PFRMAT SS 
TARGET t0061 
AUTHOR 9714-4392-9726 
REMARK /home/cma/huyer/matlab/protein/HEL/S0sec3770_100/PotentialS0 
REMARK crit = 12345 
REMARK lam =  1.00 
REMARK selected row  1 
REMARK   
METHOD This secondary structure prediction of the protein was generated by a  
METHOD dynamic programming algorithm based on fragment probability tables     
METHOD constructed from 1000 dssp-files with <=500 residues randomly drawn    
METHOD from ftp://ftp.embl-heidelberg.de/pub/databases/protein_extras/dssp/   
METHOD using a decision graph, i.e., a modified decision tree                 
METHOD that allows the approximation of discrete probability distributions    
METHOD in classification problems.                                            
METHOD                                                                        
METHOD Training the decision graph is a slow process (needed only once),      
METHOD but subsequent assignment of secondary structure to arbitrary primary  
METHOD sequences is fast, not needing access to any database of structures.   
METHOD (See REMARKs for the parameters used in the training process.)         
METHOD                                                                        
METHOD In particular, no threading is involved.                               
METHOD                                                                        
METHOD Details will become available on the WWW-page                          
METHOD http://solon.cma.univie.ac.at/~neum/protein.html                       
MODEL 3  
A C 0.50 
D C 0.53 
A H 0.69 
Q H 0.62 
K C 0.60 
A C 0.79 
A C 0.84 
D C 0.81 
N C 0.83 
K H 0.69 
K H 0.64 
P C 0.82 
V H 0.65 
N H 0.64 
S H 0.65 
W E 0.67 
T E 0.57 
C C 0.63 
E H 0.77 
D H 0.84 
F H 0.77 
L C 0.61 
A E 0.65 
V E 0.71 
D E 0.64 
E C 0.72 
S H 0.63 
F H 0.66 
Q C 0.71 
P C 0.83 
T C 0.80 
A C 0.71 
V C 0.82 
G C 0.75 
F H 0.82 
A H 0.95 
E H 0.96 
A H 0.71 
L H 0.68 
N E 0.50 
N C 0.55 
K C 0.55 
D C 0.62 
K C 0.73 
P C 0.71 
E C 0.60 
D E 0.45 
A E 0.74 
V E 0.86 
L E 0.79 
D H 0.74 
V H 0.80 
Q H 0.71 
G C 0.56 
I C 0.58 
A C 0.60 
T C 0.63 
V C 0.76 
T C 0.82 
P C 0.75 
A H 0.78 
I H 0.83 
V H 0.96 
Q H 0.90 
A H 0.93 
C H 0.75 
T H 0.80 
Q H 0.79 
D H 0.76 
K H 0.69 
Q H 0.72 
A H 0.71 
N C 0.63 
F C 0.62 
K C 0.57 
D H 0.50 
K H 0.56 
V H 0.64 
K C 0.59 
G C 0.58 
E C 0.57 
W C 0.65 
D C 0.58 
K E 0.49 
I H 0.53 
K H 0.57 
K H 0.60 
D H 0.54 
M C 0.38 
END 
