
PFRMAT SS
TARGET T0113
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 0.99
A C 0.71
A C 0.44
A C 0.51
V C 0.29
R C 0.51
S C 0.63
V C 0.58
K C 0.88
G C 0.89
L C 0.91
V E 0.91
A E 0.92
V E 0.94
I E 0.94
T E 0.83
G C 0.85
G C 0.91
A C 0.79
S C 0.72
G H 0.43
L H 0.77
G H 0.86
L H 0.93
S H 0.96
T H 0.96
A H 0.96
K H 0.96
R H 0.95
L H 0.92
V H 0.86
G H 0.60
Q C 0.77
G C 0.97
A C 0.85
T E 0.70
A E 0.93
V E 0.95
L E 0.92
L E 0.84
D C 0.05
V C 0.85
P C 0.92
N H 0.87
S H 0.91
E H 0.93
G H 0.95
E H 0.95
T H 0.95
E H 0.96
A H 0.96
K H 0.94
K H 0.76
L H 0.05
G C 0.88
G C 0.94
N C 0.29
C E 0.40
I E 0.91
F E 0.96
A E 0.93
P E 0.72
A C 0.35
N C 0.83
V C 0.86
T C 0.93
S C 0.95
E H 0.88
K H 0.92
E H 0.94
V H 0.95
Q H 0.96
A H 0.96
A H 0.97
L H 0.96
T H 0.95
L H 0.96
A H 0.95
K H 0.96
E H 0.94
K H 0.86
F H 0.60
G C 0.89
R C 0.94
I C 0.29
D C 0.49
V E 0.92
A E 0.96
V E 0.94
N E 0.80
C C 0.92
A C 0.90
G C 0.88
I C 0.87
A C 0.88
V C 0.87
A C 0.88
I C 0.58
K C 0.31
T C 0.15
Y C 0.15
H C 0.24
E C 0.34
K C 0.65
K C 0.57
N C 0.27
Q C 0.28
V C 0.33
H C 0.94
T C 0.93
L H 0.87
E H 0.90
D H 0.95
F H 0.96
Q H 0.95
R H 0.96
V H 0.97
I H 0.95
N H 0.88
V H 0.82
N H 0.79
L H 0.45
I H 0.92
G H 0.96
T H 0.95
F H 0.96
N H 0.97
V H 0.96
I H 0.97
R H 0.97
L H 0.96
V H 0.95
A H 0.95
G H 0.96
V H 0.93
M H 0.86
G H 0.81
Q H 0.44
N C 0.12
E C 0.86
P C 0.65
D C 0.50
Q C 0.30
G C 0.60
G C 0.83
Q C 0.91
R C 0.81
G C 0.79
V E 0.81
I E 0.90
I E 0.93
N E 0.94
T E 0.69
A C 0.75
S H 0.29
V H 0.78
A H 0.62
A C 0.01
F C 0.64
E C 0.75
G C 0.89
Q C 0.91
V C 0.88
G C 0.86
Q C 0.52
A H 0.48
A H 0.71
Y H 0.76
S H 0.89
A H 0.90
S H 0.86
K H 0.97
G H 0.97
G H 0.96
I H 0.97
V H 0.96
G H 0.96
M H 0.96
T H 0.94
L H 0.96
P H 0.96
I H 0.96
A H 0.95
R H 0.95
D H 0.94
L H 0.87
A H 0.50
P C 0.13
I C 0.75
G C 0.96
I C 0.81
R E 0.88
V E 0.94
V E 0.82
T E 0.86
I E 0.79
A C 0.07
P C 0.83
G C 0.89
L C 0.65
F C 0.05
A C 0.42
T C 0.21
P H 0.42
L H 0.68
L H 0.68
T H 0.36
T H 0.08
L C 0.34
P C 0.76
D H 0.91
K H 0.88
V H 0.91
R H 0.95
N H 0.95
F H 0.94
L H 0.96
A H 0.91
S H 0.71
Q H 0.22
V C 0.91
P C 0.91
F C 0.70
P C 0.49
S C 0.65
R C 0.72
L C 0.80
G C 0.75
D C 0.94
P H 0.84
A H 0.92
E H 0.96
Y H 0.97
A H 0.98
H H 0.97
L H 0.98
V H 0.98
Q H 0.98
M H 0.96
V H 0.93
I H 0.77
E C 0.29
N C 0.77
P C 0.89
F C 0.77
L C 0.48
N C 0.48
G C 0.65
E E 0.20
V E 0.76
I E 0.88
R E 0.74
L E 0.73
D C 0.83
G C 0.90
A C 0.67
I C 0.05
R C 0.07
M C 0.80
Q C 0.91
P C 0.95
END

