
PFRMAT AL                                                                        
TARGET T0099                                                                     
REMARK =========================================================================
AUTHOR 6923-1755-6564                                                           
REMARK Ralf Zimmer, GMD-SCAI,                                                   
REMARK Theo Mevissen, GMD-SCAI,                                                 
REMARK Ingolf Sommer, GMD-SCAI,                                                 
REMARK Thomas Lengauer, GMD-SCAI,                                               
REMARK German National Research Center for Information Technology               
REMARK Institute for Algorithms and Scientific Computing                        
REMARK =========================================================================
METHOD A reduced candidate list is produced via ToPLign [1]                     
METHOD sequence/profile alignments, 123D [2] and RDP [3].                       
METHOD The top scoring candidates from this list and the                        
METHOD corresponding refined alignments have been produced                      
METHOD with RDP [3] using newly derived modifications of                        
METHOD contact capacity [2] and pair interaction potentials.                    
METHOD References:                                                              
METHOD [1] Heinz Mevissen and Ralf Thiele and Ralf Zimmer and Thomas Lengauer:  
METHOD     "Analysis of Protein Alignments -- The software environment ToPLign",
METHOD     GMD, 1994-98.                                                        
METHOD [2] Nick Alexandrov and Ruth Nussinov and Ralf Zimmer:                   
METHOD     "Fast Protein Fold Recognition via Sequence to Structure Alignment   
METHOD     and Contact Capacity Potentials",                                    
METHOD     Pacific Symposium on Biocomputing'96, World Scientific Publ. Co.,    
METHOD     1996, 53--72.                                                        
METHOD [3] Ralf Thiele and Ralf Zimmer and Thomas Lengauer:                     
METHOD     "Recursive Dynamic Programming for Adaptive Sequence                 
METHOD     and Structure Alignment",                                            
METHOD     ISMB'95, C. Rawlings et al. (Eds.), AAAI Press, 384--392.            
REMARK =========================================================================
MODEL  1                                                                         
PARENT 1NYG                                                                      
E   1    V    84                                                                 
F   2    F    87                                                                 
I   3    V    88                                                                 
A   4    A    89                                                                 
I   5    L    90                                                                 
Y   6    Y    91                                                                 
D   7    D    92                                                                 
Y   8    Y    93                                                                 
K   9    E    94                                                                 
A  10    A    95                                                                 
E  11    R    96                                                                 
T  12    T    97                                                                 
E  13    E    98                                                                 
E  14    D    99                                                                 
D  15    D   100                                                                 
L  16    L   101                                                                 
T  17    S   102                                                                 
I  18    F   103                                                                 
K  19    H   104                                                                 
K  20    K   105                                                                 
G  21    G   106                                                                 
E  22    E   107                                                                 
K  23    K   108                                                                 
L  24    F   109                                                                 
E  25    Q   110                                                                 
I  26    I   111                                                                 
I  27    L   112                                                                 
E  28    N   113                                                                 
K  29    S   114                                                                 
E  30    E   116                                                                 
G  31    G   117                                                                 
D  32    D   118                                                                 
W  33    W   119                                                                 
W  34    W   120                                                                 
K  35    E   121                                                                 
A  36    A   122                                                                 
K  37    R   123                                                                 
A  38    S   124                                                                 
I  39    L   125                                                                 
G  40    T   126                                                                 
S  41    T   127                                                                 
G  42    G   128                                                                 
E  43    E   129                                                                 
I  44    T   130                                                                 
G  45    G   131                                                                 
Y  46    Y   132                                                                 
I  47    I   133                                                                 
P  48    P   134                                                                 
A  49    S   135                                                                 
N  50    N   136                                                                 
Y  51    Y   137                                                                 
I  52    V   138                                                                 
A  53    A   139                                                                 
A  54    P   140                                                                 
A  55    V   141                                                                 
TER                                                                              
END                                                                              



