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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		202	30
JPRED		158	25	method/jpred.html
PHD		202	30	method/phd.html
PHDpsi		202	30	method/phdpsi.html
PROF		198	28	method/prof.html
PSIpred		199	29	method/psipred.html
PSSP		146	20	method/pssp.html
SAM-T99sec		69	13	method/samt99_sec.html
SSpro		176	26	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: 61 proteins and 8 methods
set 2: 133 proteins and 7 methods
set 3: 155 proteins and 6 methods
set 4: 198 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	61	dssp	1	PROF	77.0	+/-1.0	72.2	+/-1.9	59.8	+/-1.9	76.9	+/-1.9	78.5	+/-1.9	64.1	+/-1.9	72.8	+/-1.9	72.5	+/-1.9	73.6	+/-1.9	70.6	+/-1.9	69.0	+/-1.9	2.4	+/-1.9	0.37	+/-1.92	0.67	+/-1.92	0.64	+/-1.92	0.56	+/-1.92	83.6	+/-1.9	6.2	+/-1.9	4.2	+/-1.9
				PSIpred	77.5	+/-1.3	76.1	+/-1.9	56.2	+/-1.9	78.2	+/-1.9	75.3	+/-1.9	64.2	+/-1.9	74.0	+/-1.9	74.0	+/-1.9	79.2	+/-1.9	66.4	+/-1.9	71.2	+/-1.9	3.0	+/-1.9	0.39	+/-1.92	0.68	+/-1.92	0.60	+/-1.92	0.58	+/-1.92	88.5	+/-1.9	5.0	+/-1.9	4.3	+/-1.9
				SAM-T99sec	77.2	+/-1.1	77.3	+/-1.9	52.0	+/-1.9	75.3	+/-1.9	76.1	+/-1.9	69.7	+/-1.9	70.8	+/-1.9	73.1	+/-1.9	77.6	+/-1.9	64.1	+/-1.9	68.4	+/-1.9	1.8	+/-1.9	0.37	+/-1.92	0.68	+/-1.92	0.61	+/-1.92	0.55	+/-1.92	78.7	+/-1.9	4.5	+/-1.9	5.7	+/-1.9
				SSpro	76.7	+/-1.1	77.2	+/-1.9	51.0	+/-1.9	78.8	+/-1.9	75.2	+/-1.9	65.8	+/-1.9	72.2	+/-1.9	70.6	+/-1.9	77.0	+/-1.9	63.8	+/-1.9	68.2	+/-1.9	2.3	+/-1.9	0.37	+/-1.92	0.69	+/-1.92	0.62	+/-1.92	0.55	+/-1.92	83.6	+/-1.9	5.1	+/-1.9	5.9	+/-1.9
common 1	61	dssp	2	JPRED	75.4	+/-1.1	68.3	+/-1.9	45.1	+/-1.9	83.6	+/-1.9	76.6	+/-1.9	67.7	+/-1.9	67.1	+/-1.9	68.2	+/-1.9	70.9	+/-1.9	60.5	+/-1.9	67.1	+/-1.9	2.0	+/-1.9	0.35	+/-1.92	0.67	+/-1.92	0.57	+/-1.92	0.53	+/-1.92	82.0	+/-1.9	6.3	+/-1.9	6.7	+/-1.9
				PHDpsi	76.0	+/-1.0	72.9	+/-1.9	55.7	+/-1.9	75.6	+/-1.9	75.3	+/-1.9	63.0	+/-1.9	71.7	+/-1.9	71.9	+/-1.9	75.2	+/-1.9	66.8	+/-1.9	67.3	+/-1.9	2.6	+/-1.9	0.35	+/-1.92	0.66	+/-1.92	0.60	+/-1.92	0.54	+/-1.92	83.6	+/-1.9	5.5	+/-1.9	5.0	+/-1.9
common 1	61	dssp	3	PHD	72.8	+/-1.2	69.9	+/-1.9	55.9	+/-1.9	72.0	+/-1.9	73.9	+/-1.9	57.0	+/-1.9	70.1	+/-1.9	69.6	+/-1.9	72.5	+/-1.9	66.3	+/-1.9	65.5	+/-1.9	3.7	+/-1.9	0.30	+/-1.92	0.61	+/-1.92	0.58	+/-1.92	0.51	+/-1.92	82.0	+/-1.9	7.1	+/-1.9	5.8	+/-1.9
common 1	61	dssp	4	PSSP	64.1	+/-1.0	58.6	+/-1.9	52.0	+/-1.9	67.2	+/-1.9	68.1	+/-1.9	48.0	+/-1.9	62.4	+/-1.9	60.6	+/-1.9	60.7	+/-1.9	60.5	+/-1.9	60.2	+/-1.9	6.4	+/-1.9	0.20	+/-1.92	0.48	+/-1.92	0.45	+/-1.92	0.39	+/-1.92	77.0	+/-1.9	9.0	+/-1.9	8.0	+/-1.9

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	133	dssp	1	PROF	75.9	+/-0.8	70.9	+/-2.4	56.7	+/-2.6	74.4	+/-1.2	73.9	+/-2.4	56.7	+/-2.7	74.7	+/-1.0	71.2	+/-1.2	72.9	+/-2.2	72.1	+/-2.0	67.5	+/-1.4	2.5	+/-0.3	0.35	+/-0.01	0.67	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	83.5	+/-3.2	6.3	+/-0.7	5.0	+/-0.5
				PSIpred	76.6	+/-0.9	72.3	+/-2.4	54.1	+/-2.7	76.7	+/-1.1	73.2	+/-2.6	56.9	+/-2.8	74.7	+/-1.0	72.2	+/-1.3	76.0	+/-2.3	69.2	+/-2.3	69.4	+/-1.3	2.4	+/-0.3	0.37	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	79.7	+/-3.5	5.4	+/-0.6	4.8	+/-0.5
				SSpro	76.4	+/-0.8	74.4	+/-2.3	50.9	+/-2.4	77.2	+/-1.1	72.2	+/-2.3	59.4	+/-2.8	74.8	+/-0.9	71.4	+/-1.3	75.5	+/-2.0	68.7	+/-2.1	69.0	+/-1.3	2.5	+/-0.2	0.36	+/-0.01	0.68	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	80.5	+/-3.5	6.0	+/-0.7	5.1	+/-0.5
common 2	133	dssp	2	PHDpsi	74.9	+/-0.8	70.5	+/-2.4	51.5	+/-2.6	73.6	+/-1.3	71.8	+/-2.4	56.0	+/-2.8	73.4	+/-0.9	70.0	+/-1.2	72.8	+/-2.1	68.0	+/-2.2	66.0	+/-1.5	3.0	+/-0.3	0.27	+/-0.06	0.65	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	78.2	+/-3.6	6.3	+/-0.7	5.3	+/-0.5
common 2	133	dssp	3	JPRED	74.8	+/-0.8	65.1	+/-2.5	44.1	+/-2.4	82.4	+/-1.1	73.2	+/-2.7	60.3	+/-3.0	69.0	+/-1.0	68.3	+/-1.4	69.0	+/-2.3	64.8	+/-2.4	68.0	+/-1.4	2.5	+/-0.3	0.33	+/-0.01	0.65	+/-0.02	0.59	+/-0.02	0.53	+/-0.01	72.9	+/-3.9	7.5	+/-0.7	6.1	+/-0.5
common 2	133	dssp	4	PHD	71.8	+/-0.9	67.7	+/-2.4	51.0	+/-2.5	70.1	+/-1.4	68.5	+/-2.4	51.3	+/-2.6	72.1	+/-1.2	67.8	+/-1.2	69.9	+/-2.2	66.6	+/-2.2	63.9	+/-1.5	4.0	+/-0.4	0.23	+/-0.06	0.60	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	75.9	+/-3.7	7.8	+/-0.8	5.9	+/-0.5
common 2	133	dssp	5	PSSP	64.0	+/-0.9	57.7	+/-2.2	46.8	+/-2.3	66.2	+/-1.1	63.6	+/-2.5	43.8	+/-2.3	64.5	+/-1.2	59.6	+/-1.1	60.0	+/-2.1	62.4	+/-2.2	59.6	+/-1.4	6.2	+/-0.4	0.20	+/-0.01	0.46	+/-0.02	0.48	+/-0.02	0.38	+/-0.01	71.4	+/-3.9	9.9	+/-0.8	7.5	+/-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	155	dssp	1	PROF	75.7	+/-0.7	71.1	+/-2.1	57.3	+/-2.4	74.6	+/-1.1	74.5	+/-2.1	56.8	+/-2.4	74.6	+/-0.9	71.5	+/-1.1	72.9	+/-2.0	73.0	+/-1.8	68.3	+/-1.2	2.6	+/-0.3	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	81.9	+/-3.1	6.2	+/-0.6	5.0	+/-0.4
				PSIpred	76.0	+/-0.8	72.3	+/-2.1	54.2	+/-2.4	76.3	+/-1.0	73.1	+/-2.2	56.6	+/-2.5	74.6	+/-0.9	72.0	+/-1.2	75.5	+/-2.0	69.4	+/-2.1	69.4	+/-1.1	2.7	+/-0.3	0.36	+/-0.01	0.65	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	78.7	+/-3.3	5.4	+/-0.6	4.7	+/-0.4
				SSpro	75.7	+/-0.8	73.5	+/-2.0	51.4	+/-2.2	77.1	+/-1.0	72.8	+/-2.1	59.2	+/-2.5	74.2	+/-0.9	70.9	+/-1.2	74.6	+/-1.8	69.1	+/-2.0	68.9	+/-1.2	2.8	+/-0.2	0.35	+/-0.01	0.66	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	82.6	+/-3.1	6.3	+/-0.6	5.3	+/-0.4
common 3	155	dssp	2	JPRED	74.7	+/-0.7	64.9	+/-2.2	44.9	+/-2.2	82.9	+/-1.0	74.0	+/-2.4	61.6	+/-2.8	69.0	+/-0.9	69.0	+/-1.2	69.2	+/-2.1	65.8	+/-2.1	69.0	+/-1.3	2.5	+/-0.3	0.34	+/-0.01	0.64	+/-0.02	0.60	+/-0.02	0.53	+/-0.01	76.1	+/-3.4	7.5	+/-0.6	6.0	+/-0.5
				PHDpsi	74.8	+/-0.7	71.3	+/-2.1	52.2	+/-2.4	73.6	+/-1.2	72.7	+/-2.1	56.4	+/-2.5	73.5	+/-0.8	70.4	+/-1.0	73.3	+/-1.9	69.0	+/-2.0	66.5	+/-1.3	3.0	+/-0.3	0.28	+/-0.05	0.65	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	80.6	+/-3.2	6.1	+/-0.7	5.1	+/-0.4
common 3	155	dssp	3	PHD	71.2	+/-0.8	67.4	+/-2.2	51.4	+/-2.3	70.1	+/-1.2	68.6	+/-2.2	51.1	+/-2.3	71.8	+/-1.1	67.5	+/-1.1	69.3	+/-2.0	67.0	+/-2.0	64.0	+/-1.3	4.2	+/-0.3	0.23	+/-0.05	0.58	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	77.4	+/-3.4	7.9	+/-0.7	5.9	+/-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 4			Sorted alphabetically for identical ranks!		MORE SCORES
common 4	198	dssp	1	PROF	75.8	+/-0.7	71.8	+/-1.9	56.7	+/-2.1	74.7	+/-0.9	75.4	+/-1.8	56.0	+/-2.2	74.2	+/-0.9	72.4	+/-1.0	74.4	+/-1.7	73.6	+/-1.6	68.7	+/-1.1	2.6	+/-0.3	0.35	+/-0.01	0.67	+/-0.01	0.65	+/-0.02	0.55	+/-0.01	80.3	+/-2.8	6.4	+/-0.6	4.9	+/-0.4
				PSIpred	76.5	+/-0.7	73.6	+/-1.9	53.6	+/-2.2	76.3	+/-0.9	73.8	+/-2.0	56.2	+/-2.3	74.4	+/-0.9	72.6	+/-1.0	76.8	+/-1.7	70.3	+/-1.8	69.6	+/-1.0	2.5	+/-0.3	0.37	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	77.3	+/-3.0	5.5	+/-0.5	4.5	+/-0.4
common 4	198	dssp	2	PHDpsi	74.6	+/-0.7	71.8	+/-1.8	51.1	+/-2.1	73.3	+/-1.0	73.1	+/-1.8	55.3	+/-2.3	72.8	+/-0.8	70.5	+/-0.9	74.3	+/-1.6	69.0	+/-1.8	66.0	+/-1.2	2.9	+/-0.3	0.29	+/-0.04	0.65	+/-0.01	0.61	+/-0.02	0.53	+/-0.01	77.8	+/-3.0	6.5	+/-0.6	5.1	+/-0.4
common 4	198	dssp	3	PHD	71.6	+/-0.7	68.9	+/-1.9	50.6	+/-2.0	69.5	+/-1.1	69.3	+/-1.9	51.3	+/-2.1	71.7	+/-1.0	67.9	+/-0.9	70.4	+/-1.7	67.5	+/-1.7	63.6	+/-1.1	4.0	+/-0.3	0.25	+/-0.04	0.58	+/-0.02	0.60	+/-0.02	0.49	+/-0.01	76.3	+/-3.0	8.0	+/-0.6	5.7	+/-0.4

All results

Last update: Nov 15, 2000
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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