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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		219	31
JPRED		173	26	method/jpred.html
PHD		217	31	method/phd.html
PHDpsi		217	31	method/phdpsi.html
PROF		213	29	method/prof.html
PSIpred		216	30	method/psipred.html
PSSP		163	21	method/pssp.html
SAM-T99sec		69	13	method/samt99_sec.html
SSpro		193	27	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: 61 proteins and 8 methods
set 2: 148 proteins and 7 methods
set 3: 170 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	61	dssp	1	PROF	77.0	+/-1.0	72.2	+/-1.9	59.8	+/-1.9	76.9	+/-1.9	78.5	+/-1.9	64.1	+/-1.9	72.8	+/-1.9	72.5	+/-1.9	73.6	+/-1.9	70.6	+/-1.9	69.0	+/-1.9	2.4	+/-1.9	0.37	+/-1.92	0.67	+/-1.92	0.64	+/-1.92	0.56	+/-1.92	83.6	+/-1.9	6.2	+/-1.9	4.2	+/-1.9
				PSIpred	77.5	+/-1.3	76.1	+/-1.9	56.2	+/-1.9	78.2	+/-1.9	75.3	+/-1.9	64.2	+/-1.9	74.0	+/-1.9	74.0	+/-1.9	79.2	+/-1.9	66.4	+/-1.9	71.2	+/-1.9	3.0	+/-1.9	0.39	+/-1.92	0.68	+/-1.92	0.60	+/-1.92	0.58	+/-1.92	88.5	+/-1.9	5.0	+/-1.9	4.3	+/-1.9
				SAM-T99sec	77.2	+/-1.1	77.3	+/-1.9	52.0	+/-1.9	75.3	+/-1.9	76.1	+/-1.9	69.7	+/-1.9	70.8	+/-1.9	73.1	+/-1.9	77.6	+/-1.9	64.1	+/-1.9	68.4	+/-1.9	1.8	+/-1.9	0.37	+/-1.92	0.68	+/-1.92	0.61	+/-1.92	0.55	+/-1.92	78.7	+/-1.9	4.5	+/-1.9	5.7	+/-1.9
				SSpro	76.7	+/-1.1	77.2	+/-1.9	51.0	+/-1.9	78.8	+/-1.9	75.2	+/-1.9	65.8	+/-1.9	72.2	+/-1.9	70.6	+/-1.9	77.0	+/-1.9	63.8	+/-1.9	68.2	+/-1.9	2.3	+/-1.9	0.37	+/-1.92	0.69	+/-1.92	0.62	+/-1.92	0.55	+/-1.92	83.6	+/-1.9	5.1	+/-1.9	5.9	+/-1.9
common 1	61	dssp	2	JPRED	75.4	+/-1.1	68.3	+/-1.9	45.1	+/-1.9	83.6	+/-1.9	76.6	+/-1.9	67.7	+/-1.9	67.1	+/-1.9	68.2	+/-1.9	70.9	+/-1.9	60.5	+/-1.9	67.1	+/-1.9	2.0	+/-1.9	0.35	+/-1.92	0.67	+/-1.92	0.57	+/-1.92	0.53	+/-1.92	82.0	+/-1.9	6.3	+/-1.9	6.7	+/-1.9
				PHDpsi	76.0	+/-1.0	72.9	+/-1.9	55.7	+/-1.9	75.6	+/-1.9	75.3	+/-1.9	63.0	+/-1.9	71.7	+/-1.9	71.9	+/-1.9	75.2	+/-1.9	66.8	+/-1.9	67.3	+/-1.9	2.6	+/-1.9	0.35	+/-1.92	0.66	+/-1.92	0.60	+/-1.92	0.54	+/-1.92	83.6	+/-1.9	5.5	+/-1.9	5.0	+/-1.9
common 1	61	dssp	3	PHD	72.8	+/-1.2	69.9	+/-1.9	55.9	+/-1.9	72.0	+/-1.9	73.9	+/-1.9	57.0	+/-1.9	70.1	+/-1.9	69.6	+/-1.9	72.5	+/-1.9	66.3	+/-1.9	65.5	+/-1.9	3.7	+/-1.9	0.30	+/-1.92	0.61	+/-1.92	0.58	+/-1.92	0.51	+/-1.92	82.0	+/-1.9	7.1	+/-1.9	5.8	+/-1.9
common 1	61	dssp	4	PSSP	64.1	+/-1.0	58.6	+/-1.9	52.0	+/-1.9	67.2	+/-1.9	68.1	+/-1.9	48.0	+/-1.9	62.4	+/-1.9	60.6	+/-1.9	60.7	+/-1.9	60.5	+/-1.9	60.2	+/-1.9	6.4	+/-1.9	0.20	+/-1.92	0.48	+/-1.92	0.45	+/-1.92	0.39	+/-1.92	77.0	+/-1.9	9.0	+/-1.9	8.0	+/-1.9

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	148	dssp	1	PSIpred	76.8	+/-0.8	72.8	+/-2.2	54.6	+/-2.6	76.5	+/-1.0	73.8	+/-2.3	56.9	+/-2.6	74.9	+/-0.9	72.7	+/-1.2	76.2	+/-2.1	69.6	+/-2.2	69.6	+/-1.2	2.3	+/-0.3	0.38	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	81.1	+/-3.2	5.2	+/-0.6	4.7	+/-0.4
				SSpro	76.3	+/-0.8	74.4	+/-2.1	51.3	+/-2.3	76.5	+/-1.0	72.5	+/-2.2	59.6	+/-2.6	74.4	+/-0.9	71.4	+/-1.2	75.4	+/-1.9	69.1	+/-2.0	68.7	+/-1.2	2.4	+/-0.2	0.36	+/-0.01	0.67	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	81.1	+/-3.2	5.8	+/-0.6	4.9	+/-0.4
common 2	148	dssp	2	PROF	75.9	+/-0.7	70.9	+/-2.3	57.2	+/-2.4	74.1	+/-1.1	74.3	+/-2.2	56.8	+/-2.5	74.5	+/-0.9	71.6	+/-1.1	72.9	+/-2.1	72.4	+/-1.9	67.8	+/-1.3	2.4	+/-0.2	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	82.4	+/-3.1	6.0	+/-0.6	5.0	+/-0.4
common 2	148	dssp	3	JPRED	74.9	+/-0.7	65.4	+/-2.3	45.0	+/-2.3	82.1	+/-1.1	74.0	+/-2.5	60.2	+/-2.8	69.2	+/-1.0	68.9	+/-1.3	69.3	+/-2.2	65.4	+/-2.3	68.2	+/-1.4	2.5	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.60	+/-0.02	0.53	+/-0.01	74.3	+/-3.6	7.4	+/-0.6	5.9	+/-0.5
				PHDpsi	74.9	+/-0.7	70.8	+/-2.2	52.1	+/-2.4	73.1	+/-1.2	72.2	+/-2.2	56.3	+/-2.6	73.4	+/-0.8	70.2	+/-1.1	72.4	+/-2.0	68.5	+/-2.1	66.1	+/-1.3	2.9	+/-0.3	0.27	+/-0.06	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	76.4	+/-3.5	6.2	+/-0.6	5.2	+/-0.4
common 2	148	dssp	4	PHD	71.8	+/-0.8	68.1	+/-2.3	51.2	+/-2.3	69.7	+/-1.3	68.7	+/-2.3	52.0	+/-2.4	72.0	+/-1.1	67.7	+/-1.1	69.4	+/-2.0	66.6	+/-2.1	63.8	+/-1.3	4.0	+/-0.3	0.23	+/-0.06	0.59	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	75.0	+/-3.6	7.6	+/-0.7	5.9	+/-0.5
common 2	148	dssp	5	PSSP	64.0	+/-0.8	57.6	+/-2.0	46.5	+/-2.2	66.1	+/-1.0	63.5	+/-2.3	43.7	+/-2.1	64.3	+/-1.1	59.5	+/-1.1	59.9	+/-2.0	62.1	+/-2.1	59.0	+/-1.3	6.3	+/-0.4	0.20	+/-0.01	0.46	+/-0.02	0.47	+/-0.02	0.38	+/-0.01	71.6	+/-3.7	9.5	+/-0.7	7.2	+/-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	170	dssp	1	PROF	75.7	+/-0.7	71.1	+/-2.0	57.7	+/-2.2	74.4	+/-1.0	74.8	+/-2.0	56.9	+/-2.3	74.5	+/-0.8	71.8	+/-1.0	72.9	+/-1.9	73.1	+/-1.7	68.5	+/-1.1	2.6	+/-0.3	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	81.2	+/-3.0	6.0	+/-0.6	5.0	+/-0.4
				PSIpred	76.2	+/-0.8	72.7	+/-2.0	54.6	+/-2.4	76.1	+/-0.9	73.7	+/-2.1	56.6	+/-2.4	74.7	+/-0.8	72.4	+/-1.1	75.7	+/-1.9	69.7	+/-2.0	69.6	+/-1.1	2.7	+/-0.3	0.37	+/-0.01	0.65	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	80.0	+/-3.1	5.3	+/-0.5	4.6	+/-0.4
				SSpro	75.6	+/-0.7	73.6	+/-1.9	51.8	+/-2.1	76.6	+/-0.9	72.9	+/-1.9	59.4	+/-2.4	73.9	+/-0.8	71.0	+/-1.1	74.6	+/-1.7	69.4	+/-1.9	68.7	+/-1.1	2.7	+/-0.2	0.35	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.55	+/-0.01	82.9	+/-2.9	6.1	+/-0.5	5.1	+/-0.4
common 3	170	dssp	2	JPRED	74.8	+/-0.7	65.2	+/-2.1	45.7	+/-2.1	82.5	+/-0.9	74.6	+/-2.2	61.5	+/-2.6	69.2	+/-0.9	69.5	+/-1.1	69.5	+/-2.0	66.2	+/-2.1	69.1	+/-1.2	2.5	+/-0.3	0.34	+/-0.01	0.64	+/-0.02	0.61	+/-0.02	0.54	+/-0.01	77.1	+/-3.2	7.4	+/-0.6	5.9	+/-0.4
				PHDpsi	74.8	+/-0.7	71.5	+/-2.0	52.7	+/-2.3	73.2	+/-1.1	73.0	+/-2.0	56.6	+/-2.4	73.4	+/-0.8	70.5	+/-1.0	72.9	+/-1.8	69.3	+/-1.9	66.5	+/-1.2	2.9	+/-0.3	0.28	+/-0.05	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	78.8	+/-3.1	6.0	+/-0.6	5.1	+/-0.4
common 3	170	dssp	3	PHD	71.3	+/-0.8	67.9	+/-2.1	51.6	+/-2.2	69.7	+/-1.2	68.8	+/-2.0	51.7	+/-2.2	71.7	+/-1.0	67.4	+/-1.0	69.0	+/-1.9	66.9	+/-1.9	64.0	+/-1.2	4.2	+/-0.3	0.24	+/-0.05	0.58	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	76.5	+/-3.3	7.7	+/-0.7	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	213	dssp	1	PSIpred	76.6	+/-0.7	73.9	+/-1.8	54.0	+/-2.1	76.1	+/-0.8	74.3	+/-1.8	56.3	+/-2.2	74.5	+/-0.8	72.9	+/-0.9	76.9	+/-1.6	70.5	+/-1.8	69.7	+/-1.0	2.5	+/-0.2	0.37	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	78.4	+/-2.8	5.4	+/-0.5	4.4	+/-0.4
common 4	213	dssp	2	PROF	75.8	+/-0.6	71.8	+/-1.8	57.0	+/-2.1	74.5	+/-0.8	75.6	+/-1.8	56.1	+/-2.1	74.1	+/-0.8	72.6	+/-0.9	74.3	+/-1.6	73.7	+/-1.5	68.8	+/-1.0	2.6	+/-0.2	0.35	+/-0.01	0.66	+/-0.01	0.65	+/-0.02	0.55	+/-0.01	79.8	+/-2.8	6.2	+/-0.5	4.9	+/-0.4
common 4	213	dssp	3	PHDpsi	74.6	+/-0.6	71.9	+/-1.8	51.5	+/-2.0	73.0	+/-1.0	73.2	+/-1.8	55.5	+/-2.2	72.8	+/-0.8	70.6	+/-0.9	73.8	+/-1.6	69.3	+/-1.7	66.0	+/-1.1	2.9	+/-0.3	0.29	+/-0.04	0.64	+/-0.01	0.61	+/-0.02	0.53	+/-0.01	76.5	+/-2.9	6.3	+/-0.6	5.1	+/-0.4
common 4	213	dssp	4	PHD	71.6	+/-0.7	69.1	+/-1.8	50.8	+/-1.9	69.2	+/-1.0	69.4	+/-1.8	51.8	+/-2.1	71.6	+/-0.9	67.8	+/-0.8	70.0	+/-1.6	67.4	+/-1.7	63.6	+/-1.0	4.0	+/-0.3	0.25	+/-0.04	0.58	+/-0.02	0.60	+/-0.02	0.49	+/-0.01	75.6	+/-3.0	7.8	+/-0.6	5.7	+/-0.4

All results

Last update: Nov 22, 2000
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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