
PFRMAT SS
TARGET T0103
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
A C 0.98
A C 0.40
G C 0.20
T C 0.26
A C 0.74
K C 0.80
G C 0.89
H C 0.68
N C 0.82
P C 0.62
T C 0.44
E C 0.20
F C 0.13
P H 0.16
T H 0.24
I H 0.26
Y C 0.16
D C 0.75
A C 0.78
S C 0.69
S C 0.36
A C 0.20
P C 0.30
T C 0.45
A C 0.53
A C 0.82
N C 0.83
T C 0.52
T E 0.72
V E 0.92
G E 0.94
I E 0.93
I E 0.82
T E 0.58
I E 0.15
G C 0.68
G C 0.25
V C 0.25
S C 0.13
Q C 0.51
T C 0.79
L H 0.18
Q H 0.63
D H 0.72
L H 0.58
Q H 0.65
Q H 0.53
F H 0.28
T H 0.20
S H 0.15
A C 0.03
N C 0.26
G C 0.74
L C 0.87
A C 0.87
S C 0.81
V C 0.79
N C 0.63
T C 0.27
Q C 0.06
T C 0.15
I C 0.25
Q E 0.56
T E 0.45
G E 0.61
S C 0.60
S C 0.46
N C 0.63
G C 0.83
D C 0.74
Y C 0.72
S C 0.86
D C 0.89
D C 0.84
Q C 0.79
Q C 0.67
G C 0.80
Q C 0.75
G C 0.11
E C 0.21
W C 0.23
D C 0.13
L H 0.01
D H 0.22
S H 0.64
Q H 0.55
S H 0.64
I H 0.60
V H 0.48
G H 0.35
S H 0.33
A C 0.09
G C 0.70
G C 0.84
A C 0.85
V C 0.50
Q E 0.12
Q E 0.29
L E 0.68
L E 0.89
F E 0.94
Y E 0.84
M E 0.64
A E 0.24
D C 0.73
Q C 0.78
S C 0.76
A C 0.62
S C 0.68
G C 0.60
N C 0.19
T H 0.11
G H 0.79
L H 0.91
T H 0.92
Q H 0.96
A H 0.96
F H 0.96
N H 0.96
Q H 0.91
A H 0.86
V H 0.59
S C 0.03
D C 0.35
N C 0.84
V C 0.88
A C 0.89
K C 0.33
V E 0.53
I E 0.56
N E 0.68
V E 0.54
S E 0.09
L C 0.24
G C 0.71
W C 0.79
C C 0.80
E C 0.68
A C 0.60
D C 0.44
A C 0.33
N C 0.66
A C 0.61
D H 0.45
G H 0.32
T H 0.68
L H 0.80
Q H 0.86
A H 0.93
E H 0.95
D H 0.95
R H 0.97
I H 0.96
F H 0.97
A H 0.96
T H 0.96
A H 0.94
A H 0.89
A H 0.78
Q C 0.69
G C 0.97
Q C 0.85
T E 0.89
F E 0.96
S E 0.96
V E 0.95
S E 0.85
S C 0.02
G C 0.79
D C 0.91
E C 0.86
G C 0.89
V C 0.83
Y C 0.80
E C 0.70
C C 0.80
N C 0.80
N C 0.79
R C 0.73
G C 0.83
Y C 0.78
P C 0.86
D C 0.73
G C 0.74
S C 0.86
T C 0.70
Y C 0.70
S C 0.79
V C 0.23
S C 0.27
W C 0.56
P C 0.88
A C 0.75
S C 0.44
S C 0.88
P C 0.81
N C 0.23
V E 0.49
I E 0.85
A E 0.85
V E 0.53
G E 0.22
G E 0.15
T E 0.71
T E 0.66
L E 0.46
Y C 0.12
T C 0.53
T C 0.62
S C 0.62
A C 0.76
G C 0.75
A C 0.47
Y C 0.22
S C 0.62
N C 0.78
E C 0.62
T C 0.29
V E 0.49
W E 0.68
N C 0.78
E C 0.72
G E 0.62
L E 0.81
D C 0.82
S C 0.76
N C 0.72
G C 0.71
K C 0.23
L E 0.29
W E 0.83
A E 0.38
T C 0.62
G C 0.85
G C 0.90
G C 0.82
Y C 0.53
S C 0.40
V C 0.31
Y C 0.69
E C 0.79
S C 0.81
K C 0.85
P C 0.78
S C 0.65
W E 0.61
Q E 0.56
S E 0.29
V E 0.24
V E 0.06
S C 0.01
G C 0.33
T C 0.56
P C 0.57
G C 0.70
R C 0.64
R C 0.58
L C 0.48
L C 0.83
P C 0.89
D C 0.65
I C 0.18
S E 0.01
F E 0.34
D E 0.38
A C 0.31
A C 0.70
Q C 0.77
G C 0.86
T C 0.50
G C 0.25
A E 0.42
L E 0.88
I E 0.91
Y E 0.89
N E 0.64
Y C 0.68
G C 0.92
Q C 0.50
L E 0.56
Q E 0.90
Q E 0.71
I E 0.61
G C 0.78
G C 0.59
T C 0.08
S H 0.09
L H 0.48
A H 0.48
S H 0.39
P H 0.86
I H 0.94
F H 0.93
V H 0.97
G H 0.97
L H 0.97
W H 0.97
A H 0.97
R H 0.96
L H 0.94
Q H 0.88
S H 0.68
A H 0.20
N C 0.33
S C 0.83
N C 0.76
S C 0.51
L C 0.54
G C 0.64
F C 0.81
P C 0.45
A C 0.39
A H 0.09
S H 0.34
F H 0.29
Y H 0.11
S C 0.06
A C 0.11
I C 0.40
S C 0.57
S C 0.78
T C 0.77
P C 0.79
S C 0.26
L C 0.16
V C 0.01
H C 0.10
D C 0.24
V C 0.21
K C 0.32
S C 0.33
G C 0.55
N C 0.72
N C 0.67
G C 0.34
Y C 0.37
G C 0.43
G C 0.76
Y C 0.84
G C 0.86
Y C 0.84
N C 0.81
A C 0.88
G C 0.83
T C 0.65
G C 0.86
W C 0.76
D C 0.85
Y C 0.08
P C 0.35
T C 0.20
G C 0.15
W C 0.52
G C 0.70
S C 0.70
L C 0.30
D C 0.66
I H 0.69
A H 0.87
K H 0.83
L H 0.88
S H 0.90
A H 0.86
Y H 0.89
I H 0.84
R H 0.55
S H 0.02
N C 0.30
G C 0.76
F C 0.86
G C 0.90
H C 0.97
END

