PFRMAT AL                                                                         
TARGET T0068                                                                      
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  
METHOD     and Thomas Lengauer:    
METHOD     "Analysis of Protein Alignments --  
METHOD     The software environment ToPLign", GMD, 1994-98. 
METHOD [2] Nick Alexandrov and Ruth Nussinov and Ralf Zimmer:                     
METHOD     "Fast Protein Fold Recognition via Sequence to Structure  
METHOD      Alignment and Contact Capacity Potentials",                                      
METHOD     Pacific Symposium on Biocomputing'96,  
METHOD     World Scientific Publishing Co., 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 1RMG                                                                       
S  13    K    19                                                                  
S  14    T    20                                                                  
C  15    C    21                                                                  
T  16    N    22                                                                  
T  17    I    23                                                                  
L  18    L    24                                                                  
K  19    S    25                                                                  
A  20    A    30                                                                  
D  21    D    31                                                                  
S  22    N    32                                                                  
S  23    S    33                                                                  
T  24    T    34                                                                  
A  25    V    36                                                                  
T  26    G    37                                                                  
S  27    P    38                                                                  
T  28    A    39                                                                  
I  29    I    40                                                                  
Q  30    T    41                                                                  
K  31    S    42                                                                  
A  32    A    43                                                                  
L  33    W    44                                                                  
N  34    A    45                                                                  
N  35    A    46                                                                  
C  36    C    47                                                                  
A  41    G    50                                                                  
V  42    G    51                                                                  
R  43    L    52                                                                  
L  44    V    53                                                                  
S  45    Y    54                                                                  
A  46    I    55                                                                  
G  47    P    56                                                                  
S  48    S    57                                                                  
T  49    G    58                                                                  
S  50    N    59                                                                  
V  51    Y    60                                                                  
F  52    A    61                                                                  
L  53    L    62                                                                  
S  54    N    63                                                                  
G  55    T    64                                                                  
P  56    W    65                                                                  
L  57    V    66                                                                  
S  58    T    67                                                                  
L  59    L    68                                                                  
P  60    T    69                                                                  
S  61    G    70                                                                  
G  62    G    71                                                                  
V  63    S    72                                                                  
S  64    A    73                                                                  
L  65    T    74                                                                  
L  66    A    75                                                                  
I  67    I    76                                                                  
D  68    Q    77                                                                  
K  69    L    78                                                                  
G  90    G    80                                                                  
V  91    I    81                                                                  
V  92    I    82                                                                  
D  93    Y    83                                                                  
K  94    R    84                                                                  
N  95    T    85                                                                  
G  96    G    86                                                                  
K  97    T    87                                                                  
G  98    A    88                                                                  
C  99    S    89                                                                  
D 100    G    90                                                                  
A 101    N    91                                                                  
F 102    M    92                                                                  
I 103    I    93                                                                  
T 104    A    94                                                                  
A 105    V    95                                                                  
V 106    T    96                                                                  
S 107    D    97                                                                  
T 108    T    98                                                                  
T 109    T    99                                                                  
N 110    D   100                                                                  
S 111    F   101                                                                  
G 112    E   102                                                                  
I 113    L   103                                                                  
Y 114    F   104                                                                  
G 115    S   105                                                                  
G 117    G   110                                                                  
T 118    A   111                                                                  
I 119    V   112                                                                  
D 120    Q   113                                                                  
G 121    G   114                                                                  
Q 122    F   115                                                                  
G 123    G   116                                                                  
G 124    Y   117                                                                  
V 125    V   118                                                                  
T 150    G   126                                                                  
P 151    A   127                                                                  
R 152    R   128                                                                  
L 153    I   129                                                                  
I 154    L   130                                                                  
Q 155    R   131                                                                  
I 156    L   132                                                                  
N 157    T   133                                                                  
K 158    D   134                                                                  
S 159    V   135                                                                  
K 160    T   136                                                                  
N 161    H   137                                                                  
F 162    F   138                                                                  
T 163    S   139                                                                  
L 164    V   140                                                                  
Y 165    H   141                                                                  
N 166    D   142                                                                  
V 167    I   143                                                                  
S 168    I   144                                                                  
L 169    L   145                                                                  
I 170    V   146                                                                  
N 171    D   147                                                                  
S 172    A   148                                                                  
P 173    P   149                                                                  
N 174    A   150                                                                  
F 175    F   151                                                                  
H 176    H   152                                                                  
V 177    F   153                                                                  
V 178    T   154                                                                  
F 179    M   155                                                                  
S 180    D   156                                                                  
D 181    T   157                                                                  
G 182    C   158                                                                  
D 183    S   159                                                                  
G 184    D   160                                                                  
F 185    G   161                                                                  
T 186    E   162                                                                  
A 187    V   163                                                                  
W 188    Y   164                                                                  
K 189    N   165                                                                  
T 190    M   166                                                                  
T 191    A   167                                                                  
I 192    I   168                                                                  
K 193    R   169                                                                  
T 194    G   170                                                                  
P 195    G   171                                                                  
S 196    N   172                                                                  
T 197    E   173                                                                  
T 201    L   176                                                                  
D 202    D   177                                                                  
G 203    G   178                                                                  
I 204    I   179                                                                  
D 205    D   180                                                                  
P 206    V   181                                                                  
M 207    W   182                                                                  
S 208    G   183                                                                  
S 209    S   184                                                                  
N 211    N   185                                                                  
I 212    I   186                                                                  
T 213    W   187                                                                  
I 214    V   188                                                                  
A 215    H   189                                                                  
Y 216    D   190                                                                  
S 217    V   191                                                                  
N 218    E   192                                                                  
I 219    V   193                                                                  
A 220    T   194                                                                  
T 221    N   195                                                                  
G 222    K   196                                                                  
D 223    D   197                                                                  
D 224    E   198                                                                  
N 225    C   199                                                                  
V 226    V   200                                                                  
A 227    T   201                                                                  
I 228    V   202                                                                  
K 229    K   203                                                                  
A 230    S   204                                                                  
Y 231    P   205                                                                  
K 232    A   206                                                                  
G 233    N   207                                                                  
N 239    N   208                                                                  
I 240    I   209                                                                  
S 241    L   210                                                                  
I 242    V   211                                                                  
L 243    E   212                                                                  
H 244    S   213                                                                  
N 245    I   214                                                                  
D 246    Y   215                                                                  
F 247    C   216                                                                  
G 248    N   217                                                                  
T 249    W   218                                                                  
G 250    S   219                                                                  
H 251    G   220                                                                  
G 252    G   221                                                                  
M 253    C   222                                                                  
S 254    A   223                                                                  
I 255    M   224                                                                  
G 256    G   225                                                                  
S 257    S   226                                                                  
M 260    T   231                                                                  
G 261    D   232                                                                  
V 262    V   233                                                                  
Y 263    T   234                                                                  
N 264    D   235                                                                  
V 265    I   236                                                                  
T 266    V   237                                                                  
V 267    Y   238                                                                  
D 268    R   239                                                                  
D 269    N   240                                                                  
L 270    V   241                                                                  
K 271    Y   242                                                                  
M 272    T   243                                                                  
N 273    W   244                                                                  
T 275    S   245                                                                  
T 276    S   246                                                                  
N 277    N   247                                                                  
G 278    Q   248                                                                  
L 279    M   249                                                                  
R 280    Y   250                                                                  
I 281    M   251                                                                  
K 282    I   252                                                                  
S 283    K   253                                                                  
D 284    S   254                                                                  
K 285    N   255                                                                  
S 286    G   256                                                                  
A 287    G   257                                                                  
A 288    S   258                                                                  
G 289    G   259                                                                  
V 290    T   260                                                                  
V 291    V   261                                                                  
N 292    S   262                                                                  
G 293    N   263                                                                  
V 294    V   264                                                                  
R 295    L   265                                                                  
Y 296    L   266                                                                  
S 297    E   267                                                                  
N 298    N   268                                                                  
V 299    F   269                                                                  
V 300    I   270                                                                  
M 301    G   271                                                                  
K 302    H   272                                                                  
N 303    G   273                                                                  
V 304    N   274                                                                  
A 305    A   275                                                                  
K 306    Y   276                                                                  
P 307    S   277                                                                  
I 308    L   278                                                                  
V 309    D   279                                                                  
I 310    I   280                                                                  
D 311    D   281                                                                  
T 312    G   282                                                                  
V 313    Y   283                                                                  
D 327    G   294                                                                  
I 328    V   295                                                                  
T 329    Q   296                                                                  
F 330    L   297                                                                  
K 331    N   298                                                                  
D 332    N   299                                                                  
V 333    I   300                                                                  
T 334    T   301                                                                  
S 335    V   302                                                                  
E 336    K   303                                                                  
T 337    N   304                                                                  
K 338    W   305                                                                  
G 339    K   306                                                                  
V 340    G   307                                                                  
V 341    T   308                                                                  
V 342    E   309                                                                  
L 343    A   310                                                                  
N 344    N   311                                                                  
G 345    G   312                                                                  
E 346    A   313                                                                  
N 347    T   314                                                                  
A 348    R   315                                                                  
K 349    P   316                                                                  
K 350    P   317                                                                  
P 351    I   318                                                                  
I 352    R   319                                                                  
E 353    V   320                                                                  
V 354    V   321                                                                  
T 355    C   322                                                                  
M 356    S   323                                                                  
K 357    D   324                                                                  
N 358    T   325                                                                  
V 359    A   326                                                                  
K 360    P   327                                                                  
L 361    C   328                                                                  
T 362    T   329                                                                  
S 363    D   330                                                                  
D 364    L   331                                                                  
S 365    T   332                                                                  
T 366    L   333                                                                  
W 367    E   334                                                                  
Q 368    D   335                                                                  
I 369    I   336                                                                  
K 370    A   337                                                                  
V 372    W   339                                                                  
N 373    T   340                                                                  
V 374    E   341                                                                  
TER                                                                               
END                                                                               
