
PFRMAT SS
TARGET T0105
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
D C 0.49
E C 0.42
N C 0.40
I C 0.42
N C 0.42
F C 0.43
K C 0.43
Q C 0.40
S C 0.29
E C 0.22
L C 0.34
P C 0.47
V E 0.43
T E 0.44
C E 0.29
G C 0.19
E C 0.09
V E 0.16
K E 0.21
G E 0.29
T E 0.18
L E 0.19
Y E 0.20
K H 0.60
E H 0.59
R H 0.57
F C 0.04
K C 0.24
Q C 0.35
G C 0.36
T C 0.35
S C 0.34
K E 0.12
K E 0.10
C E 0.23
I E 0.32
Q E 0.33
S E 0.35
E C 0.38
D C 0.36
K C 0.32
K E 0.28
W E 0.82
F E 0.50
T E 0.21
P C 0.14
R C 0.15
E C 0.16
F E 0.31
E E 0.38
I E 0.44
E E 0.09
G C 0.25
D C 0.30
R C 0.37
G C 0.36
A C 0.26
S C 0.17
K C 0.23
N C 0.13
W C 0.13
K C 0.13
L E 0.12
S E 0.06
I E 0.06
R E 0.06
C C 0.09
G C 0.24
G C 0.13
Y E 0.02
T E 0.58
L H 0.41
K H 0.42
V H 0.41
L H 0.34
M H 0.28
E H 0.22
N C 0.64
K C 0.42
F C 0.38
L C 0.41
P C 0.42
E C 0.43
P C 0.39
P C 0.32
S C 0.30
T C 0.31
R C 0.27
K C 0.26
K E 0.33
V E 0.34
T E 0.18
I E 0.33
K C 0.48
END

