
PFRMAT SS
TARGET T0111
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.
MODEL  1
S C 0.98
K E 0.80
I E 0.70
V E 0.85
K E 0.93
I E 0.92
I E 0.95
G E 0.79
R E 0.84
E E 0.96
I E 0.88
I E 0.86
D C 0.04
S C 0.85
R C 0.87
G C 0.88
N C 0.89
P E 0.45
T E 0.57
V E 0.93
E E 0.94
A E 0.95
E E 0.95
V E 0.96
H E 0.95
L E 0.84
E C 0.90
G C 0.95
G C 0.92
F C 0.49
V E 0.79
G E 0.71
M E 0.57
A E 0.73
A E 0.06
A C 0.55
P C 0.74
S C 0.68
G C 0.70
A C 0.62
S C 0.70
T C 0.70
G C 0.83
S C 0.82
R C 0.66
E C 0.45
A C 0.29
L E 0.43
E E 0.67
L C 0.19
R C 0.25
D C 0.87
G C 0.42
D C 0.88
K C 0.80
S C 0.82
R C 0.68
F C 0.56
L C 0.29
G C 0.71
K C 0.19
G C 0.28
V H 0.68
T H 0.88
K H 0.90
A H 0.92
V H 0.95
A H 0.91
A H 0.86
V H 0.88
N H 0.74
G H 0.55
P H 0.42
I H 0.52
A H 0.68
Q H 0.83
A H 0.81
L H 0.53
I H 0.13
G C 0.88
K C 0.82
D C 0.90
A H 0.60
K H 0.39
D H 0.03
Q H 0.92
A H 0.91
G H 0.87
I H 0.95
D H 0.93
K H 0.95
I H 0.96
M H 0.94
I H 0.90
D H 0.72
L H 0.09
D C 0.49
G C 0.94
T C 0.89
E C 0.47
N C 0.14
K H 0.16
S H 0.12
K H 0.04
F C 0.18
G C 0.77
A C 0.31
N C 0.01
A H 0.23
I H 0.35
L H 0.30
A H 0.31
V H 0.33
S H 0.29
L H 0.77
A H 0.74
N H 0.75
A H 0.66
K H 0.57
A H 0.65
A H 0.74
A H 0.79
A H 0.71
A H 0.28
K C 0.24
G C 0.92
M C 0.94
P C 0.57
L H 0.76
Y H 0.93
E H 0.96
H H 0.91
I H 0.91
A H 0.89
E H 0.85
L H 0.41
N C 0.36
G C 0.80
T C 0.90
P C 0.93
G C 0.87
K C 0.77
Y E 0.32
S E 0.85
M E 0.45
P C 0.70
V C 0.44
P C 0.36
M H 0.56
M H 0.46
N H 0.27
I H 0.37
I C 0.29
N C 0.32
G C 0.86
G C 0.73
E C 0.53
H C 0.61
A C 0.77
D C 0.83
N C 0.88
N C 0.88
V C 0.85
D C 0.92
I C 0.05
Q E 0.34
E E 0.55
F E 0.85
M E 0.91
I E 0.79
Q E 0.15
P C 0.34
V C 0.60
G C 0.89
A C 0.87
K C 0.76
T C 0.76
V H 0.67
K H 0.73
E H 0.91
A H 0.96
I H 0.95
R H 0.96
M H 0.97
G H 0.97
S H 0.98
E H 0.98
V H 0.98
F H 0.97
H H 0.97
H H 0.97
L H 0.97
A H 0.96
K H 0.95
V H 0.96
L H 0.93
K H 0.89
A H 0.64
K C 0.27
G C 0.82
M C 0.87
N C 0.89
T C 0.84
A C 0.79
V C 0.31
G C 0.63
D C 0.67
E C 0.67
G C 0.61
G C 0.40
Y C 0.19
A C 0.46
P C 0.67
N C 0.86
L C 0.79
G C 0.79
S C 0.78
N H 0.09
A H 0.51
E H 0.68
A H 0.86
L H 0.93
A H 0.95
V H 0.97
I H 0.96
A H 0.96
E H 0.97
A H 0.95
V H 0.94
K H 0.90
A H 0.73
A H 0.46
G C 0.86
Y C 0.85
E C 0.80
L C 0.49
G C 0.75
K C 0.66
D C 0.15
I E 0.36
T E 0.91
L E 0.92
A E 0.81
M E 0.46
D E 0.36
C E 0.06
A C 0.12
A C 0.17
S C 0.06
E C 0.09
F C 0.20
Y E 0.26
K E 0.28
D C 0.79
G C 0.67
K E 0.38
Y E 0.62
V E 0.59
L E 0.51
A C 0.16
G C 0.78
E C 0.88
G C 0.80
N C 0.51
K C 0.27
A E 0.21
F E 0.41
T C 0.85
S H 0.92
E H 0.95
E H 0.95
F H 0.97
T H 0.96
H H 0.94
F H 0.96
L H 0.96
E H 0.95
E H 0.94
L H 0.89
T H 0.73
K H 0.37
Q C 0.40
Y C 0.94
P C 0.85
I E 0.06
V E 0.51
S E 0.74
I C 0.36
E C 0.55
D C 0.89
G C 0.84
L C 0.87
D C 0.90
E H 0.69
S H 0.60
D H 0.64
W H 0.79
D H 0.86
G H 0.90
F H 0.93
A H 0.92
Y H 0.92
Q H 0.88
T H 0.91
K H 0.92
V H 0.73
L H 0.27
G C 0.75
D C 0.94
K C 0.47
I E 0.58
Q E 0.92
L E 0.93
V E 0.29
G C 0.53
D C 0.94
D C 0.85
L C 0.80
F C 0.16
V C 0.58
T C 0.80
N C 0.85
T H 0.80
K H 0.91
I H 0.95
L H 0.93
K H 0.94
E H 0.89
G H 0.80
I H 0.61
E H 0.23
K C 0.17
G C 0.75
I C 0.79
A C 0.49
N C 0.42
S E 0.78
I E 0.88
L E 0.79
I E 0.44
K C 0.21
F C 0.42
N C 0.63
Q C 0.38
I C 0.04
G C 0.17
S H 0.18
L H 0.87
T H 0.89
E H 0.92
T H 0.96
L H 0.96
A H 0.96
A H 0.96
I H 0.96
K H 0.96
M H 0.96
A H 0.94
K H 0.89
D H 0.68
A C 0.71
G C 0.94
Y C 0.93
T E 0.19
A E 0.46
V E 0.29
I C 0.23
S C 0.04
H C 0.42
R C 0.65
S C 0.83
G C 0.91
E C 0.88
T C 0.63
E C 0.17
D C 0.03
A H 0.03
T H 0.25
I H 0.76
A H 0.67
D H 0.64
L H 0.72
A H 0.89
V H 0.86
G H 0.69
T C 0.09
A C 0.76
A C 0.93
G C 0.90
Q C 0.46
I C 0.03
K E 0.43
T E 0.14
G C 0.32
S C 0.84
M C 0.79
S C 0.83
R C 0.70
S C 0.50
D C 0.36
R H 0.37
V H 0.60
A H 0.84
K H 0.86
Y H 0.92
N H 0.94
Q H 0.91
L H 0.96
I H 0.96
R H 0.96
I H 0.96
E H 0.97
E H 0.93
A H 0.90
L H 0.53
G C 0.51
E C 0.75
K C 0.82
A C 0.62
P E 0.38
Y E 0.14
N C 0.67
G C 0.68
R H 0.03
K H 0.26
E H 0.50
I C 0.41
K C 0.90
G C 0.91
Q C 0.86
A C 0.97
END

