Home - sec - acc - cm - fr - con - Bottom

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		194	28
JPRED		153	23	method/jpred.html
PHD		194	28	method/phd.html
PHDpsi		194	28	method/phdpsi.html
PROF		190	26	method/prof.html
PSIpred		191	27	method/psipred.html
PSSP		138	18	method/pssp.html
SAM-T99sec		17	6	method/samt99_sec.html
SSpro		168	24	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: 16 proteins and 8 methods
set 2: 128 proteins and 7 methods
set 3: 150 proteins and 6 methods
set 4: 190 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	16	dssp	1	JPRED	78.0	+/-1.0	75.6	+/-3.8	44.7	+/-3.8	85.1	+/-3.8	88.4	+/-3.8	65.1	+/-3.8	67.1	+/-3.8	71.8	+/-3.8	73.5	+/-3.8	72.5	+/-3.8	71.1	+/-3.8	0.9	+/-3.8	0.37	+/-3.75	0.67	+/-3.75	0.68	+/-3.75	0.58	+/-3.75	93.8	+/-3.8	6.1	+/-3.8	3.6	+/-3.8
				PHD	76.4	+/-1.3	77.5	+/-3.8	46.6	+/-3.8	76.9	+/-3.8	85.6	+/-3.8	50.9	+/-3.8	70.8	+/-3.8	71.2	+/-3.8	77.4	+/-3.8	70.0	+/-3.8	65.8	+/-3.8	2.8	+/-3.8	0.33	+/-3.75	0.65	+/-3.75	0.60	+/-3.75	0.56	+/-3.75	93.8	+/-3.8	6.0	+/-3.8	2.5	+/-3.8
				PHDpsi	77.1	+/-1.4	79.8	+/-3.8	48.6	+/-3.8	74.3	+/-3.8	84.3	+/-3.8	56.4	+/-3.8	71.2	+/-3.8	70.1	+/-3.8	77.1	+/-3.8	71.3	+/-3.8	62.5	+/-3.8	1.7	+/-3.8	0.34	+/-3.75	0.65	+/-3.75	0.64	+/-3.75	0.55	+/-3.75	93.8	+/-3.8	5.6	+/-3.8	2.6	+/-3.8
				PROF	78.1	+/-1.3	79.1	+/-3.8	53.1	+/-3.8	77.4	+/-3.8	85.2	+/-3.8	58.7	+/-3.8	70.6	+/-3.8	71.0	+/-3.8	75.4	+/-3.8	76.6	+/-3.8	64.2	+/-3.8	1.4	+/-3.8	0.35	+/-3.75	0.66	+/-3.75	0.70	+/-3.75	0.57	+/-3.75	93.8	+/-3.8	5.9	+/-3.8	1.5	+/-3.8
				PSIpred	77.7	+/-2.0	79.8	+/-3.8	45.4	+/-3.8	79.6	+/-3.8	82.9	+/-3.8	49.4	+/-3.8	73.1	+/-3.8	73.6	+/-3.8	78.9	+/-3.8	68.3	+/-3.8	71.2	+/-3.8	3.5	+/-3.8	0.36	+/-3.75	0.65	+/-3.75	0.60	+/-3.75	0.60	+/-3.75	100.0	+/-3.8	5.4	+/-3.8	2.2	+/-3.8
				SAM-T99sec	77.8	+/-1.3	85.4	+/-3.8	38.3	+/-3.8	75.6	+/-3.8	79.6	+/-3.8	65.7	+/-3.8	72.8	+/-3.8	72.2	+/-3.8	80.6	+/-3.8	63.3	+/-3.8	67.2	+/-3.8	2.1	+/-3.8	0.34	+/-3.75	0.65	+/-3.75	0.64	+/-3.75	0.57	+/-3.75	93.8	+/-3.8	3.3	+/-3.8	4.8	+/-3.8
				SSpro	76.2	+/-1.6	79.2	+/-3.8	40.5	+/-3.8	78.1	+/-3.8	80.6	+/-3.8	54.3	+/-3.8	69.5	+/-3.8	69.6	+/-3.8	76.1	+/-3.8	63.6	+/-3.8	65.8	+/-3.8	2.4	+/-3.8	0.31	+/-3.75	0.63	+/-3.75	0.60	+/-3.75	0.55	+/-3.75	87.5	+/-3.8	3.1	+/-3.8	3.1	+/-3.8
common 1	16	dssp	2	PSSP	65.4	+/-2.0	61.8	+/-3.8	45.9	+/-3.8	71.6	+/-3.8	80.4	+/-3.8	39.8	+/-3.8	61.1	+/-3.8	57.6	+/-3.8	59.6	+/-3.8	66.1	+/-3.8	58.1	+/-3.8	6.2	+/-3.8	0.22	+/-3.75	0.51	+/-3.75	0.53	+/-3.75	0.42	+/-3.75	87.5	+/-3.8	12.3	+/-3.8	5.7	+/-3.8

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	128	dssp	1	PROF	76.3	+/-0.7	70.4	+/-2.5	57.0	+/-2.6	75.4	+/-1.1	74.2	+/-2.4	57.5	+/-2.7	74.4	+/-1.0	71.8	+/-1.2	73.1	+/-2.2	71.5	+/-2.0	68.5	+/-1.3	2.5	+/-0.3	0.35	+/-0.01	0.68	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	83.6	+/-3.3	5.7	+/-0.6	5.1	+/-0.5
				PSIpred	76.7	+/-0.8	71.7	+/-2.5	54.3	+/-2.7	77.2	+/-1.1	73.3	+/-2.6	57.5	+/-2.8	74.5	+/-1.0	72.2	+/-1.3	75.9	+/-2.3	68.4	+/-2.3	69.6	+/-1.3	2.4	+/-0.3	0.37	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	78.9	+/-3.6	5.1	+/-0.5	5.0	+/-0.5
				SSpro	76.7	+/-0.8	74.1	+/-2.4	50.9	+/-2.4	77.8	+/-1.0	72.4	+/-2.4	60.2	+/-2.8	74.6	+/-1.0	71.7	+/-1.2	75.6	+/-2.0	68.1	+/-2.2	69.7	+/-1.3	2.5	+/-0.2	0.36	+/-0.01	0.68	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	80.5	+/-3.5	5.5	+/-0.5	5.2	+/-0.5
common 2	128	dssp	2	JPRED	75.1	+/-0.8	64.5	+/-2.6	44.6	+/-2.4	83.4	+/-0.9	73.3	+/-2.7	60.7	+/-3.0	69.1	+/-1.0	68.9	+/-1.3	69.2	+/-2.4	64.3	+/-2.4	69.1	+/-1.4	2.5	+/-0.3	0.34	+/-0.01	0.66	+/-0.02	0.59	+/-0.02	0.54	+/-0.01	73.4	+/-3.9	7.0	+/-0.6	6.2	+/-0.5
				PHDpsi	75.2	+/-0.7	70.1	+/-2.5	51.5	+/-2.6	74.5	+/-1.2	72.0	+/-2.4	56.7	+/-2.8	73.3	+/-0.9	70.7	+/-1.1	73.2	+/-2.2	67.2	+/-2.2	67.0	+/-1.4	3.0	+/-0.3	0.33	+/-0.01	0.66	+/-0.02	0.60	+/-0.02	0.53	+/-0.01	78.1	+/-3.7	5.8	+/-0.6	5.4	+/-0.5
common 2	128	dssp	3	PHD	72.0	+/-0.9	67.2	+/-2.5	51.1	+/-2.5	70.8	+/-1.3	68.5	+/-2.5	51.8	+/-2.6	71.9	+/-1.2	68.2	+/-1.1	70.0	+/-2.2	65.9	+/-2.3	64.6	+/-1.4	4.1	+/-0.4	0.29	+/-0.01	0.60	+/-0.02	0.58	+/-0.02	0.49	+/-0.01	75.8	+/-3.8	7.2	+/-0.7	6.0	+/-0.5
common 2	128	dssp	4	PSSP	64.4	+/-0.8	57.6	+/-2.2	46.8	+/-2.3	67.0	+/-1.0	63.7	+/-2.5	44.5	+/-2.3	64.6	+/-1.2	60.2	+/-1.1	60.6	+/-2.2	61.7	+/-2.2	60.3	+/-1.4	6.3	+/-0.4	0.20	+/-0.01	0.46	+/-0.02	0.47	+/-0.02	0.39	+/-0.01	71.9	+/-4.0	9.5	+/-0.8	7.4	+/-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	150	dssp	1	PROF	76.0	+/-0.7	70.7	+/-2.2	57.6	+/-2.3	75.5	+/-1.0	74.8	+/-2.1	57.5	+/-2.5	74.4	+/-0.9	72.1	+/-1.0	73.0	+/-2.0	72.5	+/-1.8	69.2	+/-1.2	2.7	+/-0.3	0.35	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.55	+/-0.01	82.0	+/-3.1	5.7	+/-0.5	5.1	+/-0.4
				PSIpred	76.0	+/-0.8	71.8	+/-2.2	54.3	+/-2.4	76.6	+/-1.0	73.2	+/-2.3	57.0	+/-2.6	74.4	+/-0.9	72.0	+/-1.1	75.4	+/-2.0	68.6	+/-2.1	69.6	+/-1.1	2.8	+/-0.3	0.36	+/-0.01	0.65	+/-0.02	0.62	+/-0.02	0.55	+/-0.01	78.0	+/-3.4	5.2	+/-0.5	4.8	+/-0.4
				SSpro	76.0	+/-0.8	73.2	+/-2.1	51.4	+/-2.2	77.7	+/-0.9	72.9	+/-2.1	59.9	+/-2.6	74.0	+/-0.9	71.2	+/-1.1	74.7	+/-1.8	68.6	+/-2.0	69.5	+/-1.2	2.8	+/-0.2	0.35	+/-0.01	0.67	+/-0.02	0.63	+/-0.02	0.56	+/-0.01	82.7	+/-3.1	5.9	+/-0.5	5.4	+/-0.4
common 3	150	dssp	2	JPRED	75.0	+/-0.7	64.5	+/-2.3	45.4	+/-2.2	83.7	+/-0.8	74.2	+/-2.4	62.0	+/-2.8	69.1	+/-0.9	69.5	+/-1.2	69.4	+/-2.1	65.4	+/-2.2	70.0	+/-1.2	2.6	+/-0.3	0.34	+/-0.01	0.65	+/-0.02	0.60	+/-0.02	0.54	+/-0.01	76.7	+/-3.5	7.1	+/-0.5	6.1	+/-0.5
				PHDpsi	75.0	+/-0.7	71.0	+/-2.1	52.3	+/-2.4	74.3	+/-1.1	72.9	+/-2.1	57.0	+/-2.5	73.4	+/-0.8	71.0	+/-1.0	73.7	+/-1.9	68.3	+/-2.0	67.3	+/-1.3	3.0	+/-0.3	0.33	+/-0.01	0.65	+/-0.02	0.60	+/-0.02	0.54	+/-0.01	80.7	+/-3.2	5.6	+/-0.6	5.2	+/-0.4
common 3	150	dssp	3	PHD	71.4	+/-0.8	67.0	+/-2.2	51.5	+/-2.3	70.6	+/-1.2	68.6	+/-2.2	51.6	+/-2.4	71.7	+/-1.1	67.9	+/-1.0	69.4	+/-2.0	66.4	+/-2.0	64.7	+/-1.3	4.3	+/-0.3	0.28	+/-0.01	0.59	+/-0.02	0.58	+/-0.02	0.49	+/-0.01	77.3	+/-3.4	7.4	+/-0.7	6.0	+/-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 4			Sorted alphabetically for identical ranks!		MORE SCORES
common 4	190	dssp	1	PROF	76.1	+/-0.6	71.7	+/-1.9	57.0	+/-2.2	75.4	+/-0.8	75.9	+/-1.8	56.6	+/-2.3	73.8	+/-0.9	72.8	+/-0.9	74.2	+/-1.7	73.7	+/-1.6	69.3	+/-1.0	2.7	+/-0.3	0.35	+/-0.01	0.67	+/-0.01	0.65	+/-0.02	0.56	+/-0.01	80.5	+/-2.9	6.0	+/-0.5	5.0	+/-0.4
				PSIpred	76.4	+/-0.7	73.4	+/-1.9	53.9	+/-2.2	76.3	+/-0.9	74.2	+/-2.0	56.3	+/-2.3	74.1	+/-0.9	72.5	+/-1.0	76.4	+/-1.7	70.1	+/-1.8	69.6	+/-1.0	2.6	+/-0.3	0.37	+/-0.01	0.66	+/-0.02	0.64	+/-0.02	0.56	+/-0.01	77.4	+/-3.0	5.4	+/-0.4	4.6	+/-0.4
common 4	190	dssp	2	PHDpsi	74.7	+/-0.6	71.8	+/-1.9	51.2	+/-2.1	73.7	+/-1.0	73.5	+/-1.8	55.7	+/-2.3	72.6	+/-0.8	70.9	+/-0.9	74.2	+/-1.6	68.8	+/-1.8	66.6	+/-1.1	3.0	+/-0.3	0.33	+/-0.01	0.65	+/-0.01	0.61	+/-0.02	0.53	+/-0.01	77.9	+/-3.0	6.1	+/-0.6	5.2	+/-0.4
common 4	190	dssp	3	PHD	71.6	+/-0.7	68.6	+/-1.9	50.7	+/-2.1	69.8	+/-1.1	69.6	+/-1.9	51.5	+/-2.2	71.3	+/-1.0	68.1	+/-0.9	70.1	+/-1.7	67.3	+/-1.8	64.1	+/-1.1	4.1	+/-0.3	0.29	+/-0.01	0.58	+/-0.02	0.59	+/-0.02	0.49	+/-0.01	76.3	+/-3.1	7.7	+/-0.6	5.8	+/-0.4

All results

Last update: Nov 1, 2000
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva
WWW mirrors: ../doc/mirrors.html

Home - sec - acc - cm - fr - con - Top