
PFRMAT SS
TARGET T0086
AUTHOR 9521-1365-5893
METHOD Program Name: PSIPRED
METHOD Synopsis: Neural network prediction based on PSIBLAST output
METHOD Five neural networks are used to predict secondary structure directly
METHOD from the profiles generated by PSIBLAST. Networks 1-4 predict
METHOD secondary structure, the 5th network filters the output of the first
METHOD level networks. The first level networks have 17*21 inputs and 75 hidden
METHOD units, the second level network has 17*3 inputs and 55 hidden units.
METHOD The networks have been trained on a set of 2937 proteins with
METHOD early-stopped training. 10% of the training data was used to detect
METHOD convergence.
METHOD The target sequence was scanned against a non-redundant databank of
METHOD filtered protein sequences (> 500,000 sequences), with 3 PSIBLAST
METHOD iterations.
METHOD
METHOD Final prediction was filtered with 2 passes of the 2nd-level net.
METHOD
MODEL  1
S C 0.99
H C 0.74
P H 0.71
A H 0.74
L H 0.86
T H 0.78
Q H 0.79
L H 0.75
R H 0.81
A H 0.67
L H 0.56
R H 0.85
Y H 0.90
C H 0.90
K H 0.81
E H 0.41
I C 0.74
P C 0.82
A C 0.89
L C 0.94
D C 0.90
P H 0.74
Q H 0.81
L H 0.87
L H 0.74
D H 0.77
W H 0.58
L H 0.20
L C 0.14
L C 0.73
E C 0.03
D C 0.05
S H 0.53
M H 0.86
T H 0.85
K H 0.91
R H 0.91
F H 0.82
E H 0.78
Q H 0.18
Q H 0.14
G C 0.90
K C 0.96
T E 0.95
V E 0.92
S E 0.96
V E 0.97
T E 0.96
M E 0.88
I E 0.29
R C 0.29
E C 0.55
G E 0.42
F E 0.34
V C 0.17
E C 0.60
Q C 0.47
N C 0.39
E C 0.27
I C 0.76
P C 0.73
E H 0.34
E H 0.23
L H 0.31
P H 0.22
L H 0.09
L C 0.45
P C 0.47
K C 0.77
E C 0.82
S C 0.80
R C 0.51
Y C 0.38
W C 0.08
L E 0.50
R E 0.83
E E 0.88
I E 0.86
L E 0.86
L E 0.75
C E 0.32
A C 0.40
D C 0.92
G C 0.93
E C 0.81
P C 0.78
W E 0.44
L E 0.53
A E 0.41
G E 0.39
R E 0.21
T H 0.05
V H 0.07
V H 0.07
P H 0.05
V H 0.31
S H 0.27
T H 0.25
L H 0.11
S C 0.33
G C 0.71
P C 0.75
E C 0.76
L C 0.40
A C 0.05
L H 0.54
Q H 0.66
K H 0.47
L C 0.46
G C 0.83
K C 0.83
T H 0.28
P H 0.37
L H 0.39
G H 0.53
R H 0.65
Y H 0.60
L H 0.47
F H 0.15
T H 0.09
S C 0.69
S C 0.87
T C 0.89
L C 0.83
T C 0.39
R C 0.71
D C 0.75
F E 0.35
I E 0.39
E E 0.68
I E 0.86
G C 0.93
R C 0.61
D H 0.36
A H 0.61
G H 0.67
L H 0.65
W H 0.77
G H 0.91
R H 0.92
R H 0.93
S H 0.94
R H 0.94
L H 0.92
R H 0.81
L H 0.30
S C 0.45
G C 0.90
K C 0.91
P C 0.76
L C 0.16
L H 0.04
L H 0.16
T H 0.13
E H 0.14
L H 0.21
F H 0.23
L C 0.56
P C 0.79
A C 0.86
S C 0.90
P C 0.90
L C 0.89
Y C 0.96
END

