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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		242	34
JPRED		183	28	method/jpred.html
PHD		237	34	method/phd.html
PHDpsi		237	34	method/phdpsi.html
PROF		233	32	method/prof.html
PSIpred		234	33	method/psipred.html
PSSP		181	24	method/pssp.html
SAM-T99sec		119	21	method/samt99_sec.html
SSpro		211	30	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: 95 proteins and 8 methods
set 2: 158 proteins and 7 methods
set 3: 180 proteins and 6 methods
set 4: 233 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	95	dssp	1	JPRED	75.5	+/-0.9	67.4	+/-1.5	43.7	+/-1.5	81.1	+/-1.5	73.7	+/-1.5	60.6	+/-1.5	69.1	+/-1.5	68.3	+/-1.5	70.3	+/-1.5	61.8	+/-1.5	66.4	+/-1.5	1.9	+/-1.5	0.34	+/-1.54	0.67	+/-1.54	0.59	+/-1.54	0.53	+/-1.54	77.9	+/-1.5	6.3	+/-1.5	6.0	+/-1.5
				PROF	75.9	+/-1.0	71.3	+/-1.5	56.6	+/-1.5	73.7	+/-1.5	75.1	+/-1.5	57.4	+/-1.5	74.5	+/-1.5	70.7	+/-1.5	73.1	+/-1.5	69.8	+/-1.5	66.3	+/-1.5	2.6	+/-1.5	0.35	+/-1.54	0.66	+/-1.54	0.62	+/-1.54	0.55	+/-1.54	81.1	+/-1.5	6.7	+/-1.5	4.8	+/-1.5
				PSIpred	77.0	+/-1.0	75.4	+/-1.5	52.9	+/-1.5	76.0	+/-1.5	72.9	+/-1.5	57.1	+/-1.5	75.4	+/-1.5	72.8	+/-1.5	78.8	+/-1.5	66.1	+/-1.5	69.1	+/-1.5	2.5	+/-1.5	0.38	+/-1.54	0.68	+/-1.54	0.59	+/-1.54	0.56	+/-1.54	84.2	+/-1.5	5.3	+/-1.5	4.7	+/-1.5
				SAM-T99sec	76.3	+/-1.0	77.0	+/-1.5	49.7	+/-1.5	72.4	+/-1.5	71.6	+/-1.5	61.9	+/-1.5	74.5	+/-1.5	71.2	+/-1.5	76.7	+/-1.5	65.1	+/-1.5	65.6	+/-1.5	2.0	+/-1.5	0.36	+/-1.54	0.66	+/-1.54	0.62	+/-1.54	0.55	+/-1.54	78.9	+/-1.5	6.3	+/-1.5	5.2	+/-1.5
				SSpro	76.2	+/-1.0	75.7	+/-1.5	49.3	+/-1.5	76.4	+/-1.5	73.0	+/-1.5	60.0	+/-1.5	74.1	+/-1.5	70.2	+/-1.5	77.0	+/-1.5	65.2	+/-1.5	66.8	+/-1.5	2.4	+/-1.5	0.36	+/-1.54	0.68	+/-1.54	0.61	+/-1.54	0.55	+/-1.54	78.9	+/-1.5	6.1	+/-1.5	5.7	+/-1.5
common 1	95	dssp	2	PHDpsi	74.9	+/-0.9	71.8	+/-1.5	51.0	+/-1.5	72.6	+/-1.5	71.4	+/-1.5	56.7	+/-1.5	72.7	+/-1.5	69.4	+/-1.5	73.5	+/-1.5	65.3	+/-1.5	64.2	+/-1.5	2.7	+/-1.5	0.24	+/-1.54	0.63	+/-1.54	0.58	+/-1.54	0.52	+/-1.54	81.1	+/-1.5	6.1	+/-1.5	4.9	+/-1.5
common 1	95	dssp	3	PHD	72.3	+/-1.0	69.9	+/-1.5	52.2	+/-1.5	69.1	+/-1.5	69.9	+/-1.5	52.3	+/-1.5	71.6	+/-1.5	67.9	+/-1.5	71.4	+/-1.5	64.9	+/-1.5	63.2	+/-1.5	3.6	+/-1.5	0.20	+/-1.54	0.60	+/-1.54	0.58	+/-1.54	0.49	+/-1.54	76.8	+/-1.5	7.5	+/-1.5	5.7	+/-1.5
common 1	95	dssp	4	PSSP	64.3	+/-1.0	58.8	+/-1.5	47.6	+/-1.5	65.3	+/-1.5	64.1	+/-1.5	44.0	+/-1.5	64.2	+/-1.5	59.2	+/-1.5	60.1	+/-1.5	60.4	+/-1.5	58.1	+/-1.5	5.8	+/-1.5	0.20	+/-1.54	0.48	+/-1.54	0.46	+/-1.54	0.38	+/-1.54	75.8	+/-1.5	9.0	+/-1.5	7.3	+/-1.5

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 2			Sorted alphabetically for identical ranks!		MORE SCORES
common 2	158	dssp	1	PROF	75.8	+/-0.7	70.7	+/-2.2	56.2	+/-2.4	74.0	+/-1.1	73.9	+/-2.2	56.3	+/-2.5	74.5	+/-0.9	71.4	+/-1.1	73.0	+/-2.0	71.7	+/-1.9	67.3	+/-1.2	2.6	+/-0.3	0.35	+/-0.01	0.66	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	81.6	+/-3.1	6.2	+/-0.6	5.2	+/-0.4
				PSIpred	76.7	+/-0.8	73.2	+/-2.2	53.4	+/-2.5	76.2	+/-1.0	73.4	+/-2.3	56.3	+/-2.6	75.0	+/-0.9	72.4	+/-1.1	76.7	+/-2.0	69.0	+/-2.2	69.1	+/-1.1	2.3	+/-0.3	0.37	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	79.7	+/-3.2	5.4	+/-0.5	4.7	+/-0.5
				SSpro	76.2	+/-0.7	74.1	+/-2.1	50.6	+/-2.2	76.4	+/-1.0	72.7	+/-2.1	59.0	+/-2.6	74.5	+/-0.9	71.2	+/-1.1	75.6	+/-1.8	68.6	+/-2.0	68.2	+/-1.2	2.5	+/-0.2	0.36	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	79.7	+/-3.2	6.1	+/-0.6	5.2	+/-0.4
common 2	158	dssp	2	JPRED	75.1	+/-0.7	65.2	+/-2.3	44.7	+/-2.3	82.1	+/-1.0	73.5	+/-2.4	59.9	+/-2.8	69.3	+/-1.0	69.0	+/-1.2	69.1	+/-2.1	65.2	+/-2.2	68.4	+/-1.3	2.4	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.61	+/-0.02	0.54	+/-0.01	72.8	+/-3.6	7.3	+/-0.6	5.9	+/-0.5
				PHDpsi	74.7	+/-0.7	70.4	+/-2.2	51.0	+/-2.4	72.9	+/-1.2	71.4	+/-2.2	55.7	+/-2.5	73.2	+/-0.8	69.6	+/-1.0	72.2	+/-1.9	67.7	+/-2.1	65.2	+/-1.3	3.0	+/-0.3	0.27	+/-0.05	0.64	+/-0.02	0.60	+/-0.02	0.53	+/-0.01	77.2	+/-3.3	6.4	+/-0.6	5.2	+/-0.4
common 2	158	dssp	3	PHD	71.8	+/-0.8	67.9	+/-2.2	50.8	+/-2.3	69.4	+/-1.2	68.2	+/-2.2	51.6	+/-2.4	72.0	+/-1.0	67.6	+/-1.1	69.7	+/-2.0	66.3	+/-2.1	63.4	+/-1.3	4.1	+/-0.3	0.23	+/-0.05	0.59	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	74.7	+/-3.5	7.7	+/-0.7	5.9	+/-0.5
common 2	158	dssp	4	PSSP	63.9	+/-0.8	57.7	+/-2.0	46.0	+/-2.1	65.8	+/-1.0	63.2	+/-2.3	43.2	+/-2.1	64.3	+/-1.0	59.3	+/-1.0	59.8	+/-1.9	61.6	+/-2.0	59.0	+/-1.2	6.3	+/-0.4	0.20	+/-0.01	0.46	+/-0.02	0.47	+/-0.02	0.38	+/-0.01	72.2	+/-3.6	9.7	+/-0.7	7.2	+/-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	180	dssp	1	PROF	75.6	+/-0.7	70.9	+/-2.0	56.8	+/-2.2	74.2	+/-1.0	74.4	+/-2.0	56.5	+/-2.3	74.5	+/-0.8	71.6	+/-1.0	73.0	+/-1.8	72.5	+/-1.7	68.0	+/-1.1	2.7	+/-0.3	0.35	+/-0.01	0.65	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	80.6	+/-3.0	6.1	+/-0.6	5.1	+/-0.4
				PSIpred	76.2	+/-0.7	73.1	+/-2.0	53.5	+/-2.3	75.9	+/-0.9	73.3	+/-2.0	56.1	+/-2.4	74.8	+/-0.8	72.2	+/-1.0	76.2	+/-1.8	69.2	+/-2.0	69.1	+/-1.0	2.6	+/-0.3	0.37	+/-0.01	0.66	+/-0.02	0.62	+/-0.02	0.55	+/-0.01	78.9	+/-3.1	5.4	+/-0.5	4.7	+/-0.4
				SSpro	75.7	+/-0.7	73.4	+/-1.9	51.1	+/-2.1	76.5	+/-0.9	73.2	+/-1.9	58.9	+/-2.4	74.0	+/-0.8	70.8	+/-1.0	74.8	+/-1.7	69.0	+/-1.8	68.2	+/-1.1	2.7	+/-0.2	0.35	+/-0.01	0.66	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	81.7	+/-2.9	6.3	+/-0.5	5.3	+/-0.4
common 3	180	dssp	2	JPRED	75.0	+/-0.7	65.0	+/-2.1	45.3	+/-2.1	82.5	+/-0.9	74.2	+/-2.2	61.1	+/-2.6	69.3	+/-0.9	69.5	+/-1.1	69.3	+/-1.9	66.0	+/-2.0	69.2	+/-1.2	2.4	+/-0.3	0.34	+/-0.01	0.64	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	75.6	+/-3.2	7.4	+/-0.5	5.9	+/-0.4
				PHDpsi	74.6	+/-0.6	71.2	+/-2.0	51.7	+/-2.2	73.0	+/-1.1	72.2	+/-2.0	56.1	+/-2.3	73.2	+/-0.8	70.0	+/-0.9	72.8	+/-1.7	68.6	+/-1.9	65.7	+/-1.2	3.0	+/-0.3	0.28	+/-0.05	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	79.4	+/-3.0	6.2	+/-0.6	5.1	+/-0.4
common 3	180	dssp	3	PHD	71.3	+/-0.7	67.6	+/-2.0	51.2	+/-2.1	69.4	+/-1.1	68.4	+/-2.0	51.4	+/-2.2	71.7	+/-1.0	67.4	+/-1.0	69.2	+/-1.8	66.7	+/-1.9	63.6	+/-1.2	4.3	+/-0.3	0.24	+/-0.05	0.58	+/-0.02	0.58	+/-0.02	0.49	+/-0.01	76.1	+/-3.2	7.8	+/-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	233	dssp	1	PROF	76.1	+/-0.6	72.1	+/-1.7	55.4	+/-2.0	74.0	+/-0.8	75.9	+/-1.7	55.0	+/-2.1	74.3	+/-0.8	72.3	+/-0.9	74.6	+/-1.5	73.2	+/-1.5	67.9	+/-1.0	2.6	+/-0.2	0.35	+/-0.01	0.66	+/-0.01	0.65	+/-0.02	0.55	+/-0.01	79.4	+/-2.7	6.3	+/-0.5	5.0	+/-0.4
				PSIpred	76.8	+/-0.6	74.6	+/-1.7	52.6	+/-2.1	75.8	+/-0.8	74.7	+/-1.8	55.5	+/-2.2	74.2	+/-0.8	72.6	+/-0.9	77.1	+/-1.5	70.7	+/-1.7	69.2	+/-0.9	2.4	+/-0.2	0.37	+/-0.01	0.66	+/-0.01	0.65	+/-0.02	0.56	+/-0.01	78.1	+/-2.7	5.5	+/-0.4	4.4	+/-0.4
common 4	233	dssp	2	PHDpsi	74.7	+/-0.6	72.1	+/-1.7	49.9	+/-2.0	72.7	+/-1.0	73.4	+/-1.7	54.3	+/-2.1	72.3	+/-0.8	70.3	+/-0.8	74.2	+/-1.5	68.8	+/-1.7	65.3	+/-1.1	2.9	+/-0.3	0.29	+/-0.04	0.64	+/-0.01	0.62	+/-0.02	0.52	+/-0.01	77.3	+/-2.8	6.5	+/-0.5	5.1	+/-0.4
common 4	233	dssp	3	PHD	71.9	+/-0.6	69.4	+/-1.8	49.7	+/-1.9	69.0	+/-1.0	70.0	+/-1.7	50.7	+/-2.0	71.2	+/-0.9	68.0	+/-0.8	70.8	+/-1.6	67.4	+/-1.7	63.2	+/-1.0	3.9	+/-0.3	0.25	+/-0.04	0.58	+/-0.01	0.60	+/-0.02	0.49	+/-0.01	75.5	+/-2.8	7.8	+/-0.6	5.6	+/-0.4

All results

Last update: Dec 13, 2000
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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