
PFRMAT SS
TARGET T0103
AUTHOR 6153-6797-7392
METHOD The nearest neighbour method based on the FFAS
METHOD profile-profile matching algorithm.
METHOD 
METHOD The FFAS sequence profile method is described in:
METHOD 
METHOD Rychlewski, L., Jaroszewski, L., Li, W. & Godzik, A. (2000). 
METHOD "Comparison of sequence profiles. Strategies for structural
METHOD predictions using sequence information". Protein Science 9, 232-241 
METHOD 
METHOD The prototype of the secondary structure prediction
METHOD method is described in:
METHOD Rychlewski, L., and Godzik. A, (1997) 
METHOD "Secondary structure prediction using segment similarity", 
METHOD Protein Eng 10, 1143-1153 
METHOD 
METHOD The detailed description of the method will be a subject
METHOD of the separate publication.
METHOD 
MODEL 1
A C 0.44
A C 0.44
G C 0.56
T C 0.56
A C 0.56
K C 0.56
G C 0.78
H C 0.78
N C 1.00
P H 0.67
T H 0.67
E H 0.78
F H 0.89
P H 0.89
T H 0.89
I H 0.89
Y E 0.78
D C 0.89
A C 0.89
S C 0.89
S C 0.67
A C 0.67
P C 0.89
T C 0.78
A C 0.89
A C 0.78
N C 0.78
T C 0.78
T E 0.67
V E 0.78
G E 0.78
I E 0.78
I E 0.78
T E 0.67
I E 0.56
G C 0.67
G C 0.78
V C 0.78
S E 0.67
Q C 0.67
T C 0.67
L H 0.56
Q H 0.56
D H 0.56
L H 0.78
Q H 0.89
Q H 0.89
F H 0.89
T H 0.78
S H 0.78
A H 0.67
N C 0.67
G C 0.89
L C 0.89
A C 0.78
S C 0.89
V C 0.78
N C 0.78
T C 0.56
Q E 0.67
T E 0.78
I E 0.78
Q E 0.89
T E 0.89
G E 0.78
S C 0.78
S C 0.89
N C 0.89
G C 0.78
D C 0.67
Y C 0.67
S C 0.78
D C 0.78
D C 0.89
Q C 0.89
Q C 0.89
G C 0.89
Q C 0.89
G C 0.89
E C 0.67
W E 0.56
D C 0.67
L C 0.78
D C 0.67
S E 0.44
Q E 0.44
S E 0.56
I E 0.56
V E 0.56
G E 0.44
S E 0.44
A C 0.56
G C 0.67
G C 0.67
A C 0.67
V C 0.56
Q E 0.56
Q E 0.89
L E 0.89
L E 0.89
F E 0.78
Y E 0.67
M C 0.78
A C 0.89
D C 1.00
Q C 0.78
S C 0.78
A C 0.67
S C 0.78
G C 0.89
N C 0.78
T C 0.67
G E 0.56
L H 0.67
T H 0.78
Q H 0.78
A H 0.78
F H 0.67
N H 0.67
Q H 0.67
A H 0.56
V C 0.67
S C 0.67
D C 0.67
N C 0.78
V C 0.78
A C 0.67
K C 0.78
V E 0.78
I E 0.89
N E 1.00
V E 0.89
S E 0.67
L C 0.67
G C 0.78
W C 0.89
C C 0.89
E C 0.67
A C 0.67
D C 0.67
A C 0.67
N C 0.67
A C 0.67
D C 0.67
G C 0.67
T E 0.56
L E 0.56
Q E 0.67
A E 0.56
E E 0.56
D C 0.67
R H 0.56
I H 0.89
F H 0.89
A H 0.89
T H 0.89
A H 0.89
A H 0.89
A H 0.78
Q C 0.67
G C 0.89
Q C 0.67
T E 0.89
F E 0.89
S E 0.89
V E 0.89
S C 0.67
S C 0.89
G C 0.89
D C 0.89
E C 0.89
G C 0.89
V C 0.89
Y C 0.78
E C 0.89
C C 0.89
N C 0.89
N C 0.89
R C 0.89
G C 0.89
Y C 0.89
P C 0.78
D C 0.78
G C 0.89
S C 0.67
T E 0.67
Y E 0.67
S E 0.78
V C 0.67
S C 0.67
W C 0.67
P C 1.00
A C 1.00
S C 1.00
S C 1.00
P C 0.78
N E 0.67
V E 0.78
I E 0.78
A E 0.67
V C 0.56
G C 0.78
G C 0.78
T E 0.78
T E 0.89
L E 0.89
Y E 0.78
T E 0.67
T C 0.78
S C 0.89
A C 0.89
G C 0.89
A C 0.89
Y C 0.89
S C 0.78
N C 0.67
E C 0.67
T C 0.56
V E 0.56
W C 0.44
N C 0.44
E E 0.67
G E 0.67
L E 0.67
D C 0.67
S C 0.89
N C 0.89
G C 0.89
K C 0.78
L E 0.67
W E 0.67
A C 0.56
T C 0.89
G C 0.89
G C 0.89
G C 0.78
Y C 0.78
S E 0.78
V E 0.78
Y E 0.78
E E 0.78
S C 0.78
K C 1.00
P C 1.00
S C 0.89
W C 0.67
Q C 0.67
S E 0.56
V E 0.56
V E 0.67
S E 0.56
G C 0.56
T C 0.78
P C 0.89
G C 0.78
R C 0.78
R C 0.56
L C 0.67
L C 0.78
P C 0.89
D C 0.89
I C 0.67
S E 0.56
F E 0.67
D E 0.56
A C 0.56
A C 0.67
Q C 0.78
G C 0.89
T C 0.67
G C 0.56
A E 0.78
L E 1.00
I E 1.00
Y E 0.89
N E 0.78
Y C 0.89
G C 0.89
Q C 0.78
L E 0.78
Q E 0.89
Q E 0.89
I E 0.78
G C 0.78
G C 0.78
T E 0.67
S C 0.56
L C 0.67
A C 0.67
S C 0.67
P C 0.44
I E 0.44
F E 0.56
V H 0.67
G H 0.67
L H 0.67
W H 0.67
A H 0.67
R H 0.67
L H 0.67
Q H 0.56
S C 0.67
A C 0.78
N C 0.89
S C 0.89
N C 0.78
S C 0.56
L C 0.56
G C 0.56
F C 0.56
P C 0.67
A C 0.78
A H 0.67
S H 0.67
F H 0.78
Y H 0.78
S H 0.78
A H 0.78
I H 0.78
S H 0.67
S H 0.56
T C 0.78
P C 0.78
S C 0.56
L C 0.56
V E 0.56
H E 0.67
D E 0.56
V C 0.56
K C 0.67
S C 0.78
G C 0.89
N C 0.89
N C 0.89
G C 0.78
Y C 0.78
G C 0.78
G C 0.78
Y C 0.78
G C 0.78
Y C 0.67
N C 0.67
A C 0.67
G C 0.67
T C 0.67
G C 0.89
W C 0.78
D C 0.67
Y C 0.67
P C 0.67
T C 0.78
G C 0.89
W C 0.89
G C 0.89
S C 0.67
L C 0.56
D C 0.67
I H 0.67
A H 0.89
K H 0.89
L H 0.89
S H 0.89
A H 1.00
Y H 0.89
I H 0.89
R H 0.78
S H 0.56
N C 0.78
G C 1.00
F C 0.89
G C 0.78
H C 0.67
END
 - - - - - - - - - - - - - - - - - -
 Lukasz Jaroszewski, Ph. D.
 The Burnham Institute,
 10901 North Torrey Pines Road,
 La Jolla, CA 92037, USA
 phone +1 (858) 646 3100 ext. 3553
 fax  +1 (858) 646 3171
 - - - - - - - - - - - - - - - - - -

