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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		368	47
JPred		276	41	method/jpred.html
PHD		346	47	method/phd.html
PHDpsi		346	47	method/phdpsi.html
PROF1		337	45	method/prof1.html
PROF_king		243	33	method/prof_king.html
PSIpred		339	46	method/psipred.html
PSSP		289	37	method/pssp.html
SAM-T99sec		198	33	method/samt99_sec.html
SSpro		313	42	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: 122 proteins and 9 methods (HTML - ASCII)
set 2: 144 proteins and 8 methods (HTML - ASCII)
set 3: 260 proteins and 6 methods (HTML - ASCII)
set 4: 335 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	122	dssp	1	JPred	74.6	+/-0.9	71.8	+/-2.7	84.3	+/-3.0	58.0	+/-2.9	74.0	+/-3.6	80.3	+/-1.3	68.5	+/-1.2	67.3	+/-1.4	68.2	+/-2.4	62.9	+/-2.7	65.8	+/-1.5	2.0	+/-0.3	0.33	+/-0.01	0.66	+/-0.02	0.58	+/-0.03	0.55	+/-0.02	79.5	+/-3.7	7.5	+/-0.7	5.3	+/-0.5
				PHDpsi	74.0	+/-0.8	77.9	+/-2.6	81.4	+/-2.7	63.7	+/-3.1	67.9	+/-3.3	71.2	+/-1.4	72.7	+/-1.1	67.7	+/-1.3	71.2	+/-2.2	65.6	+/-2.6	62.8	+/-1.5	3.0	+/-0.3	0.24	+/-0.07	0.67	+/-0.02	0.58	+/-0.02	0.53	+/-0.01	80.3	+/-3.6	7.1	+/-0.7	4.7	+/-0.5
				PROF1	76.0	+/-0.9	79.7	+/-2.4	83.7	+/-2.5	68.9	+/-3.2	70.3	+/-3.3	73.0	+/-1.4	74.6	+/-1.1	70.9	+/-1.3	74.1	+/-2.0	68.6	+/-2.5	66.6	+/-1.5	2.4	+/-0.2	0.34	+/-0.01	0.70	+/-0.02	0.62	+/-0.02	0.56	+/-0.02	81.1	+/-3.6	6.5	+/-0.7	4.0	+/-0.4
				PROF_king	73.4	+/-0.9	72.5	+/-2.7	85.7	+/-2.8	71.1	+/-3.4	65.2	+/-3.3	74.4	+/-1.3	71.0	+/-1.2	66.6	+/-1.4	65.8	+/-2.4	67.3	+/-2.6	65.2	+/-1.4	2.9	+/-0.3	0.31	+/-0.01	0.67	+/-0.02	0.60	+/-0.02	0.54	+/-0.02	85.2	+/-3.2	8.3	+/-0.7	6.6	+/-0.7
				PSIpred	75.9	+/-0.9	81.2	+/-2.5	82.4	+/-2.7	68.8	+/-3.3	71.0	+/-3.5	74.9	+/-1.2	74.3	+/-1.2	71.0	+/-1.4	75.7	+/-2.2	66.9	+/-2.6	67.8	+/-1.4	2.6	+/-0.3	0.36	+/-0.02	0.70	+/-0.02	0.63	+/-0.03	0.57	+/-0.02	83.6	+/-3.4	6.2	+/-0.6	4.5	+/-0.5
				SAM-T99sec	75.7	+/-0.9	83.8	+/-2.5	78.1	+/-2.4	62.1	+/-3.0	75.6	+/-3.6	70.8	+/-1.6	75.5	+/-1.3	70.3	+/-1.3	75.7	+/-2.1	66.3	+/-2.5	64.4	+/-1.6	2.0	+/-0.2	0.34	+/-0.01	0.68	+/-0.02	0.61	+/-0.02	0.55	+/-0.02	82.0	+/-3.5	7.0	+/-0.8	4.6	+/-0.5
				SSpro	75.2	+/-1.0	80.5	+/-2.4	81.7	+/-2.5	63.2	+/-3.1	71.8	+/-3.5	75.2	+/-1.3	73.8	+/-1.1	68.2	+/-1.5	74.4	+/-2.0	64.4	+/-2.6	65.4	+/-1.6	2.5	+/-0.3	0.34	+/-0.02	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.02	78.7	+/-3.7	7.1	+/-0.7	5.4	+/-0.5
common 1	122	dssp	2	PHD	71.5	+/-0.9	75.3	+/-2.5	77.6	+/-2.6	61.1	+/-2.9	62.0	+/-3.0	68.1	+/-1.5	71.4	+/-1.2	66.8	+/-1.3	70.1	+/-2.2	64.9	+/-2.5	61.7	+/-1.4	3.8	+/-0.3	0.21	+/-0.07	0.62	+/-0.02	0.52	+/-0.02	0.49	+/-0.01	78.7	+/-3.7	8.5	+/-0.8	5.5	+/-0.6
common 1	122	dssp	3	PSSP	63.9	+/-1.0	63.4	+/-2.3	71.6	+/-2.6	55.5	+/-2.7	48.5	+/-2.6	64.7	+/-1.2	64.4	+/-1.3	57.8	+/-1.2	57.9	+/-2.1	61.6	+/-2.5	56.6	+/-1.4	6.1	+/-0.5	0.20	+/-0.01	0.49	+/-0.02	0.39	+/-0.03	0.38	+/-0.01	74.6	+/-4.0	10.4	+/-0.9	7.9	+/-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 2			Sorted alphabetically for identical ranks!		MORE SCORES
common 2	144	dssp	1	JPred	75.1	+/-0.8	71.8	+/-2.4	84.3	+/-2.6	58.0	+/-2.6	74.0	+/-3.3	81.1	+/-1.2	68.8	+/-1.1	68.6	+/-1.3	69.4	+/-2.1	64.2	+/-2.4	67.1	+/-1.4	1.9	+/-0.2	0.34	+/-0.01	0.66	+/-0.02	0.58	+/-0.02	0.55	+/-0.01	77.8	+/-3.5	7.1	+/-0.6	5.4	+/-0.4
				PHDpsi	74.4	+/-0.7	77.9	+/-2.3	81.4	+/-2.4	63.7	+/-2.8	67.9	+/-3.0	72.0	+/-1.2	72.8	+/-1.0	68.8	+/-1.1	72.8	+/-1.9	66.1	+/-2.4	64.1	+/-1.4	2.8	+/-0.3	0.26	+/-0.06	0.67	+/-0.02	0.58	+/-0.02	0.53	+/-0.01	79.2	+/-3.4	6.7	+/-0.6	4.8	+/-0.4
				PROF1	76.5	+/-0.8	79.7	+/-2.1	83.7	+/-2.3	68.9	+/-2.9	70.3	+/-3.0	73.8	+/-1.2	74.7	+/-1.0	71.8	+/-1.2	74.9	+/-1.8	69.7	+/-2.3	67.6	+/-1.3	2.2	+/-0.2	0.35	+/-0.01	0.70	+/-0.02	0.62	+/-0.02	0.56	+/-0.01	81.9	+/-3.2	6.0	+/-0.6	4.1	+/-0.4
				PSIpred	76.3	+/-0.8	81.2	+/-2.2	82.4	+/-2.4	68.8	+/-3.0	71.0	+/-3.2	75.2	+/-1.1	74.5	+/-1.1	71.8	+/-1.3	76.9	+/-1.9	68.2	+/-2.4	68.4	+/-1.3	2.4	+/-0.3	0.36	+/-0.01	0.70	+/-0.02	0.63	+/-0.02	0.57	+/-0.01	84.0	+/-3.1	5.8	+/-0.6	4.5	+/-0.5
				SAM-T99sec	76.1	+/-0.8	83.8	+/-2.2	78.1	+/-2.2	62.1	+/-2.8	75.6	+/-3.3	71.3	+/-1.5	74.9	+/-1.3	71.0	+/-1.2	76.1	+/-1.8	67.1	+/-2.3	65.3	+/-1.5	1.9	+/-0.2	0.35	+/-0.01	0.68	+/-0.02	0.61	+/-0.02	0.55	+/-0.01	80.6	+/-3.3	6.6	+/-0.7	4.5	+/-0.4
				SSpro	75.8	+/-0.8	80.5	+/-2.1	81.7	+/-2.2	63.2	+/-2.8	71.8	+/-3.2	75.6	+/-1.1	74.3	+/-1.0	69.6	+/-1.3	75.6	+/-1.8	65.9	+/-2.4	66.8	+/-1.4	2.5	+/-0.3	0.35	+/-0.01	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.01	79.2	+/-3.4	6.6	+/-0.6	5.4	+/-0.5
common 2	144	dssp	2	PHD	72.0	+/-0.8	75.3	+/-2.2	77.6	+/-2.3	61.1	+/-2.7	62.0	+/-2.8	69.1	+/-1.3	71.6	+/-1.1	67.5	+/-1.2	71.4	+/-1.9	65.3	+/-2.3	62.6	+/-1.3	3.6	+/-0.3	0.23	+/-0.06	0.62	+/-0.02	0.52	+/-0.02	0.49	+/-0.01	78.5	+/-3.4	8.1	+/-0.7	5.7	+/-0.5
common 2	144	dssp	3	PSSP	63.6	+/-0.9	63.4	+/-2.1	71.6	+/-2.4	55.5	+/-2.4	48.5	+/-2.4	64.9	+/-1.1	64.3	+/-1.2	57.9	+/-1.1	58.8	+/-1.9	60.7	+/-2.2	56.6	+/-1.3	6.3	+/-0.4	0.19	+/-0.01	0.49	+/-0.02	0.39	+/-0.02	0.38	+/-0.01	72.9	+/-3.7	9.8	+/-0.8	7.9	+/-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	260	dssp	1	PROF1	76.4	+/-0.6	79.7	+/-1.6	83.7	+/-1.7	68.9	+/-2.1	70.3	+/-2.2	75.0	+/-0.8	74.2	+/-0.7	72.3	+/-0.8	74.3	+/-1.4	70.9	+/-1.6	68.6	+/-0.9	2.2	+/-0.2	0.36	+/-0.01	0.70	+/-0.01	0.62	+/-0.01	0.56	+/-0.01	82.3	+/-2.4	5.8	+/-0.4	4.1	+/-0.3
				PSIpred	76.2	+/-0.6	81.2	+/-1.6	82.4	+/-1.7	68.8	+/-2.2	71.0	+/-2.3	75.6	+/-0.8	74.2	+/-0.8	71.8	+/-0.9	76.2	+/-1.4	69.7	+/-1.7	68.7	+/-0.9	2.5	+/-0.2	0.37	+/-0.01	0.70	+/-0.01	0.63	+/-0.02	0.57	+/-0.01	80.8	+/-2.4	5.5	+/-0.4	4.6	+/-0.3
				SSpro	75.8	+/-0.6	80.5	+/-1.6	81.7	+/-1.6	63.2	+/-2.0	71.8	+/-2.3	76.3	+/-0.8	73.9	+/-0.7	70.6	+/-0.9	74.9	+/-1.3	68.3	+/-1.6	67.8	+/-1.0	2.6	+/-0.2	0.35	+/-0.01	0.69	+/-0.01	0.60	+/-0.02	0.56	+/-0.01	81.2	+/-2.4	6.2	+/-0.4	5.0	+/-0.3
common 3	260	dssp	2	JPred	74.7	+/-0.6	71.8	+/-1.7	84.3	+/-1.9	58.0	+/-1.9	74.0	+/-2.3	82.6	+/-0.7	68.6	+/-0.8	69.4	+/-0.9	69.3	+/-1.6	66.0	+/-1.7	68.7	+/-1.0	2.3	+/-0.2	0.34	+/-0.01	0.66	+/-0.01	0.58	+/-0.02	0.55	+/-0.01	77.3	+/-2.6	7.7	+/-0.5	5.5	+/-0.3
				PHDpsi	74.5	+/-0.5	77.9	+/-1.7	81.4	+/-1.7	63.7	+/-2.0	67.9	+/-2.2	73.2	+/-0.9	72.6	+/-0.7	69.4	+/-0.8	72.5	+/-1.4	67.6	+/-1.6	65.4	+/-1.0	2.9	+/-0.2	0.29	+/-0.03	0.67	+/-0.01	0.58	+/-0.02	0.53	+/-0.01	78.8	+/-2.5	6.4	+/-0.5	4.9	+/-0.3
common 3	260	dssp	3	PHD	71.6	+/-0.6	75.3	+/-1.7	77.6	+/-1.7	61.1	+/-1.9	62.0	+/-2.0	70.0	+/-0.9	71.3	+/-0.8	67.2	+/-0.8	70.1	+/-1.5	66.2	+/-1.6	63.1	+/-1.0	4.0	+/-0.2	0.25	+/-0.03	0.62	+/-0.01	0.52	+/-0.02	0.49	+/-0.01	77.7	+/-2.6	7.8	+/-0.5	5.7	+/-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	335	dssp	1	PROF1	76.5	+/-0.5	79.7	+/-1.5	83.7	+/-1.5	68.9	+/-1.9	70.3	+/-2.0	74.8	+/-0.7	74.1	+/-0.7	72.6	+/-0.7	75.5	+/-1.2	71.1	+/-1.5	68.4	+/-0.8	2.3	+/-0.2	0.36	+/-0.01	0.70	+/-0.01	0.62	+/-0.01	0.56	+/-0.01	81.2	+/-2.1	5.9	+/-0.4	4.4	+/-0.3
				PSIpred	76.3	+/-0.6	81.2	+/-1.5	82.4	+/-1.5	68.8	+/-2.0	71.0	+/-2.1	75.5	+/-0.7	73.6	+/-0.7	71.7	+/-0.8	76.6	+/-1.2	70.0	+/-1.5	68.5	+/-0.8	2.4	+/-0.2	0.37	+/-0.01	0.70	+/-0.01	0.63	+/-0.01	0.57	+/-0.01	80.6	+/-2.2	5.8	+/-0.4	4.5	+/-0.3
common 4	335	dssp	2	PHDpsi	74.5	+/-0.5	77.9	+/-1.5	81.4	+/-1.5	63.7	+/-1.9	67.9	+/-2.0	72.8	+/-0.8	71.9	+/-0.7	69.7	+/-0.7	73.7	+/-1.2	67.2	+/-1.5	64.9	+/-0.9	2.8	+/-0.2	0.29	+/-0.03	0.67	+/-0.01	0.58	+/-0.01	0.53	+/-0.01	77.3	+/-2.3	6.6	+/-0.4	5.0	+/-0.3
common 4	335	dssp	3	PHD	71.8	+/-0.5	75.3	+/-1.5	77.6	+/-1.6	61.1	+/-1.8	62.0	+/-1.8	69.5	+/-0.8	70.8	+/-0.8	67.7	+/-0.7	71.3	+/-1.3	65.9	+/-1.5	62.7	+/-0.8	3.9	+/-0.2	0.26	+/-0.03	0.62	+/-0.01	0.52	+/-0.01	0.49	+/-0.01	76.4	+/-2.3	7.9	+/-0.5	5.7	+/-0.3

All results

Last update: Apr 4, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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