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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		248	35
JPRED		189	29	method/jpred.html
PHD		243	35	method/phd.html
PHDpsi		243	35	method/phdpsi.html
PROF		239	33	method/prof.html
PSIpred		240	34	method/psipred.html
PSSP		187	25	method/pssp.html
SAM-T99sec		123	22	method/samt99_sec.html
SSpro		217	31	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: 99 proteins and 8 methods
set 2: 164 proteins and 7 methods
set 3: 186 proteins and 6 methods
set 4: 239 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	99	dssp	1	PROF	76.0	+/-0.9	71.2	+/-1.5	57.4	+/-1.5	74.0	+/-1.5	75.7	+/-1.5	57.9	+/-1.5	74.5	+/-1.5	71.1	+/-1.5	73.2	+/-1.5	70.0	+/-1.5	67.1	+/-1.5	2.5	+/-1.5	0.35	+/-1.51	0.66	+/-1.51	0.62	+/-1.51	0.55	+/-1.51	81.8	+/-1.5	6.7	+/-1.5	4.8	+/-1.5
				PSIpred	77.3	+/-1.0	75.7	+/-1.5	53.8	+/-1.5	76.3	+/-1.5	73.7	+/-1.5	58.1	+/-1.5	75.6	+/-1.5	73.3	+/-1.5	79.4	+/-1.5	66.6	+/-1.5	69.6	+/-1.5	2.4	+/-1.5	0.38	+/-1.51	0.69	+/-1.51	0.60	+/-1.51	0.57	+/-1.51	84.8	+/-1.5	5.2	+/-1.5	4.5	+/-1.5
				SAM-T99sec	76.5	+/-1.0	77.3	+/-1.5	50.7	+/-1.5	72.6	+/-1.5	72.2	+/-1.5	62.6	+/-1.5	74.6	+/-1.5	71.6	+/-1.5	77.4	+/-1.5	65.5	+/-1.5	66.2	+/-1.5	1.9	+/-1.5	0.36	+/-1.51	0.67	+/-1.51	0.63	+/-1.51	0.55	+/-1.51	79.8	+/-1.5	6.2	+/-1.5	5.1	+/-1.5
				SSpro	76.2	+/-1.0	75.3	+/-1.5	49.8	+/-1.5	76.8	+/-1.5	72.8	+/-1.5	60.0	+/-1.5	74.1	+/-1.5	70.2	+/-1.5	76.7	+/-1.5	65.1	+/-1.5	66.9	+/-1.5	2.3	+/-1.5	0.36	+/-1.51	0.69	+/-1.51	0.62	+/-1.51	0.55	+/-1.51	79.8	+/-1.5	6.2	+/-1.5	5.8	+/-1.5
common 1	99	dssp	2	JPRED	75.6	+/-0.9	67.2	+/-1.5	44.7	+/-1.5	81.4	+/-1.5	73.4	+/-1.5	61.4	+/-1.5	69.2	+/-1.5	68.4	+/-1.5	70.1	+/-1.5	62.3	+/-1.5	66.6	+/-1.5	1.8	+/-1.5	0.34	+/-1.51	0.68	+/-1.51	0.60	+/-1.51	0.53	+/-1.51	77.8	+/-1.5	6.4	+/-1.5	5.9	+/-1.5
				PHDpsi	74.9	+/-0.9	71.5	+/-1.5	51.9	+/-1.5	72.9	+/-1.5	71.1	+/-1.5	57.3	+/-1.5	72.7	+/-1.5	69.4	+/-1.5	73.3	+/-1.5	65.6	+/-1.5	64.4	+/-1.5	2.7	+/-1.5	0.24	+/-1.51	0.64	+/-1.51	0.58	+/-1.51	0.52	+/-1.51	80.8	+/-1.5	6.2	+/-1.5	4.9	+/-1.5
common 1	99	dssp	3	PHD	72.3	+/-1.0	69.7	+/-1.5	52.9	+/-1.5	69.5	+/-1.5	69.5	+/-1.5	53.0	+/-1.5	71.6	+/-1.5	67.9	+/-1.5	71.4	+/-1.5	65.2	+/-1.5	63.2	+/-1.5	3.5	+/-1.5	0.21	+/-1.51	0.61	+/-1.51	0.58	+/-1.51	0.49	+/-1.51	76.8	+/-1.5	7.6	+/-1.5	5.6	+/-1.5
common 1	99	dssp	4	PSSP	64.2	+/-1.0	58.2	+/-1.5	48.4	+/-1.5	65.5	+/-1.5	63.7	+/-1.5	44.3	+/-1.5	64.5	+/-1.5	59.2	+/-1.5	59.7	+/-1.5	60.5	+/-1.5	58.4	+/-1.5	5.9	+/-1.5	0.20	+/-1.51	0.49	+/-1.51	0.46	+/-1.51	0.38	+/-1.51	74.7	+/-1.5	9.2	+/-1.5	7.5	+/-1.5

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 2			Sorted alphabetically for identical ranks!		MORE SCORES
common 2	164	dssp	1	PROF	75.9	+/-0.7	70.8	+/-2.2	56.5	+/-2.4	74.3	+/-1.0	74.5	+/-2.1	56.4	+/-2.4	74.5	+/-0.9	71.7	+/-1.1	73.3	+/-1.9	72.0	+/-1.9	67.8	+/-1.2	2.6	+/-0.3	0.35	+/-0.01	0.66	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	82.3	+/-3.0	6.1	+/-0.6	5.1	+/-0.4
				PSIpred	77.0	+/-0.8	73.7	+/-2.1	53.7	+/-2.5	76.5	+/-1.0	74.0	+/-2.2	56.8	+/-2.6	75.1	+/-0.9	72.8	+/-1.1	77.3	+/-1.9	69.5	+/-2.1	69.5	+/-1.1	2.3	+/-0.3	0.38	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	80.5	+/-3.1	5.3	+/-0.5	4.6	+/-0.4
				SSpro	76.3	+/-0.7	74.0	+/-2.1	50.7	+/-2.2	76.7	+/-1.0	72.8	+/-2.1	58.8	+/-2.6	74.5	+/-0.9	71.2	+/-1.2	75.6	+/-1.8	68.8	+/-2.0	68.2	+/-1.2	2.4	+/-0.2	0.36	+/-0.01	0.68	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	80.5	+/-3.1	6.0	+/-0.6	5.2	+/-0.4
common 2	164	dssp	2	JPRED	75.2	+/-0.7	65.2	+/-2.3	45.1	+/-2.2	82.3	+/-1.0	73.6	+/-2.4	60.2	+/-2.7	69.3	+/-0.9	69.1	+/-1.2	69.2	+/-2.1	65.7	+/-2.2	68.4	+/-1.3	2.3	+/-0.3	0.34	+/-0.01	0.66	+/-0.02	0.61	+/-0.02	0.54	+/-0.01	73.2	+/-3.5	7.4	+/-0.6	5.9	+/-0.4
				PHDpsi	74.8	+/-0.7	70.4	+/-2.2	51.4	+/-2.4	73.2	+/-1.1	71.5	+/-2.2	55.9	+/-2.5	73.2	+/-0.8	69.7	+/-1.1	72.2	+/-1.9	68.0	+/-2.0	65.4	+/-1.3	3.0	+/-0.3	0.28	+/-0.05	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	77.4	+/-3.3	6.4	+/-0.6	5.2	+/-0.4
common 2	164	dssp	3	PHD	71.9	+/-0.8	68.0	+/-2.2	51.1	+/-2.2	69.7	+/-1.2	68.2	+/-2.2	51.9	+/-2.3	71.9	+/-1.0	67.7	+/-1.1	69.9	+/-2.0	66.7	+/-2.0	63.5	+/-1.3	4.0	+/-0.3	0.24	+/-0.05	0.59	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	75.0	+/-3.4	7.7	+/-0.7	5.7	+/-0.5
common 2	164	dssp	4	PSSP	63.9	+/-0.8	57.5	+/-2.0	46.3	+/-2.1	66.0	+/-1.0	63.1	+/-2.2	43.3	+/-2.1	64.4	+/-1.0	59.3	+/-1.0	59.6	+/-1.9	61.9	+/-2.0	59.2	+/-1.2	6.4	+/-0.4	0.20	+/-0.01	0.47	+/-0.02	0.47	+/-0.02	0.38	+/-0.01	71.3	+/-3.5	9.7	+/-0.7	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	186	dssp	1	PROF	75.7	+/-0.7	71.0	+/-1.9	57.0	+/-2.2	74.4	+/-0.9	74.9	+/-1.9	56.5	+/-2.3	74.5	+/-0.8	71.9	+/-1.0	73.2	+/-1.8	72.8	+/-1.7	68.4	+/-1.1	2.7	+/-0.3	0.35	+/-0.01	0.66	+/-0.01	0.64	+/-0.02	0.55	+/-0.01	81.2	+/-2.9	6.1	+/-0.6	5.1	+/-0.4
				PSIpred	76.4	+/-0.7	73.5	+/-1.9	53.8	+/-2.3	76.2	+/-0.9	73.9	+/-2.0	56.5	+/-2.4	75.0	+/-0.8	72.5	+/-1.0	76.7	+/-1.8	69.6	+/-1.9	69.5	+/-1.0	2.6	+/-0.3	0.37	+/-0.01	0.66	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	79.6	+/-3.0	5.3	+/-0.5	4.6	+/-0.4
				SSpro	75.8	+/-0.7	73.3	+/-1.9	51.2	+/-2.1	76.7	+/-0.9	73.2	+/-1.9	58.7	+/-2.4	74.0	+/-0.8	70.9	+/-1.1	74.8	+/-1.7	69.1	+/-1.8	68.2	+/-1.1	2.6	+/-0.2	0.35	+/-0.01	0.66	+/-0.01	0.64	+/-0.02	0.55	+/-0.01	82.3	+/-2.8	6.3	+/-0.5	5.3	+/-0.4
common 3	186	dssp	2	JPRED	75.0	+/-0.7	65.0	+/-2.0	45.7	+/-2.1	82.7	+/-0.9	74.2	+/-2.2	61.3	+/-2.5	69.3	+/-0.8	69.6	+/-1.1	69.4	+/-1.9	66.4	+/-2.0	69.2	+/-1.2	2.4	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.62	+/-0.02	0.54	+/-0.01	75.8	+/-3.1	7.4	+/-0.5	5.9	+/-0.4
				PHDpsi	74.7	+/-0.6	71.1	+/-1.9	52.0	+/-2.2	73.2	+/-1.0	72.3	+/-2.0	56.2	+/-2.3	73.2	+/-0.7	70.0	+/-1.0	72.8	+/-1.7	68.8	+/-1.9	65.8	+/-1.2	2.9	+/-0.3	0.28	+/-0.04	0.64	+/-0.02	0.61	+/-0.02	0.53	+/-0.01	79.6	+/-3.0	6.2	+/-0.6	5.1	+/-0.4
common 3	186	dssp	3	PHD	71.4	+/-0.7	67.7	+/-2.0	51.4	+/-2.1	69.7	+/-1.1	68.4	+/-2.0	51.7	+/-2.2	71.7	+/-0.9	67.5	+/-1.0	69.4	+/-1.8	67.1	+/-1.9	63.6	+/-1.2	4.2	+/-0.3	0.24	+/-0.04	0.58	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	76.3	+/-3.1	7.8	+/-0.6	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	239	dssp	1	PROF	76.1	+/-0.6	72.1	+/-1.7	55.6	+/-2.0	74.2	+/-0.8	76.3	+/-1.6	55.1	+/-2.1	74.3	+/-0.8	72.5	+/-0.9	74.8	+/-1.5	73.4	+/-1.5	68.3	+/-1.0	2.6	+/-0.2	0.35	+/-0.01	0.66	+/-0.01	0.65	+/-0.01	0.55	+/-0.01	79.9	+/-2.6	6.2	+/-0.5	5.0	+/-0.4
				PSIpred	77.0	+/-0.6	74.9	+/-1.6	52.9	+/-2.0	76.0	+/-0.8	75.1	+/-1.7	55.9	+/-2.1	74.3	+/-0.8	72.8	+/-0.9	77.5	+/-1.5	71.0	+/-1.7	69.4	+/-0.9	2.3	+/-0.2	0.38	+/-0.01	0.67	+/-0.01	0.65	+/-0.02	0.56	+/-0.01	78.7	+/-2.7	5.4	+/-0.4	4.4	+/-0.3
common 4	239	dssp	2	PHDpsi	74.8	+/-0.6	72.0	+/-1.7	50.2	+/-2.0	72.9	+/-0.9	73.4	+/-1.7	54.5	+/-2.1	72.3	+/-0.8	70.4	+/-0.9	74.2	+/-1.5	69.0	+/-1.7	65.4	+/-1.1	2.9	+/-0.2	0.29	+/-0.03	0.64	+/-0.01	0.62	+/-0.02	0.52	+/-0.01	77.4	+/-2.7	6.5	+/-0.5	5.0	+/-0.4
common 4	239	dssp	3	PHD	72.0	+/-0.6	69.4	+/-1.7	49.9	+/-1.9	69.2	+/-1.0	69.9	+/-1.7	50.9	+/-2.0	71.2	+/-0.9	68.1	+/-0.9	70.9	+/-1.6	67.6	+/-1.6	63.3	+/-1.0	3.9	+/-0.3	0.26	+/-0.03	0.58	+/-0.01	0.60	+/-0.02	0.49	+/-0.01	75.7	+/-2.8	7.8	+/-0.6	5.5	+/-0.4

All results

Last update: Dec 20, 2000
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

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