
PFRMAT SS
TARGET T0116
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
M C 0.98
E C 0.70
G C 0.43
M C 0.52
L C 0.58
K C 0.72
G C 0.54
E C 0.46
G C 0.49
P C 0.42
G C 0.56
P C 0.73
L C 0.87
P C 0.86
P C 0.54
L H 0.56
L H 0.74
Q H 0.92
Q H 0.90
Y H 0.91
V H 0.86
E H 0.75
L H 0.51
R H 0.42
D H 0.35
Q H 0.17
Y C 0.87
P C 0.61
D C 0.16
Y E 0.40
L E 0.92
L E 0.94
L E 0.95
F E 0.94
Q E 0.75
V C 0.61
G C 0.91
D C 0.37
F C 0.34
Y H 0.01
E H 0.05
C E 0.21
F E 0.43
G H 0.60
E H 0.56
D H 0.52
A H 0.88
E H 0.63
R H 0.65
L H 0.19
A H 0.17
R H 0.27
A E 0.06
L E 0.21
G E 0.27
L E 0.43
V E 0.84
L E 0.67
T E 0.24
H C 0.19
K C 0.50
T C 0.64
S C 0.70
K C 0.87
D C 0.87
F C 0.92
T C 0.83
T C 0.60
P C 0.65
M E 0.38
A E 0.25
G E 0.20
I E 0.43
P C 0.39
L C 0.37
R H 0.13
A H 0.17
F H 0.85
E H 0.84
A H 0.88
Y H 0.95
A H 0.96
E H 0.95
R H 0.96
L H 0.95
L H 0.93
K H 0.75
M C 0.82
G C 0.97
F C 0.84
R E 0.72
L E 0.94
A E 0.97
V E 0.93
A E 0.89
D E 0.54
Q E 0.74
V C 0.54
E C 0.75
P C 0.90
A C 0.42
E C 0.29
E C 0.20
A C 0.50
E C 0.67
G C 0.66
L C 0.09
V E 0.45
R E 0.31
R E 0.15
E E 0.52
V E 0.64
T E 0.90
Q E 0.92
L E 0.88
L E 0.29
T C 0.80
P C 0.90
G C 0.82
T C 0.10
L E 0.16
L E 0.20
Q C 0.15
E C 0.50
S C 0.53
L C 0.67
L C 0.77
P C 0.79
R C 0.79
E C 0.80
A C 0.87
N C 0.51
Y E 0.53
L E 0.90
A E 0.94
A E 0.96
I E 0.95
A E 0.71
T E 0.06
G C 0.90
D C 0.88
G E 0.18
W E 0.71
G E 0.95
L E 0.95
A E 0.96
F E 0.95
L E 0.96
D E 0.91
V C 0.35
S C 0.73
T C 0.65
G C 0.51
E E 0.01
F E 0.88
K E 0.92
G E 0.55
T C 0.13
V C 0.37
L C 0.21
K C 0.79
S C 0.92
K H 0.85
S H 0.87
A H 0.94
L H 0.96
Y H 0.95
D H 0.96
E H 0.96
L H 0.91
F H 0.88
R H 0.39
H H 0.11
R C 0.93
P C 0.89
A E 0.84
E E 0.92
V E 0.90
L E 0.72
L E 0.06
A C 0.33
P C 0.30
E C 0.30
L C 0.09
L C 0.28
E C 0.43
N C 0.14
G H 0.21
A H 0.10
F H 0.23
L H 0.88
D H 0.91
E H 0.93
F H 0.95
R H 0.95
K H 0.93
R H 0.89
F H 0.76
P H 0.54
V H 0.74
M H 0.69
L H 0.39
S H 0.17
E C 0.26
A C 0.51
P C 0.64
F C 0.80
E C 0.88
P C 0.72
E C 0.63
G C 0.52
E C 0.09
G C 0.07
P H 0.57
L H 0.81
A H 0.90
L H 0.95
R H 0.96
R H 0.95
A H 0.95
R H 0.96
G H 0.95
A H 0.95
L H 0.96
L H 0.96
A H 0.97
Y H 0.96
A H 0.96
Q H 0.93
R H 0.85
T H 0.62
Q C 0.41
G C 0.60
G C 0.53
A C 0.67
L C 0.78
S C 0.92
L C 0.83
Q C 0.80
P C 0.57
F E 0.45
R E 0.83
F E 0.90
Y E 0.60
D C 0.84
P C 0.86
G C 0.86
A C 0.67
F E 0.70
M E 0.92
R E 0.78
L E 0.53
P C 0.31
E H 0.77
A H 0.88
T H 0.80
L H 0.68
R H 0.39
A C 0.29
L C 0.04
E C 0.01
V C 0.44
F C 0.62
E C 0.83
P C 0.82
L C 0.86
R C 0.86
G C 0.88
Q C 0.88
D C 0.50
T C 0.74
L H 0.69
F H 0.83
S H 0.85
V H 0.77
L H 0.66
D H 0.06
E H 0.25
T C 0.48
R C 0.88
T C 0.93
A H 0.54
P H 0.76
G H 0.89
R H 0.92
R H 0.95
L H 0.93
L H 0.96
Q H 0.93
S H 0.89
W H 0.79
L H 0.45
R H 0.31
H C 0.59
P C 0.43
L C 0.65
L C 0.71
D C 0.87
R H 0.76
G H 0.88
P H 0.94
L H 0.95
E H 0.96
A H 0.94
R H 0.96
L H 0.96
D H 0.95
R H 0.96
V H 0.96
E H 0.94
G H 0.94
F H 0.87
V H 0.68
R H 0.48
E C 0.84
G H 0.76
A H 0.76
L H 0.77
R H 0.91
E H 0.91
G H 0.90
V H 0.95
R H 0.96
R H 0.89
L H 0.86
L H 0.47
Y C 0.22
R C 0.54
L C 0.79
A C 0.31
D C 0.53
L H 0.79
E H 0.90
R H 0.90
L H 0.95
A H 0.95
T H 0.96
R H 0.95
L H 0.89
E H 0.73
L C 0.05
G C 0.32
R C 0.84
A C 0.90
S C 0.88
P H 0.71
K H 0.89
D H 0.96
L H 0.94
G H 0.97
A H 0.96
L H 0.97
R H 0.97
R H 0.97
S H 0.97
L H 0.96
Q H 0.95
I H 0.95
L H 0.96
P H 0.96
E H 0.95
L H 0.95
R H 0.95
A H 0.94
L H 0.93
L H 0.78
G H 0.59
E H 0.55
E H 0.11
V C 0.45
G C 0.78
L C 0.34
P C 0.26
D C 0.25
L H 0.57
S H 0.87
P H 0.89
L H 0.95
K H 0.97
E H 0.96
E H 0.96
L H 0.96
E H 0.95
A H 0.90
A H 0.85
L H 0.50
V C 0.25
E C 0.50
D C 0.39
P H 0.14
P H 0.41
L H 0.38
K H 0.36
V C 0.33
S C 0.56
E C 0.90
G C 0.72
G C 0.48
L E 0.47
I E 0.22
R C 0.38
E C 0.67
G C 0.61
Y C 0.80
D C 0.90
P H 0.78
D H 0.71
L H 0.91
D H 0.94
A H 0.94
L H 0.95
R H 0.96
A H 0.95
A H 0.93
H H 0.86
R H 0.69
E H 0.44
G H 0.51
V H 0.45
A H 0.30
Y H 0.72
F H 0.93
L H 0.93
E H 0.96
L H 0.96
E H 0.96
E H 0.96
R H 0.95
E H 0.93
R H 0.88
E H 0.82
R H 0.43
T C 0.41
G C 0.87
I C 0.92
P C 0.91
T C 0.45
L E 0.36
K E 0.74
V E 0.92
G E 0.77
Y E 0.59
N E 0.02
A E 0.12
V E 0.51
F E 0.58
G E 0.78
Y E 0.95
Y E 0.95
L E 0.93
E E 0.86
V E 0.18
T C 0.75
R C 0.71
P C 0.49
Y H 0.22
Y H 0.29
E H 0.17
R H 0.09
V C 0.45
P C 0.87
K C 0.87
E C 0.41
Y E 0.61
R E 0.91
P E 0.91
V E 0.80
Q E 0.65
T E 0.32
L C 0.17
K C 0.78
D C 0.87
R C 0.57
Q C 0.62
R E 0.61
Y E 0.78
T C 0.21
L C 0.85
P H 0.67
E H 0.74
M H 0.91
K H 0.91
E H 0.90
K H 0.94
E H 0.97
R H 0.96
E H 0.96
V H 0.96
Y H 0.96
R H 0.96
L H 0.95
E H 0.96
A H 0.96
L H 0.96
I H 0.96
R H 0.96
R H 0.96
R H 0.96
E H 0.96
E H 0.96
E H 0.96
V H 0.96
F H 0.96
L H 0.96
E H 0.96
V H 0.96
R H 0.95
E H 0.95
R H 0.93
A H 0.92
K H 0.87
R H 0.73
Q H 0.62
A H 0.89
E H 0.94
A H 0.94
L H 0.95
R H 0.96
E H 0.96
A H 0.96
A H 0.96
R H 0.96
I H 0.96
L H 0.94
A H 0.91
E H 0.92
L H 0.86
D H 0.96
V H 0.98
Y H 0.98
A H 0.98
A H 0.98
L H 0.97
A H 0.98
E H 0.98
V H 0.94
A H 0.94
V H 0.84
R H 0.60
Y C 0.45
G C 0.93
Y C 0.86
V C 0.70
R C 0.64
P C 0.57
R E 0.55
F E 0.87
G C 0.75
D C 0.65
R E 0.54
L E 0.85
Q E 0.93
I E 0.93
R E 0.39
A C 0.28
G C 0.74
R C 0.67
H C 0.81
P C 0.65
V E 0.20
V E 0.28
E C 0.59
R C 0.86
R C 0.73
T C 0.88
E C 0.77
F C 0.01
V C 0.14
P C 0.37
N C 0.50
D C 0.36
L C 0.30
E E 0.64
M E 0.84
A C 0.79
H C 0.78
E C 0.50
L E 0.66
V E 0.94
L E 0.94
I E 0.86
T E 0.45
G C 0.88
P C 0.87
N C 0.94
M C 0.84
A C 0.62
G C 0.16
K H 0.41
S H 0.81
T H 0.85
F H 0.90
L H 0.92
R H 0.96
Q H 0.97
T H 0.98
A H 0.97
L H 0.97
I H 0.97
A H 0.96
L H 0.97
L H 0.95
A H 0.92
Q H 0.58
V C 0.42
G C 0.92
S C 0.95
F C 0.75
V C 0.32
P C 0.02
A C 0.31
E C 0.42
E C 0.10
A E 0.20
H E 0.55
L E 0.33
P C 0.38
L C 0.42
F C 0.06
D C 0.27
G E 0.70
I E 0.73
Y E 0.71
T E 0.55
R E 0.36
I C 0.53
G C 0.66
A C 0.85
S C 0.49
D C 0.15
D H 0.08
L H 0.34
A H 0.40
G H 0.18
G H 0.17
K H 0.44
S H 0.63
T H 0.73
F H 0.85
M H 0.94
V H 0.95
E H 0.96
M H 0.97
E H 0.97
E H 0.96
V H 0.96
A H 0.96
L H 0.96
I H 0.94
L H 0.92
K H 0.75
E H 0.24
A C 0.87
T C 0.93
E C 0.67
N C 0.83
S C 0.47
L E 0.80
V E 0.88
L E 0.89
L E 0.86
D E 0.20
E C 0.29
V C 0.38
G C 0.70
R C 0.85
G C 0.87
T C 0.87
S C 0.93
S H 0.72
L H 0.85
D H 0.92
G H 0.93
V H 0.96
A H 0.96
I H 0.97
A H 0.96
T H 0.96
A H 0.96
V H 0.96
A H 0.96
E H 0.96
A H 0.95
L H 0.91
H H 0.77
E H 0.23
R C 0.65
R C 0.95
A C 0.90
Y E 0.79
T E 0.97
L E 0.96
F E 0.95
A E 0.77
T C 0.44
H C 0.89
Y C 0.79
F H 0.73
E H 0.72
L H 0.67
T H 0.62
A H 0.53
L H 0.19
G C 0.46
L C 0.64
P C 0.80
R C 0.69
L E 0.03
K E 0.52
N E 0.84
L E 0.93
H E 0.91
V E 0.91
A E 0.96
A E 0.92
R E 0.96
E E 0.90
E E 0.54
A C 0.88
G C 0.89
G E 0.54
L E 0.80
V E 0.88
F E 0.93
Y E 0.86
H E 0.82
Q E 0.83
V E 0.77
L C 0.57
P C 0.13
G C 0.87
P C 0.83
A C 0.92
S C 0.87
K C 0.78
S C 0.53
Y H 0.02
G H 0.86
V H 0.91
E H 0.95
V H 0.96
A H 0.96
A H 0.93
M H 0.88
A H 0.53
G C 0.94
L C 0.96
P C 0.94
K H 0.91
E H 0.96
V H 0.96
V H 0.94
A H 0.96
R H 0.96
A H 0.97
R H 0.96
A H 0.96
L H 0.96
L H 0.96
Q H 0.94
A H 0.95
M H 0.93
A H 0.83
A H 0.78
R H 0.73
R H 0.46
E C 0.57
G C 0.84
A C 0.82
L H 0.67
D H 0.81
A H 0.93
V H 0.92
L H 0.94
E H 0.95
R H 0.94
L H 0.92
L H 0.81
A H 0.49
L C 0.54
D C 0.94
P C 0.58
D C 0.60
R C 0.72
L C 0.61
T C 0.89
P H 0.89
L H 0.90
E H 0.95
A H 0.95
L H 0.96
R H 0.95
L H 0.97
L H 0.95
Q H 0.95
E H 0.94
L H 0.94
K H 0.94
A H 0.89
L H 0.73
A H 0.31
L C 0.73
G C 0.86
A C 0.90
P C 0.64
L C 0.59
D C 0.12
T C 0.19
M C 0.19
K C 0.75
G C 0.97
END

