| 11 |
| ID: | 1684726428 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 404 (341) | ||
| Sequences: | 6558 (4494.8) | ||
| Seq/Len: | 19.232 | ||
| Nf(neff/√len): | 243.4 |
HHblits Results: (2016_02)
Sequences per length for each position, AFTER the coverage/gap filter was applied
Residue pairs sorted by coevolution strength:
Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.
| i | j | Scaled score | Prob |
| 358_N | 362_T | 4.421 | 1.00 |
| 342_T | 388_C | 3.858 | 1.00 |
| 356_L | 384_V | 3.800 | 1.00 |
| 354_D | 358_N | 3.669 | 1.00 |
| 352_V | 380_Y | 3.377 | 1.00 |
| 345_L | 392_F | 3.280 | 1.00 |
| 291_R | 317_D | 3.175 | 1.00 |
| 208_I | 343_F | 3.020 | 1.00 |
| 288_A | 292_S | 2.950 | 1.00 |
| 288_A | 317_D | 2.917 | 1.00 |
| 342_T | 384_V | 2.846 | 1.00 |
| 284_E | 321_R | 2.770 | 1.00 |
| 368_A | 374_D | 2.696 | 1.00 |
| 355_K | 380_Y | 2.649 | 1.00 |
| 208_I | 339_L | 2.423 | 1.00 |
| 346_L | 352_V | 2.414 | 1.00 |
| 91_T | 94_E | 2.402 | 1.00 |
| 103_V | 122_N | 2.399 | 1.00 |
| 342_T | 346_L | 2.398 | 1.00 |
| 223_R | 289_G | 2.385 | 1.00 |
| 94_E | 97_E | 2.374 | 1.00 |
| 105_S | 113_R | 2.293 | 1.00 |
| 93_F | 97_E | 2.291 | 1.00 |
| 371_S | 374_D | 2.265 | 1.00 |
| 290_V | 305_S | 2.247 | 1.00 |
| 280_R | 321_R | 2.225 | 1.00 |
| 359_E | 378_M | 2.216 | 1.00 |
| 356_L | 381_L | 2.173 | 1.00 |
| 387_E | 390_Y | 2.079 | 1.00 |
| 204_L | 343_F | 2.077 | 1.00 |
| 277_I | 281_H | 2.066 | 1.00 |
| 103_V | 117_I | 2.054 | 1.00 |
| 73_I | 78_Q | 2.054 | 1.00 |
| 184_E | 218_A | 2.027 | 1.00 |
| 292_S | 295_P | 2.024 | 1.00 |
| 284_E | 288_A | 1.993 | 1.00 |
| 384_V | 388_C | 1.968 | 1.00 |
| 354_D | 357_R | 1.926 | 1.00 |
| 246_N | 278_E | 1.897 | 1.00 |
| 338_A | 394_S | 1.885 | 1.00 |
| 186_V | 211_L | 1.880 | 1.00 |
| 121_Q | 124_E | 1.879 | 1.00 |
| 294_K | 311_A | 1.879 | 1.00 |
| 71_L | 77_W | 1.867 | 1.00 |
| 242_K | 278_E | 1.848 | 1.00 |
| 281_H | 285_D | 1.836 | 1.00 |
| 345_L | 349_T | 1.813 | 1.00 |
| 353_I | 357_R | 1.804 | 1.00 |
| 347_A | 353_I | 1.764 | 1.00 |
| 69_W | 77_W | 1.731 | 1.00 |
| 289_G | 293_L | 1.730 | 1.00 |
| 352_V | 384_V | 1.697 | 1.00 |
| 350_P | 354_D | 1.682 | 1.00 |
| 150_G | 326_N | 1.676 | 1.00 |
| 363_V | 378_M | 1.672 | 1.00 |
| 349_T | 352_V | 1.656 | 1.00 |
| 104_I | 116_N | 1.655 | 1.00 |
| 346_L | 353_I | 1.645 | 1.00 |
| 188_N | 229_K | 1.635 | 1.00 |
| 289_G | 292_S | 1.620 | 1.00 |
| 249_I | 271_R | 1.612 | 1.00 |
| 379_P | 383_Q | 1.606 | 1.00 |
| 91_T | 95_I | 1.591 | 1.00 |
| 270_A | 274_T | 1.579 | 1.00 |
| 357_R | 361_G | 1.573 | 1.00 |
| 119_A | 122_N | 1.569 | 1.00 |
| 117_I | 126_I | 1.567 | 1.00 |
| 185_H | 224_S | 1.545 | 1.00 |
| 192_R | 195_L | 1.538 | 1.00 |
| 62_S | 115_H | 1.523 | 1.00 |
| 108_F | 113_R | 1.510 | 1.00 |
| 360_V | 378_M | 1.509 | 1.00 |
| 87_Q | 94_E | 1.508 | 1.00 |
| 185_H | 188_N | 1.500 | 1.00 |
| 292_S | 296_A | 1.481 | 1.00 |
| 186_V | 190_L | 1.481 | 1.00 |
| 374_D | 377_E | 1.468 | 1.00 |
| 285_D | 289_G | 1.460 | 1.00 |
| 64_M | 67_N | 1.455 | 1.00 |
| 183_A | 187_E | 1.445 | 1.00 |
| 293_L | 308_E | 1.439 | 1.00 |
| 222_G | 305_S | 1.436 | 1.00 |
| 344_R | 348_R | 1.433 | 1.00 |
| 191_A | 195_L | 1.432 | 1.00 |
| 360_V | 381_L | 1.426 | 1.00 |
| 245_E | 249_I | 1.418 | 1.00 |
| 185_H | 218_A | 1.406 | 0.99 |
| 211_L | 215_N | 1.396 | 0.99 |
| 157_A | 161_K | 1.389 | 0.99 |
| 345_L | 391_L | 1.385 | 0.99 |
| 117_I | 122_N | 1.384 | 0.99 |
| 212_F | 335_T | 1.362 | 0.99 |
| 249_I | 275_A | 1.360 | 0.99 |
| 274_T | 278_E | 1.360 | 0.99 |
| 64_M | 73_I | 1.335 | 0.99 |
| 346_L | 356_L | 1.334 | 0.99 |
| 364_M | 378_M | 1.333 | 0.99 |
| 204_L | 208_I | 1.331 | 0.99 |
| 288_A | 291_R | 1.303 | 0.99 |
| 95_I | 104_I | 1.300 | 0.99 |
| 216_S | 331_G | 1.299 | 0.99 |
| 284_E | 317_D | 1.295 | 0.99 |
| 216_S | 220_L | 1.294 | 0.99 |
| 64_M | 99_F | 1.292 | 0.99 |
| 351_R | 354_D | 1.290 | 0.99 |
| 341_W | 345_L | 1.281 | 0.99 |
| 338_A | 388_C | 1.272 | 0.99 |
| 218_A | 224_S | 1.269 | 0.99 |
| 130_N | 134_Y | 1.268 | 0.99 |
| 102_G | 119_A | 1.261 | 0.99 |
| 286_F | 289_G | 1.255 | 0.99 |
| 183_A | 371_S | 1.255 | 0.99 |
| 162_S | 323_H | 1.244 | 0.98 |
| 330_A | 334_S | 1.239 | 0.98 |
| 278_E | 281_H | 1.239 | 0.98 |
| 136_F | 139_R | 1.222 | 0.98 |
| 217_S | 328_L | 1.219 | 0.98 |
| 361_G | 366_Q | 1.216 | 0.98 |
| 96_A | 118_L | 1.215 | 0.98 |
| 149_D | 318_D | 1.209 | 0.98 |
| 382_A | 386_K | 1.206 | 0.98 |
| 192_R | 196_S | 1.192 | 0.98 |
| 124_E | 128_S | 1.180 | 0.98 |
| 363_V | 377_E | 1.178 | 0.98 |
| 159_W | 163_R | 1.178 | 0.98 |
| 213_M | 332_R | 1.173 | 0.98 |
| 94_E | 98_E | 1.169 | 0.97 |
| 290_V | 307_I | 1.165 | 0.97 |
| 187_E | 369_L | 1.164 | 0.97 |
| 125_A | 130_N | 1.157 | 0.97 |
| 189_F | 211_L | 1.153 | 0.97 |
| 188_N | 191_A | 1.143 | 0.97 |
| 284_E | 318_D | 1.138 | 0.97 |
| 217_S | 225_T | 1.137 | 0.97 |
| 203_D | 206_P | 1.130 | 0.97 |
| 380_Y | 384_V | 1.130 | 0.97 |
| 95_I | 99_F | 1.116 | 0.96 |
| 158_A | 319_S | 1.109 | 0.96 |
| 245_E | 248_C | 1.108 | 0.96 |
| 381_L | 384_V | 1.104 | 0.96 |
| 220_L | 327_V | 1.101 | 0.96 |
| 358_N | 361_G | 1.094 | 0.96 |
| 342_T | 345_L | 1.090 | 0.96 |
| 122_N | 125_A | 1.089 | 0.96 |
| 342_T | 385_I | 1.085 | 0.96 |
| 70_P | 74_D | 1.079 | 0.95 |
| 375_L | 382_A | 1.077 | 0.95 |
| 156_G | 159_W | 1.074 | 0.95 |
| 337_S | 394_S | 1.068 | 0.95 |
| 304_D | 311_A | 1.067 | 0.95 |
| 387_E | 391_L | 1.062 | 0.95 |
| 64_M | 115_H | 1.058 | 0.95 |
| 319_S | 323_H | 1.056 | 0.95 |
| 291_R | 294_K | 1.053 | 0.95 |
| 187_E | 191_A | 1.051 | 0.94 |
| 69_W | 72_G | 1.046 | 0.94 |
| 106_Q | 114_S | 1.042 | 0.94 |
| 170_L | 327_V | 1.041 | 0.94 |
| 364_M | 374_D | 1.031 | 0.94 |
| 174_S | 177_Y | 1.024 | 0.93 |
| 158_A | 162_S | 1.014 | 0.93 |
| 68_R | 74_D | 1.002 | 0.92 |
| 280_R | 284_E | 1.002 | 0.92 |
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
- Text file of contact predictions (all 3L/2 predictions)
- Generate restraints for ROSETTA Structure Modeling
- Import to GREMLIN BETA - features includes ability to upload PDB and latest P(contact) calculation based on eLife 2015 fitting to PDB data.
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
| PDB | M | Cov | P(%) | HHΔ | |
| 3czhA | 2 | 0.8045 | 100 | 0.404 | Contact Map |
| 4lxjA | 1 | 0.9059 | 100 | 0.407 | Contact Map |
| 4r21A | 2 | 0.7401 | 100 | 0.41 | Contact Map |
| 3n9yA | 2 | 0.8391 | 100 | 0.413 | Contact Map |
| 3tbgA | 4 | 0.8045 | 100 | 0.415 | Contact Map |
| 3k9vA | 2 | 0.8317 | 100 | 0.415 | Contact Map |
| 2ij2A | 2 | 0.7871 | 100 | 0.415 | Contact Map |
| 3s79A | 1 | 0.802 | 100 | 0.418 | Contact Map |
| 3pm0A | 1 | 0.7574 | 100 | 0.418 | Contact Map |
| 3nxuA | 2 | 0.8119 | 100 | 0.42 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)