
PFRMAT AL                                                                        
TARGET T0086                                                                     
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  2                                                                         
PARENT 1A3A_D                                                                    
S   1    A    19                                                                 
H   2    T    20                                                                 
P   3    K    21                                                                 
A   4    E    22                                                                 
L   5    E    23                                                                 
T   6    A    24                                                                 
Q   7    I    25                                                                 
L   8    R    26                                                                 
R   9    F    27                                                                 
A  10    A    28                                                                 
L  11    G    29                                                                 
R  12    E    30                                                                 
Y  13    Q    31                                                                 
C  14    L    32                                                                 
K  15    V    33                                                                 
E  16    K    34                                                                 
I  17    G    35                                                                 
P  18    G    36                                                                 
A  19    Y    37                                                                 
L  20    V    38                                                                 
D  21    E    39                                                                 
P  22    P    40                                                                 
Q  23    E    41                                                                 
L  24    Y    42                                                                 
L  25    V    43                                                                 
D  26    Q    44                                                                 
W  27    A    45                                                                 
L  28    M    46                                                                 
L  29    L    47                                                                 
L  30    D    48                                                                 
E  31    R    49                                                                 
D  32    E    50                                                                 
S  33    K    51                                                                 
M  34    L    52                                                                 
T  35    T    53                                                                 
K  36    P    54                                                                 
R  37    T    55                                                                 
F  38    Y    56                                                                 
E  39    L    57                                                                 
Q  40    G    58                                                                 
Q  41    E    59                                                                 
G  42    S    60                                                                 
K  43    I    61                                                                 
T  44    A    62                                                                 
V  45    V    63                                                                 
S  46    P    64                                                                 
V  47    H    65                                                                 
T  48    G    66                                                                 
E  62    E    69                                                                 
E  63    A    70                                                                 
L  64    K    71                                                                 
P  65    D    72                                                                 
L  66    R    73                                                                 
L  67    V    74                                                                 
Y  73    C    82                                                                 
W  74    Q    83                                                                 
L  75    Y    84                                                                 
R  76    P    85                                                                 
E  77    E    86                                                                 
I  78    G    87                                                                 
L  79    V    88                                                                 
L  80    R    89                                                                 
C  81    F    90                                                                 
A  82    G    91                                                                 
D  83    E    92                                                                 
G  84    E    93                                                                 
E  85    E    94                                                                 
P  86    D    95                                                                 
W  87    D    96                                                                 
L  88    I    97                                                                 
A  89    A    98                                                                 
G  90    R    99                                                                 
R  91    L   100                                                                 
T  92    V   101                                                                 
V  93    I   102                                                                 
V  94    G   103                                                                 
P  95    I   104                                                                 
V  96    A   105                                                                 
S  97    A   106                                                                 
T  98    R   107                                                                 
L  99    N   108                                                                 
S 100    N   109                                                                 
G 101    E   110                                                                 
P 102    H   111                                                                 
E 103    I   112                                                                 
L 104    Q   113                                                                 
A 105    V   114                                                                 
L 106    I   115                                                                 
Q 107    T   116                                                                 
K 108    S   117                                                                 
L 109    L   118                                                                 
L 118    A   121                                                                 
F 119    L   122                                                                 
T 120    D   123                                                                 
S 121    D   124                                                                 
S 122    E   125                                                                 
T 123    S   126                                                                 
L 124    V   127                                                                 
R 143    R   130                                                                 
L 144    L   131                                                                 
R 145    A   132                                                                 
L 146    H   133                                                                 
S 147    T   134                                                                 
G 148    T   135                                                                 
K 149    S   136                                                                 
P 150    V   137                                                                 
L 151    D   138                                                                 
L 152    E   139                                                                 
L 153    V   140                                                                 
T 154    L   141                                                                 
E 155    E   142                                                                 
L 156    L   143                                                                 
F 157    L   144                                                                 
L 158    A   145                                                                 
P 159    G   146                                                                 
A 160    R   147                                                                 
TER                                                                              
END                                                                              



