PFRMAT AL 
TARGET T0078 
AUTHOR 4139-4764-1095 
METHOD 1) Secondary structure was predicted with Predator. 
METHOD 2) We used a hidden Markov model that predicts SCOP 
METHOD    classification based on sequence and secondary structure. 
METHOD    Among the highest scoring models the one producing 
METHOD    the best alignment was chosen. 
METHOD 3) The sequence most representative for the model was 
METHOD    used for the alignment. 
MODEL 1 
PARENT 1gyl_A 
M   1   T   4 
G   2   N   5 
Q   3   V   6 
A   4   N   7 
L   5   E   8 
K   6   Y   9 
N   7   E  10 
L   8   A  11 
L   9   I  12 
T  10   A  13 
L  11   K  14 
L  12   Q  15 
N  13   K  16 
L  14   L  17 
E  15   P  18 
K  16   K  19 
I  17   M  20 
E  18   V  21 
E  19   Y  22 
G  20   D  23 
L  21   F  24 
F  22   Y  25 
R  23   A  26 
G  24   S  27 
Q  25   G  28 
S  26   A  29 
E  27   E  30 
D  28   D  31 
L  29   Q  32 
G  30   W  33 
L  31   T  34 
Q  33   L  35 
V  34   A  36 
F  35   E  37 
G  36   N  38 
G  37   R  39 
Q  38   N  40 
V  39   A  41 
V  40   F  42 
G  41   S  43 
Q  42   R  44 
A  43   I  45 
L  44   L  46 
Y  45   F  47 
A  46   R  48 
A  47   P  49 
K  48   R  50 
E  49   I  51 
T  50   L  52 
V  51   I  53 
P  52   D  54 
E  53   V  55 
E  54   T  56 
R  55   N  57 
L  56   I  58 
V  57   D  59 
H  58   M  60 
S  59   T  61 
F  60   T  62 
H  61   T  63 
S  62   I  64 
Y  63   L  65 
F  64   G  66 
L  65   F  67 
R  66   K  68 
P  67   I  69 
G  68   S  70 
D  69   M  71 
S  70   P  72 
K  71   I  73 
K  72   M  74 
P  73   I  75 
I  74   A  76 
I  75   P  77 
Y  76   T  78 
D  77   A  79 
V  78   M  80 
E  79   Q  81 
T  80   K  82 
L  81   M  83 
R  82   A  84 
D  83   H  85 
G  84   P  86 
N  85   E  87 
S  86   G  88 
F  87   E  89 
S  88   Y  90 
A  89   A  91 
R  90   T  92 
R  91   A  93 
V  92   R  94 
A  93   A  95 
A  94   A  96 
I  95   S  97 
Q  96   A  98 
N  97   A  99 
G  98   G 100 
K  99   T 101 
P 100   I 102 
M 104   M 103 
T 105   T 104 
A 106   L 105 
S 107   S 106 
F 108   S 107 
Q 109   W 108 
A 110   A 109 
P 111   T 110 
E 112   S 111 
A 113   S 112 
G 114   V 113 
F 115   E 114 
E 116   E 115 
H 117   V 116 
Q 118   A 117 
K 119   S 118 
T 120   T 119 
M 121   G 120 
P 122   P 121 
S 123   G 122 
A 124   I 123 
P 125   R 124 
A 126   F 125 
P 127   F 126 
D 128   Q 127 
G 129   L 128 
L 130   Y 129 
P 131   V 130 
S 132   Y 131 
E 133   K 132 
T 134   D 133 
Q 135   R 134 
I 136   N 135 
A 137   V 136 
Q 138   V 137 
S 139   A 138 
L 140   Q 139 
A 141   L 140 
H 142   V 141 
L 143   R 142 
L 144   R 143 
P 145   A 144 
P 146   E 145 
V 147   R 146 
L 148   A 147 
K 149   G 148 
D 150   F 149 
K 151   K 150 
F 152   A 151 
I 153   I 152 
C 154   A 153 
D 155   L 154 
R 156   T 155 
P 157   V 156 
L 158   D 157 
E 159   T 158 
V 160   P 159 
R 161   R 160 
P 162   L 161 
V 163   G 162 
E 164   R 163 
F 165   R 164 
H 166   K 169 
N 167   N 170 
P 168   R 171 
L 169   F 172 
K 170   V 173 
G 171   L 174 
H 172   P 175 
V 173   P 176 
A 174   F 177 
E 175   L 178 
P 176   T 179 
H 177   L 180 
R 178   K 181 
Q 179   N 182 
V 180   F 183 
W 181   E 184 
I 182   G 185 
R 183   I 186 
A 184   D 187 
N 185   L 188 
G 186   G 189 
S 187   K 190 
V 188   D 208 
P 189   R 209 
D 190   S 210 
D 191   L 211 
L 192   S 212 
R 193   W 213 
V 194   K 214 
H 195   D 215 
Q 196   V 216 
Y 197   A 217 
L 198   W 218 
L 199   L 219 
G 200   Q 220 
Y 201   T 221 
A 202   I 222 
S 203   T 223 
D 204   S 224 
L 205   L 225 
N 206   P 226 
F 207   I 227 
L 208   L 228 
P 209   V 229 
V 210   K 230 
A 211   G 231 
L 212   V 232 
Q 213   I 233 
P 214   T 234 
H 215   A 235 
G 216   E 236 
I 217   D 237 
G 218   A 238 
F 219   R 239 
L 220   L 240 
E 221   H 244 
P 222   G 245 
G 223   A 246 
I 224   A 247 
Q 225   G 248 
I 226   I 249 
A 227   I 250 
T 228   V 251 
I 229   S 252 
D 230   N 253 
H 231   H 254 
S 232   G 255 
M 233   A 256 
W 234   R 257 
F 235   Q 258 
H 236   L 259 
R 237   D 260 
P 238   Y 261 
F 239   V 262 
N 240   P 263 
L 241   A 264 
N 242   T 265 
E 243   I 266 
W 244   M 267 
L 245   A 268 
L 246   L 269 
Y 247   E 270 
S 248   E 271 
V 249   V 272 
E 250   V 273 
S 251   K 274 
T 252   A 275 
S 253   A 276 
A 254   Q 277 
S 255   G 278 
S 256   R 279 
A 257   I 280 
R 258   P 281 
G 259   V 282 
F 260   F 283 
V 261   L 284 
R 262   D 285 
G 263   G 286 
E 264   G 287 
F 265   V 288 
Y 266   R 289 
T 267   R 290 
Q 268   G 291 
D 269   T 292 
G 270   D 293 
V 271   V 294 
L 272   F 295 
V 273   K 296 
A 274   A 297 
S 275   L 298 
T 276   A 299 
V 277   L 300 
Q 278   G 301 
E 279   A 302 
G 280   A 303 
V 281   G 304 
M 282   V 305 
R 283   F 306 
N 284   I 307 
H 285   G 308 
N 286   R 309 
TER 
END 
