0.38	+/-0.01	70.2	+/-3.4	9.9	+/-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	200	dssp	1	PROF	76.1	+/-0.6	71.1	+/-1.9	56.0	+/-2.2	74.6	+/-0.9	74.8	+/-1.9	55.5	+/-2.2	74.1	+/-0.8	72.2	+/-0.9	72.9	+/-1.7	73.4	+/-1.7	68.8	+/-1.1	2.6	+/-0.2	0.35	+/-0.01	0.66	+/-0.01	0.64	+/-0.02	0.55	+/-0.01	82.0	+/-2.7	6.0	+/-0.5	4.8	+/-0.4
				PSIpred	76.7	+/-0.7	73.8	+/-1.8	53.3	+/-2.2	76.5	+/-0.8	74.5	+/-1.9	55.8	+/-2.3	74.4	+/-0.9	72.6	+/-1.0	76.3	+/-1.7	70.5	+/-1.9	69.7	+/-1.0	2.5	+/-0.3	0.37	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	81.0	+/-2.8	5.4	+/-0.5	4.4	+/-0.4
				SSpro	76.2	+/-0.7	73.8	+/-1.8	50.3	+/-2.1	76.8	+/-0.9	73.6	+/-1.8	57.5	+/-2.3	74.1	+/-0.8	71.4	+/-1.0	75.1	+/-1.6	69.7	+/-1.8	68.6	+/-1.1	2.6	+/-0.2	0.36	+/-0.01	0.67	+/-0.01	0.64	+/-0.02	0.56	+/-0.01	83.0	+/-2.7	6.1	+/-0.5	5.1	+/-0.4
common 3	200	dssp	2	JPRED	75.1	+/-0.6	64.7	+/-2.0	45.0	+/-2.0	83.0	+/-0.8	74.5	+/-2.1	60.0	+/-2.5	68.7	+/-0.9	69.7	+/-1.1	68.9	+/-1.9	67.0	+/-1.9	69.2	+/-1.1	2.3	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	77.5	+/-3.0	7.6	+/-0.5	5.8	+/-0.4
				PHDpsi	75.1	+/-0.6	71.2	+/-1.9	51.0	+/-2.2	73.5	+/-1.0	72.1	+/-1.9	55.2	+/-2.3	73.0	+/-0.7	70.0	+/-0.9	72.1	+/-1.7	69.2	+/-1.8	66.3	+/-1.2	2.9	+/-0.3	0.29	+/-0.04	0.64	+/-0.01	0.62	+/-0.02	0.53	+/-0.01	80.5	+/-2.8	6.1	+/-0.6	4.9	+/-0.4
common 3	200	dssp	3	PHD	71.8	+/-0.7	68.1	+/-2.0	50.2	+/-2.1	70.1	+/-1.1	68.3	+/-1.9	50.8	+/-2.1	71.5	+/-0.9	67.8	+/-1.0	69.5	+/-1.8	67.4	+/-1.8	63.8	+/-1.1	4.1	+/-0.3	0.25	+/-0.04	0.59	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	77.5	+/-3.0	7.7	+/-0.6	5.8	+/-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	266	dssp	1	PROF	76.5	+/-0.6	71.7	+/-1.6	55.0	+/-1.9	74.2	+/-0.8	75.5	+/-1.6	54.4	+/-2.0	73.9	+/-0.8	72.9	+/-0.8	74.9	+/-1.4	73.7	+/-1.5	68.5	+/-1.0	2.5	+/-0.2	0.35	+/-0.01	0.67	+/-0.01	0.66	+/-0.01	0.55	+/-0.01	81.2	+/-2.4	6.2	+/-0.5	4.7	+/-0.3
				PSIpred	76.9	+/-0.6	74.3	+/-1.6	52.4	+/-2.0	76.2	+/-0.8	75.0	+/-1.7	55.2	+/-2.1	73.8	+/-0.9	72.4	+/-0.9	77.3	+/-1.4	71.4	+/-1.6	69.4	+/-0.9	2.4	+/-0.2	0.38	+/-0.01	0.67	+/-0.01	0.65	+/-0.02	0.56	+/-0.01	78.9	+/-2.5	5.8	+/-0.5	4.3	+/-0.3
common 4	266	dssp	2	PHDpsi	75.1	+/-0.6	71.6	+/-1.6	49.4	+/-1.9	73.0	+/-0.9	72.7	+/-1.7	53.7	+/-2.0	72.1	+/-0.8	70.4	+/-0.8	74.1	+/-1.4	68.8	+/-1.6	65.5	+/-1.0	2.8	+/-0.2	0.30	+/-0.03	0.65	+/-0.01	0.62	+/-0.02	0.52	+/-0.01	78.6	+/-2.5	6.4	+/-0.5	4.9	+/-0.4
common 4	266	dssp	3	PHD	72.4	+/-0.6	69.3	+/-1.7	48.8	+/-1.8	69.5	+/-1.0	69.5	+/-1.7	50.2	+/-1.9	70.9	+/-0.9	68.5	+/-0.8	71.7	+/-1.5	67.6	+/-1.6	63.3	+/-1.0	3.7	+/-0.2	0.26	+/-0.03	0.59	+/-0.01	0.61	+/-0.02	0.48	+/-0.01	76.7	+/-2.6	7.7	+/-0.5	5.5	+/-0.4

All results

Last update: Jan 24, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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