PFRMAT AL                                                               
TARGET T0059                                                            
REMARK ================================================================ 
AUTHOR 5601-8785-5692                                                   
REMARK Heinz Mevissen, GMD,                                             
REMARK Ralf Thiele, GMD,                                                
REMARK Ralf Zimmer, GMD,                                                
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 1CSP                                                                       
S   2    M     1                                                        
I   3    L     2                                                        
G   4    E     3                                                        
V   5    G     4                                                        
P   6    K     5                                                        
I   7    V     6                                                        
K   8    K     7                                                        
V   9    W     8                                                        
L  10    F     9                                                        
H  11    N    10                                                        
E  12    S    11                                                        
H  16    G    16                                                        
I  17    F    17                                                        
V  18    I    18                                                        
T  19    E    19                                                        
C  20    V    20                                                        
E  21    E    21                                                        
T  22    G    22                                                        
N  23    Q    23                                                        
T  24    D    24                                                        
G  25    D    25                                                        
E  26    V    26                                                        
V  27    F    27                                                        
Y  28    V    28                                                        
R  29    H    29                                                        
G  30    F    30                                                        
K  31    S    31                                                        
L  32    A    32                                                        
I  33    I    33                                                        
E  34    Q    34                                                        
A  35    G    35                                                        
E  36    E    36                                                        
D  37    G    37                                                        
N  38    F    38                                                        
M  39    K    39                                                        
N  40    T    40                                                        
C  41    L    41                                                        
Q  42    E    42                                                        
M  43    E    43                                                        
S  44    G    44                                                        
N  45    A    46                                                        
I  46    V    47                                                        
T  47    S    48                                                        
V  48    F    49                                                        
T  49    E    50                                                        
Y  50    I    51                                                        
R  51    V    52                                                        
D  52    E    53                                                        
G  53    G    54                                                        
R  64    R    56                                                        
G  65    G    57                                                        
S  66    P    58                                                        
K  67    Q    59                                                        
I  68    A    60                                                        
R  69    A    61                                                        
F  70    N    62                                                        
L  71    V    63                                                        
I  72    T    64                                                        
L  73    K    65                                                        
P  74    E    66                                                        
D  75    A    67                                                        
TER                                                                     
END                                                                     
