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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		220	32
JPRED		172	27	method/jpred.html
PHD		217	32	method/phd.html
PHDpsi		217	32	method/phdpsi.html
PROF		213	30	method/prof.html
PSIpred		214	31	method/psipred.html
PSSP		161	22	method/pssp.html
SAM-T99sec		103	19	method/samt99_sec.html
SSpro		191	28	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: 86 proteins and 8 methods
set 2: 147 proteins and 7 methods
set 3: 169 proteins and 6 methods
set 4: 213 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	86	dssp	1	PROF	76.1	+/-1.0	71.8	+/-1.6	57.6	+/-1.6	73.9	+/-1.6	76.0	+/-1.6	57.7	+/-1.6	74.5	+/-1.6	71.0	+/-1.6	72.9	+/-1.6	70.8	+/-1.6	66.6	+/-1.6	2.3	+/-1.6	0.35	+/-1.62	0.66	+/-1.62	0.63	+/-1.62	0.55	+/-1.62	82.6	+/-1.6	6.6	+/-1.6	4.2	+/-1.6
				PSIpred	77.1	+/-1.1	74.9	+/-1.6	54.0	+/-1.6	76.3	+/-1.6	73.7	+/-1.6	58.0	+/-1.6	75.4	+/-1.6	73.4	+/-1.6	78.4	+/-1.6	67.1	+/-1.6	69.4	+/-1.6	2.5	+/-1.6	0.38	+/-1.62	0.68	+/-1.62	0.61	+/-1.62	0.57	+/-1.62	86.0	+/-1.6	5.2	+/-1.6	4.5	+/-1.6
				SAM-T99sec	76.3	+/-1.1	77.8	+/-1.6	50.2	+/-1.6	72.0	+/-1.6	72.7	+/-1.6	62.4	+/-1.6	74.4	+/-1.6	71.3	+/-1.6	76.6	+/-1.6	65.6	+/-1.6	65.6	+/-1.6	2.0	+/-1.6	0.36	+/-1.62	0.65	+/-1.62	0.63	+/-1.62	0.55	+/-1.62	77.9	+/-1.6	6.4	+/-1.6	5.1	+/-1.6
				SSpro	76.2	+/-1.1	76.1	+/-1.6	49.7	+/-1.6	76.6	+/-1.6	73.1	+/-1.6	60.1	+/-1.6	74.1	+/-1.6	70.3	+/-1.6	76.6	+/-1.6	65.7	+/-1.6	67.0	+/-1.6	2.3	+/-1.6	0.36	+/-1.62	0.68	+/-1.62	0.62	+/-1.62	0.55	+/-1.62	80.2	+/-1.6	6.0	+/-1.6	5.4	+/-1.6
common 1	86	dssp	2	JPRED	75.5	+/-1.0	68.1	+/-1.6	43.7	+/-1.6	81.0	+/-1.6	74.6	+/-1.6	60.8	+/-1.6	68.9	+/-1.6	68.2	+/-1.6	70.4	+/-1.6	62.1	+/-1.6	66.0	+/-1.6	1.9	+/-1.6	0.34	+/-1.62	0.66	+/-1.62	0.59	+/-1.62	0.53	+/-1.62	79.1	+/-1.6	6.3	+/-1.6	5.8	+/-1.6
				PHDpsi	75.1	+/-0.9	72.3	+/-1.6	52.1	+/-1.6	72.7	+/-1.6	72.9	+/-1.6	56.7	+/-1.6	72.8	+/-1.6	70.0	+/-1.6	73.9	+/-1.6	66.4	+/-1.6	64.6	+/-1.6	2.5	+/-1.6	0.23	+/-1.62	0.64	+/-1.62	0.59	+/-1.62	0.52	+/-1.62	80.2	+/-1.6	6.0	+/-1.6	4.7	+/-1.6
common 1	86	dssp	3	PHD	72.5	+/-1.0	70.5	+/-1.6	52.6	+/-1.6	69.2	+/-1.6	71.2	+/-1.6	51.9	+/-1.6	71.7	+/-1.6	68.2	+/-1.6	71.5	+/-1.6	65.7	+/-1.6	63.3	+/-1.6	3.4	+/-1.6	0.20	+/-1.62	0.60	+/-1.62	0.58	+/-1.62	0.49	+/-1.62	76.7	+/-1.6	7.5	+/-1.6	5.5	+/-1.6
common 1	86	dssp	4	PSSP	64.3	+/-1.1	58.5	+/-1.6	48.1	+/-1.6	65.6	+/-1.6	64.8	+/-1.6	44.5	+/-1.6	63.8	+/-1.6	59.5	+/-1.6	60.0	+/-1.6	61.2	+/-1.6	58.2	+/-1.6	5.7	+/-1.6	0.20	+/-1.62	0.48	+/-1.62	0.47	+/-1.62	0.38	+/-1.62	75.6	+/-1.6	9.0	+/-1.6	7.4	+/-1.6

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	PSIpred	76.8	+/-0.8	72.9	+/-2.3	54.0	+/-2.6	76.3	+/-1.0	73.8	+/-2.4	56.4	+/-2.7	75.0	+/-0.9	72.7	+/-1.2	76.4	+/-2.1	69.8	+/-2.2	69.3	+/-1.2	2.3	+/-0.3	0.38	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	81.0	+/-3.2	5.3	+/-0.6	4.6	+/-0.5
				SSpro	76.4	+/-0.8	74.6	+/-2.2	50.7	+/-2.3	76.5	+/-1.0	72.6	+/-2.2	58.8	+/-2.7	74.7	+/-0.9	71.5	+/-1.2	75.6	+/-1.9	69.2	+/-2.0	68.5	+/-1.3	2.5	+/-0.2	0.36	+/-0.01	0.67	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	81.0	+/-3.2	5.9	+/-0.6	4.9	+/-0.4
common 2	147	dssp	2	PROF	76.0	+/-0.7	71.0	+/-2.3	56.7	+/-2.5	74.0	+/-1.1	74.3	+/-2.2	56.1	+/-2.6	74.6	+/-0.9	71.7	+/-1.1	73.0	+/-2.1	72.6	+/-1.9	67.7	+/-1.3	2.4	+/-0.2	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	83.0	+/-3.1	6.1	+/-0.6	4.9	+/-0.4
common 2	147	dssp	3	JPRED	75.1	+/-0.7	65.7	+/-2.3	44.4	+/-2.3	81.9	+/-1.1	73.8	+/-2.5	59.6	+/-2.9	69.3	+/-1.0	69.1	+/-1.3	69.4	+/-2.2	65.5	+/-2.3	68.4	+/-1.4	2.5	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.61	+/-0.02	0.54	+/-0.01	73.5	+/-3.7	7.3	+/-0.6	5.8	+/-0.5
				PHDpsi	75.0	+/-0.7	70.9	+/-2.2	51.6	+/-2.5	72.9	+/-1.2	72.2	+/-2.2	55.5	+/-2.6	73.4	+/-0.8	70.1	+/-1.1	72.6	+/-2.0	68.6	+/-2.1	65.7	+/-1.4	2.9	+/-0.3	0.27	+/-0.06	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	76.9	+/-3.5	6.2	+/-0.6	5.1	+/-0.4
common 2	147	dssp	4	PHD	72.0	+/-0.8	68.4	+/-2.3	50.8	+/-2.4	69.4	+/-1.3	68.8	+/-2.3	51.2	+/-2.5	72.2	+/-1.1	67.9	+/-1.1	70.0	+/-2.1	67.0	+/-2.1	63.7	+/-1.4	3.9	+/-0.3	0.23	+/-0.06	0.59	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	74.8	+/-3.6	7.7	+/-0.7	5.8	+/-0.5
common 2	147	dssp	5	PSSP	64.0	+/-0.8	57.6	+/-2.1	46.2	+/-2.2	66.1	+/-1.0	63.7	+/-2.3	43.3	+/-2.2	64.2	+/-1.1	59.6	+/-1.1	59.8	+/-2.0	62.4	+/-2.1	59.2	+/-1.3	6.2	+/-0.4	0.20	+/-0.01	0.46	+/-0.02	0.48	+/-0.02	0.38	+/-0.01	72.1	+/-3.7	9.7	+/-0.8	7.3	+/-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	169	dssp	1	PROF	75.7	+/-0.7	71.2	+/-2.0	57.3	+/-2.3	74.2	+/-1.0	74.8	+/-2.0	56.3	+/-2.4	74.6	+/-0.8	71.9	+/-1.0	73.0	+/-1.9	73.3	+/-1.7	68.4	+/-1.2	2.6	+/-0.3	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	81.7	+/-3.0	6.1	+/-0.6	4.9	+/-0.4
				PSIpred	76.2	+/-0.8	72.9	+/-2.0	54.0	+/-2.4	75.9	+/-0.9	73.7	+/-2.1	56.1	+/-2.5	74.9	+/-0.9	72.5	+/-1.1	75.9	+/-1.9	69.8	+/-2.0	69.3	+/-1.1	2.7	+/-0.3	0.37	+/-0.01	0.65	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	79.9	+/-3.1	5.4	+/-0.5	4.5	+/-0.4
				SSpro	75.8	+/-0.8	73.8	+/-1.9	51.3	+/-2.2	76.5	+/-0.9	73.0	+/-2.0	58.7	+/-2.5	74.2	+/-0.8	71.1	+/-1.1	74.8	+/-1.7	69.5	+/-1.9	68.5	+/-1.2	2.7	+/-0.2	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	82.8	+/-2.9	6.2	+/-0.6	5.1	+/-0.4
common 3	169	dssp	2	JPRED	74.9	+/-0.7	65.5	+/-2.1	45.2	+/-2.2	82.4	+/-1.0	74.5	+/-2.2	60.9	+/-2.7	69.3	+/-0.9	69.6	+/-1.2	69.5	+/-2.0	66.3	+/-2.1	69.3	+/-1.2	2.5	+/-0.3	0.34	+/-0.01	0.64	+/-0.02	0.61	+/-0.02	0.54	+/-0.01	76.3	+/-3.3	7.4	+/-0.6	5.8	+/-0.4
				PHDpsi	74.8	+/-0.7	71.7	+/-2.0	52.2	+/-2.3	73.0	+/-1.1	73.0	+/-2.0	55.9	+/-2.4	73.4	+/-0.8	70.5	+/-1.0	73.1	+/-1.8	69.4	+/-1.9	66.2	+/-1.3	2.9	+/-0.3	0.28	+/-0.05	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	79.3	+/-3.1	6.1	+/-0.6	5.0	+/-0.4
common 3	169	dssp	3	PHD	71.4	+/-0.8	68.1	+/-2.1	51.3	+/-2.2	69.4	+/-1.2	68.9	+/-2.0	51.1	+/-2.3	71.9	+/-1.0	67.7	+/-1.0	69.4	+/-1.9	67.3	+/-1.9	63.8	+/-1.2	4.2	+/-0.3	0.24	+/-0.05	0.58	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	76.3	+/-3.3	7.8	+/-0.7	5.8	+/-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	213	dssp	1	PSIpred	76.7	+/-0.7	74.1	+/-1.8	53.3	+/-2.1	75.9	+/-0.8	74.3	+/-1.9	55.6	+/-2.2	74.6	+/-0.8	72.9	+/-0.9	77.0	+/-1.6	70.7	+/-1.8	69.5	+/-0.9	2.5	+/-0.2	0.37	+/-0.01	0.66	+/-0.02	0.65	+/-0.02	0.56	+/-0.01	78.4	+/-2.8	5.4	+/-0.5	4.3	+/-0.4
common 4	213	dssp	2	PROF	75.9	+/-0.6	72.0	+/-1.8	56.4	+/-2.1	74.4	+/-0.8	75.6	+/-1.8	55.4	+/-2.2	74.1	+/-0.8	72.5	+/-0.9	74.4	+/-1.6	73.9	+/-1.5	68.6	+/-1.0	2.6	+/-0.2	0.35	+/-0.01	0.66	+/-0.01	0.65	+/-0.02	0.55	+/-0.01	80.3	+/-2.7	6.2	+/-0.5	4.8	+/-0.4
common 4	213	dssp	3	PHDpsi	74.7	+/-0.6	72.1	+/-1.8	50.9	+/-2.1	72.7	+/-1.0	73.4	+/-1.8	54.7	+/-2.2	72.6	+/-0.8	70.7	+/-0.9	74.1	+/-1.6	69.5	+/-1.7	65.7	+/-1.1	2.9	+/-0.3	0.29	+/-0.04	0.64	+/-0.01	0.62	+/-0.02	0.53	+/-0.01	77.0	+/-2.9	6.4	+/-0.6	5.0	+/-0.4
common 4	213	dssp	4	PHD	71.8	+/-0.7	69.3	+/-1.8	50.3	+/-2.0	69.0	+/-1.0	69.6	+/-1.8	51.0	+/-2.1	71.6	+/-0.9	68.1	+/-0.9	70.5	+/-1.6	67.8	+/-1.7	63.5	+/-1.0	3.9	+/-0.3	0.25	+/-0.04	0.58	+/-0.02	0.60	+/-0.02	0.49	+/-0.01	75.6	+/-3.0	7.9	+/-0.6	5.6	+/-0.4

All results

Last update: Nov 30, 2000
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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