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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		368	47
JPred		276	41	method/jpred.html
PHD		346	47	method/phd.html
PHDpsi		346	47	method/phdpsi.html
PROF1		336	45	method/prof1.html
PROF_king		252	34	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: 127 proteins and 9 methods (HTML - ASCII)
set 2: 147 proteins and 7 methods (HTML - ASCII)
set 3: 259 proteins and 6 methods (HTML - ASCII)
set 4: 334 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	127	dssp	1	JPred	74.9	+/-0.9	71.8	+/-2.6	84.3	+/-2.9	58.0	+/-2.9	74.0	+/-3.6	80.5	+/-1.3	69.1	+/-1.2	67.6	+/-1.4	69.0	+/-2.3	63.3	+/-2.6	66.1	+/-1.5	1.9	+/-0.3	0.33	+/-0.01	0.66	+/-0.02	0.58	+/-0.02	0.55	+/-0.02	79.5	+/-3.6	7.3	+/-0.7	5.2	+/-0.5
				PHDpsi	74.2	+/-0.8	77.9	+/-2.5	81.4	+/-2.6	63.7	+/-3.1	67.9	+/-3.3	71.4	+/-1.4	73.2	+/-1.1	67.7	+/-1.2	71.9	+/-2.1	65.9	+/-2.6	62.8	+/-1.5	2.9	+/-0.3	0.25	+/-0.06	0.67	+/-0.02	0.58	+/-0.02	0.53	+/-0.01	79.5	+/-3.6	7.0	+/-0.7	4.7	+/-0.5
				PROF1	76.2	+/-0.8	79.7	+/-2.4	83.7	+/-2.5	68.9	+/-3.2	70.3	+/-3.2	73.2	+/-1.4	75.1	+/-1.1	71.0	+/-1.3	74.6	+/-2.0	68.8	+/-2.5	66.6	+/-1.5	2.3	+/-0.2	0.35	+/-0.01	0.70	+/-0.02	0.62	+/-0.02	0.56	+/-0.01	81.1	+/-3.5	6.4	+/-0.7	4.1	+/-0.4
				PROF_king	73.6	+/-0.9	72.1	+/-2.6	85.7	+/-2.8	71.5	+/-3.4	64.6	+/-3.2	74.6	+/-1.3	71.4	+/-1.2	66.8	+/-1.3	66.7	+/-2.4	67.6	+/-2.6	65.2	+/-1.4	2.8	+/-0.3	0.31	+/-0.01	0.67	+/-0.02	0.60	+/-0.02	0.54	+/-0.02	84.3	+/-3.2	8.2	+/-0.7	6.5	+/-0.6
				PSIpred	75.9	+/-0.9	81.2	+/-2.5	82.4	+/-2.6	68.8	+/-3.3	71.0	+/-3.4	74.7	+/-1.2	74.6	+/-1.2	70.8	+/-1.4	76.3	+/-2.2	67.0	+/-2.6	67.3	+/-1.4	2.5	+/-0.3	0.36	+/-0.01	0.70	+/-0.02	0.63	+/-0.03	0.57	+/-0.02	83.5	+/-3.3	6.1	+/-0.6	4.6	+/-0.5
				SAM-T99sec	75.8	+/-0.9	83.8	+/-2.5	78.1	+/-2.4	62.1	+/-3.0	75.6	+/-3.6	70.9	+/-1.5	75.8	+/-1.3	70.3	+/-1.3	76.1	+/-2.0	66.3	+/-2.5	64.5	+/-1.5	1.9	+/-0.2	0.34	+/-0.01	0.68	+/-0.02	0.61	+/-0.02	0.55	+/-0.02	81.1	+/-3.5	7.0	+/-0.8	4.5	+/-0.4
				SSpro	75.4	+/-0.9	80.5	+/-2.4	81.7	+/-2.5	63.2	+/-3.1	71.8	+/-3.5	75.3	+/-1.3	74.2	+/-1.1	68.4	+/-1.5	74.8	+/-2.0	64.8	+/-2.6	65.5	+/-1.5	2.5	+/-0.3	0.34	+/-0.01	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.02	78.0	+/-3.7	7.1	+/-0.7	5.5	+/-0.5
common 1	127	dssp	2	PHD	71.7	+/-0.9	75.3	+/-2.5	77.6	+/-2.6	61.1	+/-2.9	62.0	+/-3.0	68.3	+/-1.4	71.8	+/-1.2	66.6	+/-1.3	70.5	+/-2.1	65.1	+/-2.5	61.5	+/-1.4	3.6	+/-0.3	0.21	+/-0.06	0.62	+/-0.02	0.52	+/-0.02	0.49	+/-0.01	78.7	+/-3.6	8.4	+/-0.8	5.5	+/-0.5
common 1	127	dssp	3	PSSP	64.0	+/-1.0	63.4	+/-2.4	71.6	+/-2.6	55.5	+/-2.6	48.5	+/-2.6	64.9	+/-1.2	64.8	+/-1.3	57.7	+/-1.2	58.1	+/-2.1	61.4	+/-2.4	56.5	+/-1.4	6.1	+/-0.5	0.20	+/-0.01	0.49	+/-0.02	0.39	+/-0.03	0.38	+/-0.01	75.6	+/-3.8	10.3	+/-0.9	8.0	+/-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	147	dssp	1	JPred	74.9	+/-0.8	71.8	+/-2.4	84.3	+/-2.6	58.0	+/-2.6	74.0	+/-3.2	81.2	+/-1.1	68.6	+/-1.0	68.5	+/-1.2	68.7	+/-2.1	64.9	+/-2.4	67.2	+/-1.3	1.9	+/-0.2	0.33	+/-0.01	0.66	+/-0.02	0.58	+/-0.02	0.55	+/-0.01	78.2	+/-3.4	7.3	+/-0.6	5.4	+/-0.4
				PHDpsi	74.4	+/-0.7	77.9	+/-2.2	81.4	+/-2.3	63.7	+/-2.8	67.9	+/-2.9	72.1	+/-1.2	72.8	+/-1.0	69.0	+/-1.1	72.7	+/-1.9	66.9	+/-2.3	64.4	+/-1.4	2.8	+/-0.3	0.26	+/-0.06	0.67	+/-0.02	0.58	+/-0.02	0.53	+/-0.01	79.6	+/-3.3	6.7	+/-0.6	4.9	+/-0.4
				PROF1	76.3	+/-0.8	79.7	+/-2.1	83.7	+/-2.2	68.9	+/-2.9	70.3	+/-3.0	73.9	+/-1.2	74.5	+/-1.0	71.8	+/-1.1	74.5	+/-1.8	70.2	+/-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	82.3	+/-3.2	6.1	+/-0.6	4.1	+/-0.4
				PSIpred	76.2	+/-0.8	81.2	+/-2.2	82.4	+/-2.3	68.8	+/-3.0	71.0	+/-3.1	75.2	+/-1.0	74.3	+/-1.0	71.8	+/-1.2	76.4	+/-1.9	68.8	+/-2.4	68.5	+/-1.3	2.4	+/-0.3	0.36	+/-0.01	0.70	+/-0.02	0.63	+/-0.02	0.57	+/-0.01	84.4	+/-3.0	5.8	+/-0.6	4.5	+/-0.5
				SAM-T99sec	75.9	+/-0.8	83.8	+/-2.2	78.1	+/-2.1	62.1	+/-2.7	75.6	+/-3.2	71.5	+/-1.5	74.7	+/-1.2	70.9	+/-1.2	75.6	+/-1.8	67.8	+/-2.2	65.4	+/-1.5	1.9	+/-0.2	0.35	+/-0.01	0.68	+/-0.02	0.61	+/-0.02	0.55	+/-0.01	81.0	+/-3.2	6.6	+/-0.7	4.5	+/-0.4
				SSpro	75.7	+/-0.8	80.5	+/-2.1	81.7	+/-2.2	63.2	+/-2.8	71.8	+/-3.1	75.9	+/-1.1	74.2	+/-1.0	69.7	+/-1.3	75.0	+/-1.8	66.7	+/-2.3	67.0	+/-1.4	2.5	+/-0.2	0.35	+/-0.01	0.69	+/-0.02	0.60	+/-0.02	0.56	+/-0.01	79.6	+/-3.3	6.6	+/-0.6	5.3	+/-0.5
common 2	147	dssp	2	PHD	71.9	+/-0.8	75.3	+/-2.2	77.6	+/-2.3	61.1	+/-2.6	62.0	+/-2.7	69.2	+/-1.3	71.5	+/-1.1	67.5	+/-1.1	71.2	+/-1.9	65.9	+/-2.3	62.9	+/-1.3	3.7	+/-0.3	0.23	+/-0.06	0.62	+/-0.02	0.52	+/-0.02	0.49	+/-0.01	78.9	+/-3.4	8.2	+/-0.7	5.7	+/-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	259	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	71.1	+/-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	82.2	+/-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	75.7	+/-0.8	74.1	+/-0.8	71.8	+/-0.9	76.2	+/-1.4	69.8	+/-1.7	68.6	+/-0.9	2.5	+/-0.2	0.37	+/-0.01	0.70	+/-0.01	0.63	+/-0.02	0.57	+/-0.01	80.7	+/-2.5	5.5	+/-0.4	4.5	+/-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	74.8	+/-1.4	68.6	+/-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	81.1	+/-2.4	6.2	+/-0.4	5.0	+/-0.3
common 3	259	dssp	2	JPred	74.7	+/-0.6	71.8	+/-1.7	84.3	+/-1.9	58.0	+/-1.9	74.0	+/-2.4	82.6	+/-0.7	68.5	+/-0.8	69.3	+/-0.9	69.2	+/-1.6	66.1	+/-1.7	68.6	+/-1.0	2.4	+/-0.2	0.34	+/-0.01	0.66	+/-0.01	0.58	+/-0.02	0.55	+/-0.01	77.2	+/-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	+/-2.1	67.9	+/-2.2	73.2	+/-0.9	72.6	+/-0.7	69.4	+/-0.8	72.5	+/-1.4	67.8	+/-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	259	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	66.4	+/-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	77.6	+/-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	334	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	71.3	+/-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	81.1	+/-2.1	5.9	+/-0.4	4.5	+/-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	70.1	+/-1.5	68.4	+/-0.8	2.4	+/-0.2	0.37	+/-0.01	0.70	+/-0.01	0.63	+/-0.01	0.57	+/-0.01	80.5	+/-2.2	5.8	+/-0.4	4.5	+/-0.3
common 4	334	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	69.8	+/-0.7	73.7	+/-1.2	67.4	+/-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	77.2	+/-2.3	6.6	+/-0.4	5.0	+/-0.3
common 4	334	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	70.7	+/-0.8	67.6	+/-0.7	71.2	+/-1.3	66.1	+/-1.5	62.7	+/-0.9	3.9	+/-0.2	0.26	+/-0.03	0.62	+/-0.01	0.52	+/-0.01	0.49	+/-0.01	76.3	+/-2.3	7.9	+/-0.5	5.7	+/-0.3

All results

Last update: Apr 13, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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