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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		318	42
JPred		231	36	method/jpred.html
PHD		298	42	method/phd.html
PHDpsi		298	42	method/phdpsi.html
PROF1		289	40	method/prof1.html
PROF_king		212	30	method/prof_king.html
PSIpred		291	41	method/psipred.html
PSSP		241	32	method/pssp.html
SAM-T99sec		162	28	method/samt99_sec.html
SSpro		272	38	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: 102 proteins and 9 methods (HTML - ASCII)
set 2: 118 proteins and 8 methods (HTML - ASCII)
set 3: 223 proteins and 6 methods (HTML - ASCII)
set 4: 288 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	102	dssp	1	JPred	75.2	+/-0.9	72.3	+/-3.0	84.9	+/-3.4	57.8	+/-3.2	74.8	+/-3.9	81.2	+/-1.4	68.9	+/-1.2	67.3	+/-1.5	68.4	+/-2.7	61.2	+/-2.9	66.0	+/-1.7	1.9	+/-0.3	0.33	+/-0.01	0.67	+/-0.02	0.59	+/-0.03	0.55	+/-0.02	79.4	+/-4.0	6.9	+/-0.7	5.6	+/-0.5
				PHDpsi	74.3	+/-0.9	78.7	+/-2.9	82.0	+/-3.0	63.8	+/-3.4	69.0	+/-3.6	72.4	+/-1.5	73.0	+/-1.1	67.9	+/-1.3	71.5	+/-2.5	64.3	+/-2.8	63.5	+/-1.7	3.0	+/-0.3	0.23	+/-0.08	0.68	+/-0.02	0.58	+/-0.03	0.54	+/-0.02	81.4	+/-3.9	6.8	+/-0.8	4.8	+/-0.5
				PROF1	76.8	+/-0.9	80.6	+/-2.7	84.5	+/-2.8	68.8	+/-3.5	71.6	+/-3.5	74.6	+/-1.5	75.6	+/-1.2	71.7	+/-1.3	74.7	+/-2.3	67.9	+/-2.7	67.8	+/-1.6	2.3	+/-0.3	0.36	+/-0.01	0.72	+/-0.02	0.63	+/-0.03	0.57	+/-0.02	82.4	+/-3.8	6.1	+/-0.8	4.0	+/-0.4
				PROF_king	74.1	+/-0.9	73.4	+/-3.0	85.8	+/-3.2	70.8	+/-3.7	66.1	+/-3.5	75.0	+/-1.5	71.6	+/-1.3	67.1	+/-1.4	66.0	+/-2.7	66.3	+/-2.9	65.7	+/-1.5	2.6	+/-0.3	0.32	+/-0.01	0.68	+/-0.02	0.60	+/-0.03	0.54	+/-0.02	85.3	+/-3.5	7.6	+/-0.7	6.7	+/-0.7
				PSIpred	76.7	+/-1.0	81.9	+/-2.8	83.1	+/-3.0	68.5	+/-3.5	72.3	+/-3.7	76.1	+/-1.2	75.0	+/-1.2	71.8	+/-1.4	77.2	+/-2.5	65.8	+/-2.8	68.4	+/-1.5	2.5	+/-0.3	0.37	+/-0.02	0.71	+/-0.02	0.63	+/-0.03	0.58	+/-0.02	84.3	+/-3.6	5.8	+/-0.7	4.6	+/-0.6
				SAM-T99sec	76.1	+/-1.0	84.5	+/-2.8	79.9	+/-2.8	62.2	+/-3.3	76.9	+/-3.9	71.5	+/-1.8	76.2	+/-1.5	70.8	+/-1.4	76.9	+/-2.3	64.7	+/-2.8	64.9	+/-1.7	1.9	+/-0.3	0.35	+/-0.02	0.71	+/-0.02	0.62	+/-0.03	0.56	+/-0.02	81.4	+/-3.9	6.8	+/-0.9	4.8	+/-0.5
				SSpro	76.1	+/-1.0	81.3	+/-2.6	82.2	+/-2.8	63.1	+/-3.4	72.5	+/-3.8	76.4	+/-1.3	74.6	+/-1.2	69.2	+/-1.6	76.3	+/-2.2	63.5	+/-2.9	66.5	+/-1.7	2.3	+/-0.3	0.35	+/-0.02	0.70	+/-0.02	0.60	+/-0.03	0.57	+/-0.02	78.4	+/-4.1	6.5	+/-0.8	5.8	+/-0.6
common 1	102	dssp	2	PHD	71.6	+/-1.0	75.9	+/-2.9	77.9	+/-3.0	61.0	+/-3.1	63.0	+/-3.3	68.8	+/-1.6	71.8	+/-1.3	67.2	+/-1.4	70.6	+/-2.5	63.8	+/-2.8	62.6	+/-1.5	3.9	+/-0.4	0.20	+/-0.08	0.63	+/-0.02	0.53	+/-0.03	0.50	+/-0.01	77.5	+/-4.2	8.2	+/-0.9	5.8	+/-0.6
common 1	102	dssp	3	PSSP	64.2	+/-1.1	64.6	+/-2.7	71.8	+/-3.0	55.5	+/-2.9	49.9	+/-2.9	64.8	+/-1.3	64.7	+/-1.5	58.7	+/-1.3	58.5	+/-2.3	61.0	+/-2.7	57.2	+/-1.5	5.8	+/-0.5	0.20	+/-0.01	0.50	+/-0.02	0.40	+/-0.03	0.38	+/-0.02	74.5	+/-4.3	9.9	+/-0.9	7.7	+/-0.7

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	118	dssp	1	PROF1	77.1	+/-0.8	80.6	+/-2.4	84.5	+/-2.5	68.8	+/-3.2	71.6	+/-3.3	75.1	+/-1.3	75.0	+/-1.0	72.6	+/-1.2	75.1	+/-2.0	69.6	+/-2.5	68.8	+/-1.4	2.1	+/-0.2	0.37	+/-0.01	0.72	+/-0.02	0.63	+/-0.02	0.57	+/-0.01	83.1	+/-3.5	5.7	+/-0.7	4.0	+/-0.4
				PSIpred	77.1	+/-0.9	81.9	+/-2.5	83.1	+/-2.7	68.5	+/-3.2	72.3	+/-3.4	76.6	+/-1.1	74.7	+/-1.1	72.9	+/-1.3	77.8	+/-2.2	67.7	+/-2.6	69.5	+/-1.4	2.4	+/-0.3	0.38	+/-0.01	0.71	+/-0.02	0.63	+/-0.03	0.58	+/-0.01	84.7	+/-3.3	5.5	+/-0.6	4.4	+/-0.5
				SAM-T99sec	76.3	+/-0.9	84.5	+/-2.5	79.9	+/-2.4	62.2	+/-3.0	76.9	+/-3.5	71.7	+/-1.7	74.9	+/-1.4	71.6	+/-1.3	76.8	+/-2.0	66.5	+/-2.5	65.7	+/-1.7	1.8	+/-0.2	0.36	+/-0.01	0.71	+/-0.02	0.62	+/-0.02	0.56	+/-0.01	80.5	+/-3.7	6.2	+/-0.8	4.7	+/-0.5
				SSpro	76.4	+/-0.9	81.3	+/-2.3	82.2	+/-2.5	63.1	+/-3.1	72.5	+/-3.4	76.7	+/-1.2	74.5	+/-1.0	70.6	+/-1.5	76.9	+/-2.0	65.5	+/-2.6	67.8	+/-1.5	2.4	+/-0.3	0.36	+/-0.01	0.70	+/-0.02	0.60	+/-0.02	0.57	+/-0.02	79.7	+/-3.7	6.0	+/-0.7	5.6	+/-0.5
common 2	118	dssp	2	JPred	75.3	+/-0.8	72.3	+/-2.7	84.9	+/-3.0	57.8	+/-2.9	74.8	+/-3.5	81.8	+/-1.3	68.5	+/-1.1	68.5	+/-1.4	68.9	+/-2.4	62.9	+/-2.6	67.1	+/-1.5	1.9	+/-0.3	0.34	+/-0.01	0.67	+/-0.02	0.59	+/-0.02	0.55	+/-0.01	77.1	+/-3.9	6.7	+/-0.6	5.8	+/-0.5
				PHDpsi	74.5	+/-0.8	78.7	+/-2.6	82.0	+/-2.7	63.8	+/-3.1	69.0	+/-3.3	73.0	+/-1.3	72.4	+/-1.0	69.2	+/-1.2	72.6	+/-2.2	65.2	+/-2.6	65.1	+/-1.6	2.9	+/-0.3	0.25	+/-0.07	0.68	+/-0.02	0.58	+/-0.02	0.54	+/-0.01	80.5	+/-3.7	6.5	+/-0.7	5.0	+/-0.5
common 2	118	dssp	3	PHD	72.0	+/-0.9	75.9	+/-2.5	77.9	+/-2.6	61.0	+/-2.9	63.0	+/-3.0	69.6	+/-1.4	71.4	+/-1.2	68.2	+/-1.2	71.6	+/-2.2	64.6	+/-2.5	63.7	+/-1.4	3.8	+/-0.3	0.22	+/-0.07	0.63	+/-0.02	0.53	+/-0.02	0.50	+/-0.01	77.1	+/-3.9	7.9	+/-0.8	5.9	+/-0.6
common 2	118	dssp	4	PSSP	63.8	+/-1.0	64.6	+/-2.3	71.8	+/-2.7	55.5	+/-2.6	49.9	+/-2.6	64.8	+/-1.1	64.1	+/-1.3	58.8	+/-1.2	59.3	+/-2.1	60.7	+/-2.4	57.2	+/-1.4	6.2	+/-0.5	0.19	+/-0.01	0.50	+/-0.02	0.40	+/-0.03	0.38	+/-0.01	71.2	+/-4.2	9.4	+/-0.8	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	223	dssp	1	PROF1	76.8	+/-0.6	80.6	+/-1.8	84.5	+/-1.8	68.8	+/-2.3	71.6	+/-2.4	75.6	+/-0.9	74.6	+/-0.7	72.8	+/-0.8	74.1	+/-1.5	71.3	+/-1.7	69.4	+/-1.0	2.2	+/-0.2	0.36	+/-0.01	0.72	+/-0.01	0.63	+/-0.02	0.57	+/-0.01	82.5	+/-2.5	5.6	+/-0.5	4.0	+/-0.3
				PSIpred	76.5	+/-0.6	81.9	+/-1.8	83.1	+/-1.9	68.5	+/-2.3	72.3	+/-2.4	76.4	+/-0.8	74.3	+/-0.8	72.1	+/-0.9	76.2	+/-1.6	69.9	+/-1.8	69.3	+/-1.0	2.4	+/-0.2	0.37	+/-0.01	0.71	+/-0.02	0.63	+/-0.02	0.58	+/-0.01	80.3	+/-2.7	5.4	+/-0.5	4.4	+/-0.4
				SSpro	76.1	+/-0.6	81.3	+/-1.7	82.2	+/-1.8	63.1	+/-2.1	72.5	+/-2.4	76.7	+/-0.8	74.1	+/-0.8	71.2	+/-1.0	75.3	+/-1.5	68.7	+/-1.7	68.5	+/-1.1	2.5	+/-0.2	0.35	+/-0.01	0.70	+/-0.01	0.60	+/-0.02	0.57	+/-0.01	81.2	+/-2.6	6.0	+/-0.5	5.1	+/-0.4
common 3	223	dssp	2	JPred	74.7	+/-0.6	72.3	+/-1.9	84.9	+/-2.1	57.8	+/-2.1	74.8	+/-2.5	82.8	+/-0.8	68.5	+/-0.8	69.2	+/-1.0	68.6	+/-1.7	65.9	+/-1.8	68.8	+/-1.1	2.4	+/-0.2	0.33	+/-0.01	0.67	+/-0.02	0.59	+/-0.02	0.55	+/-0.01	76.2	+/-2.9	7.6	+/-0.5	5.7	+/-0.4
				PHDpsi	74.7	+/-0.6	78.7	+/-1.8	82.0	+/-1.9	63.8	+/-2.2	69.0	+/-2.3	73.7	+/-0.9	72.7	+/-0.7	69.7	+/-0.9	72.1	+/-1.6	67.9	+/-1.7	66.1	+/-1.1	2.9	+/-0.3	0.29	+/-0.04	0.68	+/-0.01	0.58	+/-0.02	0.54	+/-0.01	79.4	+/-2.7	6.1	+/-0.5	4.9	+/-0.4
common 3	223	dssp	3	PHD	71.5	+/-0.7	75.9	+/-1.9	77.9	+/-1.9	61.0	+/-2.1	63.0	+/-2.2	70.2	+/-1.0	71.3	+/-0.9	67.5	+/-0.9	69.7	+/-1.6	66.2	+/-1.7	63.8	+/-1.1	4.2	+/-0.3	0.25	+/-0.04	0.63	+/-0.02	0.53	+/-0.02	0.50	+/-0.01	76.2	+/-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	288	dssp	1	PROF1	77.0	+/-0.6	80.6	+/-1.6	84.5	+/-1.6	68.8	+/-2.1	71.6	+/-2.2	75.5	+/-0.8	74.3	+/-0.7	73.2	+/-0.8	75.8	+/-1.3	72.1	+/-1.5	69.2	+/-0.9	2.3	+/-0.2	0.37	+/-0.01	0.72	+/-0.01	0.63	+/-0.01	0.57	+/-0.01	81.6	+/-2.3	5.8	+/-0.4	4.3	+/-0.3
				PSIpred	76.7	+/-0.6	81.9	+/-1.6	83.1	+/-1.7	68.5	+/-2.1	72.3	+/-2.2	76.2	+/-0.7	73.6	+/-0.8	72.1	+/-0.9	77.1	+/-1.3	70.8	+/-1.6	69.1	+/-0.9	2.3	+/-0.2	0.37	+/-0.01	0.71	+/-0.01	0.63	+/-0.02	0.58	+/-0.01	79.5	+/-2.4	5.8	+/-0.4	4.3	+/-0.3
common 4	288	dssp	2	PHDpsi	74.8	+/-0.5	78.7	+/-1.6	82.0	+/-1.7	63.8	+/-2.0	69.0	+/-2.2	73.2	+/-0.9	71.8	+/-0.7	70.2	+/-0.8	73.9	+/-1.3	68.0	+/-1.6	65.6	+/-1.0	2.8	+/-0.2	0.29	+/-0.03	0.68	+/-0.01	0.58	+/-0.02	0.54	+/-0.01	77.4	+/-2.5	6.5	+/-0.5	4.9	+/-0.3
common 4	288	dssp	3	PHD	72.0	+/-0.6	75.9	+/-1.7	77.9	+/-1.7	61.0	+/-1.9	63.0	+/-2.0	69.7	+/-0.9	70.8	+/-0.8	68.2	+/-0.8	71.5	+/-1.4	66.7	+/-1.5	63.4	+/-0.9	3.9	+/-0.2	0.26	+/-0.03	0.63	+/-0.01	0.53	+/-0.02	0.50	+/-0.01	75.3	+/-2.5	7.9	+/-0.5	5.7	+/-0.3

All results

Last update: Mar 3, 2001
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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