
PFRMAT SS
TARGET T0120
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 0.73
R C 0.49
K C 0.31
I C 0.04
S E 0.29
R E 0.75
I E 0.72
H E 0.90
L E 0.93
V E 0.87
S E 0.61
E C 0.68
P C 0.91
S C 0.93
I C 0.76
T E 0.51
H E 0.79
F E 0.92
L E 0.90
Q E 0.66
V E 0.75
S E 0.77
W E 0.35
E E 0.24
K C 0.03
T C 0.13
L C 0.20
E C 0.31
S C 0.60
G C 0.65
F C 0.19
V E 0.62
I E 0.94
T E 0.94
L E 0.82
T E 0.38
D C 0.63
G C 0.89
H C 0.74
S C 0.18
A E 0.30
W E 0.59
T E 0.67
G E 0.43
T E 0.30
V C 0.60
S C 0.68
E H 0.80
S H 0.87
E H 0.90
I H 0.78
S H 0.54
Q H 0.51
E H 0.62
A H 0.69
D H 0.70
D H 0.60
M H 0.35
A H 0.06
M H 0.06
E H 0.20
K H 0.65
G H 0.67
K H 0.84
Y H 0.90
V H 0.94
G H 0.96
E H 0.96
L H 0.96
R H 0.96
K H 0.94
A H 0.87
L H 0.71
L H 0.27
S C 0.40
G C 0.52
A C 0.54
G C 0.84
P C 0.80
A C 0.67
D C 0.23
V E 0.18
Y E 0.24
T E 0.10
F E 0.09
N E 0.08
F C 0.03
S C 0.20
K C 0.46
E C 0.46
S C 0.28
C E 0.17
Y E 0.51
F E 0.80
F E 0.91
F E 0.76
E E 0.40
K C 0.09
N C 0.57
L C 0.76
K C 0.13
D E 0.22
V E 0.29
S E 0.73
F E 0.73
R E 0.56
L E 0.49
G E 0.05
S C 0.28
F C 0.50
N C 0.47
L H 0.38
E H 0.45
K H 0.52
V C 0.27
E C 0.13
N C 0.70
P C 0.06
A H 0.42
E H 0.62
V H 0.70
I H 0.75
R H 0.82
E H 0.86
L H 0.83
I H 0.93
C H 0.95
Y H 0.93
C H 0.93
L H 0.88
D H 0.84
T H 0.79
I H 0.64
A H 0.37
E C 0.06
N C 0.06
Q C 0.04
A C 0.15
K C 0.33
N C 0.37
E C 0.09
H H 0.09
L H 0.21
Q H 0.29
K H 0.71
E H 0.77
N H 0.79
E H 0.84
R H 0.84
L H 0.62
L H 0.27
R C 0.22
D C 0.50
W H 0.78
N H 0.87
D H 0.86
V H 0.84
Q H 0.89
G H 0.88
R H 0.96
F H 0.94
E H 0.92
K H 0.90
C H 0.84
V H 0.60
S H 0.30
A H 0.27
K H 0.27
E H 0.33
A H 0.33
L H 0.22
E H 0.22
T H 0.56
D H 0.81
L H 0.90
Y H 0.95
K H 0.96
R H 0.96
F H 0.97
I H 0.96
L H 0.94
V H 0.89
L H 0.71
N H 0.51
E H 0.24
K H 0.19
K H 0.40
T H 0.51
K H 0.73
I H 0.88
R H 0.91
S H 0.93
L H 0.94
H H 0.93
N H 0.87
K H 0.82
L H 0.60
L H 0.25
N H 0.20
A H 0.20
A H 0.23
Q H 0.37
E H 0.51
R H 0.55
E H 0.64
K H 0.67
D H 0.69
I H 0.64
K H 0.47
Q H 0.31
E H 0.05
G C 0.43
E C 0.30
T H 0.06
A H 0.08
I H 0.19
C H 0.19
S H 0.21
E H 0.17
M C 0.02
T C 0.15
A C 0.55
D C 0.82
R C 0.85
D C 0.86
P C 0.73
V C 0.80
Y C 0.76
D C 0.74
E C 0.81
S C 0.81
T C 0.72
D C 0.57
E C 0.53
E C 0.54
S C 0.52
E C 0.40
N C 0.35
Q C 0.19
T C 0.03
D H 0.08
L H 0.29
S H 0.31
G H 0.23
L H 0.03
A H 0.01
S H 0.11
A H 0.09
A H 0.01
V C 0.16
S C 0.47
K C 0.44
D C 0.34
D C 0.18
S H 0.02
I H 0.09
I H 0.04
S H 0.02
S C 0.03
L C 0.33
D C 0.43
V C 0.23
T C 0.15
D C 0.21
I C 0.41
A C 0.71
P C 0.33
S C 0.01
R H 0.58
K H 0.80
R H 0.83
R H 0.88
Q H 0.90
R H 0.88
M H 0.82
Q H 0.84
R H 0.69
N H 0.43
L C 0.21
G C 0.86
T C 0.84
E C 0.82
P C 0.76
K C 0.68
M C 0.14
A C 0.76
P C 0.64
Q C 0.18
E C 0.01
N H 0.09
Q H 0.13
L H 0.16
Q H 0.20
E H 0.30
K H 0.20
E H 0.02
N C 0.47
S C 0.78
R C 0.90
P C 0.83
D C 0.75
S C 0.63
S C 0.61
L C 0.75
P C 0.82
E C 0.44
T C 0.36
S C 0.36
K C 0.26
K C 0.20
E C 0.23
H C 0.03
I C 0.18
S C 0.29
A C 0.01
E C 0.16
N C 0.20
M C 0.31
S C 0.08
L H 0.17
E H 0.22
T H 0.25
L H 0.02
R C 0.11
N C 0.60
S C 0.84
S C 0.85
P H 0.07
E H 0.46
D H 0.64
L H 0.58
F H 0.35
D C 0.29
E C 0.65
I C 0.96
END

