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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		287	39
JPRED		208	32	method/jpred.html
PHD		277	39	method/phd.html
PHDpsi		277	39	method/phdpsi.html
PROF		273	37	method/prof.html
PSIpred		270	38	method/psipred.html
PSSP		221	29	method/pssp.html
SAM-T99sec		149	26	method/samt99_sec.html
SSpro		251	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: 110 proteins and 8 methods
set 2: 180 proteins and 7 methods
set 3: 202 proteins and 6 methods
set 4: 269 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	110	dssp	1	PROF	76.2	+/-0.9	70.9	+/-1.4	56.4	+/-1.4	74.3	+/-1.4	74.9	+/-1.4	56.6	+/-1.4	73.9	+/-1.4	71.4	+/-1.4	73.3	+/-1.4	70.8	+/-1.4	67.7	+/-1.4	2.4	+/-1.4	0.35	+/-1.43	0.66	+/-1.43	0.62	+/-1.43	0.54	+/-1.43	82.7	+/-1.4	6.5	+/-1.4	4.5	+/-1.4
				PSIpred	77.6	+/-0.9	75.0	+/-1.4	53.5	+/-1.4	76.8	+/-1.4	73.4	+/-1.4	57.5	+/-1.4	74.9	+/-1.4	73.5	+/-1.4	78.9	+/-1.4	67.8	+/-1.4	70.3	+/-1.4	2.2	+/-1.4	0.38	+/-1.43	0.68	+/-1.43	0.61	+/-1.43	0.57	+/-1.43	85.5	+/-1.4	5.1	+/-1.4	4.4	+/-1.4
				SAM-T99sec	76.8	+/-0.9	76.9	+/-1.4	49.8	+/-1.4	72.1	+/-1.4	71.7	+/-1.4	60.9	+/-1.4	75.0	+/-1.4	72.2	+/-1.4	77.7	+/-1.4	66.4	+/-1.4	66.3	+/-1.4	1.8	+/-1.4	0.36	+/-1.43	0.68	+/-1.43	0.63	+/-1.43	0.54	+/-1.43	80.9	+/-1.4	6.0	+/-1.4	5.0	+/-1.4
				SSpro	76.6	+/-1.0	75.5	+/-1.4	48.9	+/-1.4	77.0	+/-1.4	73.0	+/-1.4	58.5	+/-1.4	74.4	+/-1.4	70.8	+/-1.4	77.6	+/-1.4	65.8	+/-1.4	68.2	+/-1.4	2.3	+/-1.4	0.36	+/-1.43	0.69	+/-1.43	0.62	+/-1.43	0.55	+/-1.43	80.0	+/-1.4	5.8	+/-1.4	5.6	+/-1.4
common 1	110	dssp	2	JPRED	75.8	+/-0.9	66.2	+/-1.4	44.3	+/-1.4	82.1	+/-1.4	73.4	+/-1.4	60.2	+/-1.4	68.6	+/-1.4	68.8	+/-1.4	69.9	+/-1.4	63.1	+/-1.4	67.4	+/-1.4	1.7	+/-1.4	0.34	+/-1.43	0.68	+/-1.43	0.60	+/-1.43	0.53	+/-1.43	79.1	+/-1.4	6.4	+/-1.4	5.8	+/-1.4
				PHDpsi	75.1	+/-0.8	71.2	+/-1.4	50.7	+/-1.4	73.5	+/-1.4	70.4	+/-1.4	56.0	+/-1.4	72.4	+/-1.4	69.4	+/-1.4	73.1	+/-1.4	65.7	+/-1.4	65.2	+/-1.4	2.7	+/-1.4	0.25	+/-1.43	0.65	+/-1.43	0.59	+/-1.43	0.52	+/-1.43	81.8	+/-1.4	6.1	+/-1.4	4.9	+/-1.4
common 1	110	dssp	3	PHD	72.4	+/-0.9	69.5	+/-1.4	51.0	+/-1.4	70.2	+/-1.4	68.7	+/-1.4	51.9	+/-1.4	71.3	+/-1.4	68.3	+/-1.4	72.2	+/-1.4	65.0	+/-1.4	63.5	+/-1.4	3.6	+/-1.4	0.22	+/-1.43	0.61	+/-1.43	0.57	+/-1.43	0.49	+/-1.43	77.3	+/-1.4	7.6	+/-1.4	6.0	+/-1.4
common 1	110	dssp	4	PSSP	63.9	+/-1.0	57.4	+/-1.4	47.0	+/-1.4	65.0	+/-1.4	62.8	+/-1.4	43.0	+/-1.4	63.9	+/-1.4	58.8	+/-1.4	59.3	+/-1.4	60.8	+/-1.4	57.6	+/-1.4	6.3	+/-1.4	0.19	+/-1.43	0.47	+/-1.43	0.46	+/-1.43	0.38	+/-1.43	70.9	+/-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	180	dssp	1	PROF	76.3	+/-0.7	70.6	+/-2.1	55.5	+/-2.3	74.5	+/-1.0	74.0	+/-2.1	55.4	+/-2.4	74.0	+/-0.9	72.0	+/-1.0	73.2	+/-1.9	72.8	+/-1.8	68.3	+/-1.2	2.4	+/-0.2	0.35	+/-0.01	0.67	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	83.3	+/-2.8	6.0	+/-0.5	4.9	+/-0.4
				PSIpred	77.3	+/-0.7	73.7	+/-2.0	53.4	+/-2.4	76.8	+/-0.9	74.4	+/-2.1	56.2	+/-2.5	74.5	+/-1.0	72.9	+/-1.1	77.0	+/-1.8	70.6	+/-2.0	69.8	+/-1.1	2.1	+/-0.2	0.38	+/-0.01	0.67	+/-0.02	0.65	+/-0.02	0.56	+/-0.01	81.7	+/-2.9	5.3	+/-0.5	4.4	+/-0.4
				SSpro	76.8	+/-0.7	74.2	+/-2.0	50.0	+/-2.2	76.9	+/-0.9	72.9	+/-2.0	57.7	+/-2.5	74.5	+/-0.9	71.7	+/-1.1	76.1	+/-1.7	69.5	+/-1.9	68.7	+/-1.2	2.4	+/-0.2	0.36	+/-0.01	0.68	+/-0.01	0.64	+/-0.02	0.56	+/-0.01	81.1	+/-2.9	5.8	+/-0.5	5.0	+/-0.4
common 2	180	dssp	2	JPRED	75.3	+/-0.7	64.5	+/-2.2	44.6	+/-2.1	82.6	+/-0.9	73.6	+/-2.3	59.1	+/-2.6	68.7	+/-0.9	69.3	+/-1.1	68.9	+/-2.0	66.5	+/-2.1	68.6	+/-1.2	2.3	+/-0.3	0.34	+/-0.01	0.66	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	75.0	+/-3.2	7.5	+/-0.6	5.8	+/-0.4
				PHDpsi	75.2	+/-0.7	70.3	+/-2.1	50.5	+/-2.3	73.5	+/-1.1	71.0	+/-2.1	55.0	+/-2.4	72.9	+/-0.8	69.7	+/-1.0	71.8	+/-1.9	68.5	+/-1.9	66.0	+/-1.2	2.9	+/-0.3	0.28	+/-0.05	0.65	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	78.9	+/-3.1	6.1	+/-0.6	5.0	+/-0.4
common 2	180	dssp	3	PHD	72.3	+/-0.7	68.1	+/-2.2	49.8	+/-2.2	70.2	+/-1.1	67.9	+/-2.1	51.1	+/-2.3	71.7	+/-1.0	68.1	+/-1.0	70.2	+/-1.9	67.1	+/-1.9	63.8	+/-1.2	3.9	+/-0.3	0.25	+/-0.05	0.60	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	76.1	+/-3.2	7.5	+/-0.6	5.9	+/-0.5
common 2	180	dssp	4	PSSP	63.8	+/-0.8	57.0	+/-1.9	45.0	+/-2.0	65.7	+/-0.9	62.6	+/-2.2	42.3	+/-2.0	63.9	+/-1.0	58.9	+/-1.0	58.9	+/-1.8	62.2	+/-1.9	58.5	+/-1.1	6.6	+/-0.4	0.19	+/-0.01	0.45	+/-0.02	0.48	+/-0.02	0.38	+/-0.01	70.0	+/-3.4	10.0	+/-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	202	dssp	1	PROF	76.1	+/-0.6	70.8	+/-1.9	56.1	+/-2.2	74.6	+/-0.9	74.5	+/-1.9	55.7	+/-2.2	74.1	+/-0.8	72.2	+/-0.9	73.1	+/-1.7	73.4	+/-1.6	68.8	+/-1.1	2.5	+/-0.2	0.35	+/-0.01	0.66	+/-0.01	0.64	+/-0.02	0.55	+/-0.01	82.2	+/-2.7	6.0	+/-0.5	4.8	+/-0.4
				PSIpred	76.7	+/-0.7	73.5	+/-1.9	53.5	+/-2.2	76.5	+/-0.8	74.2	+/-1.9	56.0	+/-2.3	74.4	+/-0.9	72.6	+/-1.0	76.5	+/-1.7	70.6	+/-1.9	69.8	+/-1.0	2.4	+/-0.3	0.37	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	80.7	+/-2.8	5.4	+/-0.5	4.4	+/-0.4
				SSpro	76.2	+/-0.7	73.5	+/-1.8	50.5	+/-2.1	76.9	+/-0.9	73.3	+/-1.9	57.7	+/-2.3	74.1	+/-0.8	71.4	+/-1.0	75.3	+/-1.6	69.7	+/-1.8	68.7	+/-1.1	2.6	+/-0.2	0.36	+/-0.01	0.67	+/-0.01	0.64	+/-0.02	0.56	+/-0.01	82.7	+/-2.7	6.0	+/-0.5	5.1	+/-0.4
common 3	202	dssp	2	JPRED	75.2	+/-0.6	64.5	+/-2.0	45.2	+/-2.0	83.0	+/-0.8	74.2	+/-2.1	60.2	+/-2.5	68.8	+/-0.9	69.7	+/-1.1	69.1	+/-1.9	67.1	+/-1.9	69.3	+/-1.1	2.3	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	77.2	+/-3.0	7.5	+/-0.5	5.8	+/-0.4
				PHDpsi	75.1	+/-0.6	71.0	+/-1.9	51.2	+/-2.1	73.6	+/-1.0	71.8	+/-1.9	55.4	+/-2.2	73.0	+/-0.7	70.0	+/-0.9	72.3	+/-1.7	69.2	+/-1.8	66.3	+/-1.2	2.9	+/-0.3	0.29	+/-0.04	0.65	+/-0.01	0.61	+/-0.02	0.53	+/-0.01	80.7	+/-2.8	6.0	+/-0.5	4.9	+/-0.4
common 3	202	dssp	3	PHD	71.8	+/-0.7	67.8	+/-2.0	50.3	+/-2.0	70.2	+/-1.1	68.1	+/-1.9	51.0	+/-2.1	71.5	+/-0.9	67.8	+/-1.0	69.7	+/-1.8	67.4	+/-1.8	63.9	+/-1.1	4.1	+/-0.3	0.25	+/-0.04	0.59	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	77.2	+/-3.0	7.6	+/-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	PROF	76.5	+/-0.6	71.6	+/-1.7	55.2	+/-1.9	74.3	+/-0.8	75.4	+/-1.6	54.6	+/-2.0	73.9	+/-0.8	72.9	+/-0.8	75.1	+/-1.4	73.7	+/-1.5	68.6	+/-1.0	2.4	+/-0.2	0.35	+/-0.01	0.67	+/-0.01	0.66	+/-0.01	0.55	+/-0.01	81.0	+/-2.4	6.2	+/-0.5	4.7	+/-0.3
				PSIpred	76.9	+/-0.6	74.1	+/-1.6	52.7	+/-2.0	76.2	+/-0.8	74.8	+/-1.7	55.4	+/-2.1	73.8	+/-0.9	72.6	+/-0.9	77.5	+/-1.4	71.5	+/-1.6	69.6	+/-0.9	2.3	+/-0.2	0.38	+/-0.01	0.67	+/-0.01	0.65	+/-0.02	0.56	+/-0.01	78.4	+/-2.5	5.7	+/-0.5	4.3	+/-0.3
common 4	269	dssp	2	PHDpsi	75.1	+/-0.6	71.4	+/-1.6	49.7	+/-1.9	73.1	+/-0.9	72.6	+/-1.7	53.9	+/-2.0	72.1	+/-0.8	70.5	+/-0.8	74.3	+/-1.4	69.0	+/-1.6	65.7	+/-1.0	2.7	+/-0.2	0.30	+/-0.03	0.65	+/-0.01	0.62	+/-0.02	0.52	+/-0.01	78.8	+/-2.5	6.3	+/-0.5	4.9	+/-0.4
common 4	269	dssp	3	PHD	72.4	+/-0.6	69.2	+/-1.7	49.0	+/-1.8	69.7	+/-1.0	69.3	+/-1.7	50.5	+/-1.9	71.0	+/-0.9	68.6	+/-0.8	71.9	+/-1.5	67.7	+/-1.6	63.5	+/-1.0	3.7	+/-0.2	0.26	+/-0.03	0.60	+/-0.01	0.60	+/-0.02	0.49	+/-0.01	76.6	+/-2.6	7.7	+/-0.5	5.5	+/-0.4

All results

Last update: Jan 31, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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