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EVA summary for category sec (3)

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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		312	41
JPRED		226	35	method/jpred.html
PHD		292	41	method/phd.html
PHDpsi		292	41	method/phdpsi.html
PROF1		283	39	method/prof1.html
PROF_king		204	29	method/prof_king.html
PSIpred		285	40	method/psipred.html
PSSP		235	31	method/pssp.html
SAM-T99sec		159	27	method/samt99_sec.html
SSpro		266	37	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: 99 proteins and 9 methods (HTML - ASCII)
set 2: 116 proteins and 8 methods (HTML - ASCII)
set 3: 218 proteins and 6 methods (HTML - ASCII)
set 4: 282 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	99	dssp	1	JPRED	75.5	+/-0.9	66.3	+/-1.5	42.7	+/-1.5	81.3	+/-1.5	72.2	+/-1.5	57.3	+/-1.5	69.0	+/-1.5	67.6	+/-1.5	68.9	+/-1.5	61.5	+/-1.5	66.2	+/-1.5	1.9	+/-1.5	0.34	+/-1.51	0.67	+/-1.51	0.59	+/-1.51	0.52	+/-1.51	80.8	+/-1.5	6.7	+/-1.5	5.6	+/-1.5
				PHDpsi	74.5	+/-0.9	70.0	+/-1.5	49.6	+/-1.5	72.5	+/-1.5	70.2	+/-1.5	52.2	+/-1.5	72.8	+/-1.5	67.9	+/-1.5	71.2	+/-1.5	64.7	+/-1.5	63.4	+/-1.5	2.9	+/-1.5	0.23	+/-1.51	0.63	+/-1.51	0.57	+/-1.51	0.51	+/-1.51	80.8	+/-1.5	6.6	+/-1.5	4.8	+/-1.5
				PROF1	77.0	+/-0.9	72.9	+/-1.5	53.3	+/-1.5	74.7	+/-1.5	74.1	+/-1.5	55.6	+/-1.5	75.5	+/-1.5	71.6	+/-1.5	74.4	+/-1.5	68.3	+/-1.5	67.7	+/-1.5	2.3	+/-1.5	0.36	+/-1.51	0.66	+/-1.51	0.61	+/-1.51	0.56	+/-1.51	81.8	+/-1.5	5.9	+/-1.5	3.9	+/-1.5
				PROF_king	74.4	+/-0.9	64.8	+/-1.5	53.3	+/-1.5	75.5	+/-1.5	75.7	+/-1.5	49.9	+/-1.5	71.5	+/-1.5	67.4	+/-1.5	66.4	+/-1.5	66.3	+/-1.5	66.0	+/-1.5	2.7	+/-1.5	0.32	+/-1.51	0.65	+/-1.51	0.60	+/-1.51	0.52	+/-1.51	84.8	+/-1.5	7.6	+/-1.5	6.7	+/-1.5
				PSIpred	76.8	+/-1.0	74.3	+/-1.5	51.6	+/-1.5	76.1	+/-1.5	72.5	+/-1.5	55.0	+/-1.5	75.0	+/-1.5	72.2	+/-1.5	77.2	+/-1.5	66.0	+/-1.5	69.1	+/-1.5	2.5	+/-1.5	0.37	+/-1.51	0.66	+/-1.51	0.60	+/-1.51	0.56	+/-1.51	84.8	+/-1.5	5.5	+/-1.5	4.6	+/-1.5
				SAM-T99sec	76.1	+/-1.0	76.6	+/-1.5	48.1	+/-1.5	71.4	+/-1.5	70.6	+/-1.5	57.5	+/-1.5	76.1	+/-1.5	70.8	+/-1.5	76.8	+/-1.5	64.4	+/-1.5	64.8	+/-1.5	1.9	+/-1.5	0.35	+/-1.51	0.66	+/-1.51	0.61	+/-1.51	0.53	+/-1.51	80.8	+/-1.5	6.7	+/-1.5	4.8	+/-1.5
				SSpro	76.0	+/-1.0	75.3	+/-1.5	46.6	+/-1.5	76.4	+/-1.5	72.8	+/-1.5	56.0	+/-1.5	74.4	+/-1.5	69.1	+/-1.5	76.0	+/-1.5	63.6	+/-1.5	66.5	+/-1.5	2.4	+/-1.5	0.35	+/-1.51	0.68	+/-1.51	0.61	+/-1.51	0.54	+/-1.51	77.8	+/-1.5	6.5	+/-1.5	5.8	+/-1.5
common 1	99	dssp	2	PHD	71.7	+/-1.0	68.7	+/-1.5	50.3	+/-1.5	68.9	+/-1.5	68.2	+/-1.5	48.5	+/-1.5	71.6	+/-1.5	67.3	+/-1.5	70.3	+/-1.5	63.9	+/-1.5	62.5	+/-1.5	3.8	+/-1.5	0.20	+/-1.51	0.59	+/-1.51	0.57	+/-1.51	0.48	+/-1.51	77.8	+/-1.5	7.9	+/-1.5	5.7	+/-1.5
common 1	99	dssp	3	PSSP	64.3	+/-1.1	57.6	+/-1.5	47.5	+/-1.5	64.8	+/-1.5	64.4	+/-1.5	41.4	+/-1.5	64.7	+/-1.5	58.7	+/-1.5	58.5	+/-1.5	61.2	+/-1.5	57.1	+/-1.5	5.9	+/-1.5	0.20	+/-1.51	0.48	+/-1.51	0.46	+/-1.51	0.38	+/-1.51	74.7	+/-1.5	9.8	+/-1.5	7.8	+/-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	116	dssp	1	PROF1	77.2	+/-0.8	74.0	+/-2.3	53.9	+/-2.9	75.1	+/-1.3	75.0	+/-2.4	56.9	+/-2.9	75.0	+/-1.0	72.6	+/-1.2	75.3	+/-2.1	69.2	+/-2.5	68.6	+/-1.5	2.1	+/-0.2	0.37	+/-0.01	0.66	+/-0.02	0.62	+/-0.02	0.56	+/-0.01	82.8	+/-3.5	5.8	+/-0.7	3.9	+/-0.4
				PSIpred	77.1	+/-0.9	75.2	+/-2.4	52.7	+/-2.9	76.5	+/-1.1	73.9	+/-2.6	56.7	+/-3.1	74.6	+/-1.1	72.7	+/-1.3	77.8	+/-2.2	67.3	+/-2.6	69.3	+/-1.4	2.4	+/-0.3	0.38	+/-0.01	0.67	+/-0.02	0.61	+/-0.03	0.56	+/-0.01	84.5	+/-3.4	5.4	+/-0.6	4.4	+/-0.5
				SAM-T99sec	76.5	+/-0.9	77.3	+/-2.4	49.5	+/-2.7	71.8	+/-1.7	72.1	+/-2.4	59.9	+/-3.1	75.0	+/-1.4	71.8	+/-1.3	77.3	+/-2.0	66.1	+/-2.5	65.7	+/-1.7	1.8	+/-0.2	0.36	+/-0.01	0.66	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	81.0	+/-3.7	6.3	+/-0.8	4.7	+/-0.5
				SSpro	76.5	+/-0.9	76.6	+/-2.3	47.9	+/-2.7	76.8	+/-1.2	73.8	+/-2.4	57.7	+/-3.1	74.4	+/-1.0	70.6	+/-1.5	77.3	+/-2.0	65.1	+/-2.6	67.8	+/-1.6	2.4	+/-0.3	0.36	+/-0.01	0.69	+/-0.02	0.61	+/-0.02	0.55	+/-0.02	79.3	+/-3.8	6.0	+/-0.7	5.6	+/-0.5
common 2	116	dssp	2	JPRED	75.4	+/-0.8	66.1	+/-2.6	43.5	+/-2.5	81.8	+/-1.3	73.7	+/-2.8	59.3	+/-3.2	68.5	+/-1.1	68.5	+/-1.4	69.1	+/-2.5	62.5	+/-2.6	67.0	+/-1.5	1.9	+/-0.3	0.34	+/-0.01	0.66	+/-0.02	0.60	+/-0.02	0.52	+/-0.01	77.6	+/-3.9	6.6	+/-0.6	5.8	+/-0.5
				PHDpsi	74.6	+/-0.8	71.7	+/-2.5	49.6	+/-2.8	73.0	+/-1.3	70.8	+/-2.5	54.6	+/-3.0	72.5	+/-1.0	69.1	+/-1.2	72.6	+/-2.2	64.8	+/-2.6	64.8	+/-1.6	2.9	+/-0.3	0.25	+/-0.07	0.64	+/-0.02	0.58	+/-0.02	0.52	+/-0.01	81.0	+/-3.7	6.4	+/-0.7	4.9	+/-0.5
common 2	116	dssp	3	PHD	71.9	+/-0.9	70.3	+/-2.5	50.0	+/-2.7	69.5	+/-1.4	68.7	+/-2.5	51.1	+/-2.8	71.4	+/-1.2	68.1	+/-1.3	71.8	+/-2.2	64.2	+/-2.6	63.4	+/-1.4	3.9	+/-0.3	0.22	+/-0.07	0.60	+/-0.02	0.57	+/-0.02	0.49	+/-0.01	77.6	+/-3.9	7.9	+/-0.8	5.9	+/-0.6
common 2	116	dssp	4	PSSP	63.8	+/-1.0	58.2	+/-2.3	46.3	+/-2.4	64.7	+/-1.2	63.4	+/-2.6	42.4	+/-2.5	64.0	+/-1.3	58.6	+/-1.2	59.1	+/-2.1	60.2	+/-2.4	57.1	+/-1.4	6.2	+/-0.5	0.19	+/-0.01	0.47	+/-0.02	0.45	+/-0.03	0.38	+/-0.01	71.6	+/-4.2	9.5	+/-0.9	7.6	+/-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	218	dssp	1	PROF1	76.8	+/-0.6	72.2	+/-1.7	54.4	+/-2.1	75.6	+/-0.9	74.9	+/-1.8	56.1	+/-2.2	74.6	+/-0.7	72.8	+/-0.9	74.1	+/-1.5	71.2	+/-1.7	69.3	+/-1.0	2.2	+/-0.2	0.36	+/-0.01	0.66	+/-0.01	0.64	+/-0.02	0.56	+/-0.01	82.1	+/-2.6	5.6	+/-0.5	4.0	+/-0.3
				PSIpred	76.4	+/-0.7	73.6	+/-1.7	53.5	+/-2.1	76.3	+/-0.8	74.5	+/-1.8	55.7	+/-2.2	74.3	+/-0.8	72.0	+/-1.0	76.2	+/-1.6	69.7	+/-1.8	69.2	+/-1.0	2.5	+/-0.2	0.37	+/-0.01	0.66	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	79.8	+/-2.7	5.4	+/-0.5	4.4	+/-0.4
				SSpro	76.1	+/-0.7	73.9	+/-1.7	50.3	+/-2.0	76.7	+/-0.8	73.8	+/-1.7	57.2	+/-2.2	74.1	+/-0.8	71.2	+/-1.0	75.4	+/-1.5	68.6	+/-1.8	68.5	+/-1.1	2.5	+/-0.2	0.35	+/-0.01	0.67	+/-0.01	0.63	+/-0.02	0.55	+/-0.01	81.2	+/-2.7	6.0	+/-0.5	5.2	+/-0.4
common 3	218	dssp	2	JPRED	74.8	+/-0.6	64.0	+/-1.9	45.0	+/-1.9	82.8	+/-0.8	74.2	+/-2.0	59.7	+/-2.3	68.6	+/-0.8	69.3	+/-1.0	68.7	+/-1.8	65.8	+/-1.9	68.7	+/-1.1	2.4	+/-0.2	0.34	+/-0.01	0.64	+/-0.01	0.61	+/-0.02	0.53	+/-0.01	76.1	+/-2.9	7.6	+/-0.5	5.7	+/-0.4
				PHDpsi	74.7	+/-0.6	70.7	+/-1.8	50.7	+/-2.0	73.6	+/-0.9	72.1	+/-1.8	54.8	+/-2.2	72.8	+/-0.7	69.6	+/-0.9	72.1	+/-1.6	67.8	+/-1.8	66.0	+/-1.1	3.0	+/-0.3	0.29	+/-0.04	0.64	+/-0.01	0.61	+/-0.02	0.52	+/-0.01	79.8	+/-2.7	6.2	+/-0.5	4.9	+/-0.4
common 3	218	dssp	3	PHD	71.4	+/-0.7	67.9	+/-1.8	50.2	+/-1.9	70.0	+/-1.0	68.2	+/-1.8	50.5	+/-2.0	71.4	+/-0.9	67.4	+/-0.9	69.7	+/-1.7	66.2	+/-1.7	63.6	+/-1.1	4.2	+/-0.3	0.25	+/-0.04	0.58	+/-0.02	0.58	+/-0.02	0.49	+/-0.01	76.1	+/-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	282	dssp	1	PROF1	77.0	+/-0.6	72.5	+/-1.6	53.2	+/-1.9	75.5	+/-0.8	75.4	+/-1.6	54.8	+/-2.0	74.3	+/-0.7	73.1	+/-0.8	75.8	+/-1.3	71.9	+/-1.5	69.1	+/-0.9	2.3	+/-0.2	0.37	+/-0.01	0.67	+/-0.01	0.66	+/-0.01	0.56	+/-0.01	81.2	+/-2.3	5.8	+/-0.4	4.3	+/-0.3
				PSIpred	76.6	+/-0.6	74.0	+/-1.5	52.1	+/-1.9	76.1	+/-0.8	74.9	+/-1.6	54.7	+/-2.0	73.6	+/-0.8	72.0	+/-0.9	77.1	+/-1.4	70.7	+/-1.6	69.0	+/-0.9	2.4	+/-0.2	0.37	+/-0.01	0.67	+/-0.01	0.65	+/-0.02	0.55	+/-0.01	79.1	+/-2.4	5.8	+/-0.4	4.4	+/-0.3
common 4	282	dssp	2	PHDpsi	74.8	+/-0.5	71.2	+/-1.6	48.8	+/-1.8	73.1	+/-0.9	72.7	+/-1.6	53.0	+/-2.0	71.9	+/-0.7	70.1	+/-0.8	74.0	+/-1.4	67.9	+/-1.6	65.4	+/-1.0	2.9	+/-0.2	0.29	+/-0.03	0.64	+/-0.01	0.62	+/-0.02	0.52	+/-0.01	78.0	+/-2.5	6.5	+/-0.5	5.0	+/-0.3
common 4	282	dssp	3	PHD	72.0	+/-0.6	68.9	+/-1.6	48.4	+/-1.7	69.5	+/-0.9	69.3	+/-1.6	49.5	+/-1.9	70.8	+/-0.8	68.2	+/-0.8	71.6	+/-1.4	66.7	+/-1.6	63.2	+/-0.9	3.9	+/-0.2	0.26	+/-0.03	0.59	+/-0.01	0.59	+/-0.02	0.48	+/-0.01	75.5	+/-2.6	7.9	+/-0.5	5.7	+/-0.4

All results

Last update: Feb 22, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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