
PFRMAT SS
TARGET T0107
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
V C 0.48
A C 0.24
T C 0.13
A C 0.07
K C 0.07
Y C 0.12
G C 0.14
T C 0.13
P C 0.23
V C 0.32
I C 0.32
D C 0.27
G C 0.26
E C 0.17
I C 0.09
D H 0.16
E H 0.16
I H 0.15
W C 0.17
N C 0.51
T C 0.44
T C 0.26
E C 0.19
E C 0.12
I E 0.47
E E 0.26
R E 0.06
K E 0.11
A E 0.28
V E 0.37
A E 0.41
M E 0.43
G E 0.44
S C 0.14
L C 0.29
D C 0.37
K C 0.42
N C 0.37
A C 0.31
T C 0.25
A E 0.38
K E 0.43
V E 0.45
R E 0.47
V E 0.46
L E 0.43
W E 0.41
D C 0.19
E C 0.28
N C 0.37
Y E 0.14
L E 0.31
Y E 0.39
V E 0.43
L E 0.45
A E 0.46
I E 0.41
V E 0.35
K C 0.10
D C 0.12
P C 0.06
V C 0.08
L C 0.23
N C 0.32
K C 0.37
D C 0.40
N C 0.41
S C 0.42
N C 0.28
P C 0.21
W C 0.15
E C 0.16
Q C 0.23
D C 0.15
S C 0.08
V E 0.36
E E 0.42
I E 0.45
F E 0.45
I E 0.40
D E 0.35
E C 0.40
N C 0.42
N C 0.43
H C 0.31
K C 0.38
T C 0.40
G C 0.42
Y C 0.40
Y C 0.33
E C 0.35
D C 0.38
D C 0.38
D C 0.33
A C 0.28
Q E 0.07
F E 0.26
R E 0.36
V E 0.39
N E 0.35
Y E 0.31
M C 0.15
N C 0.19
E C 0.14
Q C 0.07
T C 0.16
F C 0.27
G C 0.33
T C 0.28
G C 0.25
G C 0.23
S C 0.18
P C 0.30
A C 0.28
R C 0.16
F C 0.04
K E 0.04
T E 0.03
A E 0.19
V E 0.27
K E 0.30
L E 0.34
I C 0.02
E C 0.22
G C 0.23
G C 0.24
Y E 0.25
I E 0.36
V E 0.40
E E 0.39
A E 0.39
A E 0.39
I E 0.35
K E 0.44
W E 0.53
K C 0.31
T C 0.34
I C 0.25
K C 0.22
P C 0.31
T C 0.38
P C 0.41
N C 0.32
T C 0.23
V E 0.41
I E 0.43
G E 0.44
F E 0.45
N E 0.46
I E 0.47
Q E 0.44
V E 0.34
N E 0.25
D C 0.22
A C 0.34
N C 0.39
E C 0.43
K C 0.40
G C 0.21
Q C 0.01
R E 0.38
V E 0.38
G E 0.42
I E 0.45
I E 0.45
S E 0.40
W E 0.34
S C 0.41
D C 0.41
P C 0.43
T C 0.45
N C 0.43
N C 0.40
S C 0.31
W C 0.26
R C 0.26
D C 0.28
P C 0.29
S C 0.30
K C 0.19
F C 0.18
G C 0.17
N E 0.37
L E 0.40
R E 0.40
L E 0.41
I C 0.13
K C 0.48
END

