| T0770 |
| ID: | 1401238427 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 488 (482) | ||
| Sequences: | 1413 (1296.3) | ||
| Seq/Len: | 2.932 | ||
| Nf(neff/√len): | 59.0 |
Jackhmmer Results: (2014_04_16)
Sequences per length for each position, BEFORE the coverage/gap filter was applied
Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 2.932).
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 |
| 370_N | 374_K | 5.459 | 1.00 |
| 165_S | 168_S | 4.371 | 1.00 |
| 208_T | 247_D | 3.723 | 1.00 |
| 202_D | 205_K | 3.545 | 1.00 |
| 349_L | 372_L | 3.525 | 1.00 |
| 178_D | 214_K | 3.227 | 1.00 |
| 142_T | 166_Q | 3.155 | 1.00 |
| 212_S | 348_Q | 3.152 | 1.00 |
| 135_A | 173_V | 3.116 | 1.00 |
| 378_R | 392_D | 2.943 | 1.00 |
| 281_N | 285_K | 2.925 | 1.00 |
| 142_T | 485_W | 2.916 | 1.00 |
| 167_E | 225_D | 2.909 | 1.00 |
| 471_I | 475_K | 2.853 | 1.00 |
| 152_E | 162_K | 2.820 | 1.00 |
| 139_Y | 217_T | 2.817 | 1.00 |
| 288_Q | 295_I | 2.690 | 1.00 |
| 467_M | 474_P | 2.636 | 1.00 |
| 371_E | 375_K | 2.539 | 1.00 |
| 32_D | 35_T | 2.516 | 1.00 |
| 377_I | 395_V | 2.482 | 1.00 |
| 368_K | 371_E | 2.442 | 1.00 |
| 171_N | 228_K | 2.405 | 1.00 |
| 245_A | 248_N | 2.395 | 1.00 |
| 151_T | 164_D | 2.392 | 1.00 |
| 345_C | 379_E | 2.384 | 1.00 |
| 175_S | 179_E | 2.383 | 1.00 |
| 205_K | 247_D | 2.353 | 1.00 |
| 167_E | 171_N | 2.330 | 1.00 |
| 132_I | 210_A | 2.281 | 1.00 |
| 219_M | 351_L | 2.254 | 1.00 |
| 417_Q | 431_Q | 2.250 | 1.00 |
| 163_F | 466_E | 2.226 | 1.00 |
| 352_E | 372_L | 2.144 | 1.00 |
| 214_K | 232_I | 2.129 | 1.00 |
| 148_I | 169_V | 2.109 | 1.00 |
| 230_T | 234_T | 2.100 | 1.00 |
| 132_I | 184_M | 2.099 | 1.00 |
| 349_L | 352_E | 2.081 | 1.00 |
| 131_K | 176_L | 2.070 | 1.00 |
| 242_V | 247_D | 2.057 | 1.00 |
| 232_I | 235_L | 2.033 | 1.00 |
| 178_D | 235_L | 2.031 | 1.00 |
| 181_L | 214_K | 2.017 | 1.00 |
| 244_S | 345_C | 1.989 | 1.00 |
| 405_T | 408_K | 1.981 | 1.00 |
| 349_L | 376_G | 1.977 | 1.00 |
| 184_M | 203_M | 1.952 | 0.99 |
| 345_C | 349_L | 1.936 | 0.99 |
| 242_V | 345_C | 1.910 | 0.99 |
| 458_R | 483_K | 1.903 | 0.99 |
| 113_I | 131_K | 1.895 | 0.99 |
| 199_Y | 249_L | 1.883 | 0.99 |
| 112_A | 130_C | 1.883 | 0.99 |
| 349_L | 375_K | 1.856 | 0.99 |
| 185_D | 207_M | 1.852 | 0.99 |
| 355_A | 362_V | 1.841 | 0.99 |
| 131_K | 179_E | 1.839 | 0.99 |
| 220_V | 430_V | 1.800 | 0.99 |
| 234_T | 361_G | 1.794 | 0.99 |
| 166_Q | 485_W | 1.792 | 0.99 |
| 374_K | 378_R | 1.787 | 0.99 |
| 375_K | 378_R | 1.787 | 0.99 |
| 236_L | 240_G | 1.763 | 0.99 |
| 173_V | 217_T | 1.758 | 0.99 |
| 391_I | 395_V | 1.750 | 0.99 |
| 279_A | 299_F | 1.750 | 0.99 |
| 151_T | 172_G | 1.746 | 0.99 |
| 222_V | 358_R | 1.734 | 0.99 |
| 143_M | 220_V | 1.729 | 0.98 |
| 405_T | 409_A | 1.709 | 0.98 |
| 70_Q | 73_V | 1.706 | 0.98 |
| 178_D | 181_L | 1.706 | 0.98 |
| 381_C | 386_V | 1.698 | 0.98 |
| 128_A | 183_I | 1.698 | 0.98 |
| 136_E | 209_L | 1.697 | 0.98 |
| 216_R | 347_E | 1.694 | 0.98 |
| 141_A | 148_I | 1.663 | 0.98 |
| 411_Y | 439_G | 1.660 | 0.98 |
| 234_T | 362_V | 1.650 | 0.98 |
| 143_M | 170_L | 1.647 | 0.98 |
| 169_V | 172_G | 1.642 | 0.98 |
| 199_Y | 242_V | 1.623 | 0.97 |
| 225_D | 228_K | 1.621 | 0.97 |
| 283_M | 287_M | 1.597 | 0.97 |
| 458_R | 487_D | 1.591 | 0.97 |
| 363_A | 367_S | 1.581 | 0.97 |
| 17_C | 20_F | 1.580 | 0.97 |
| 414_H | 417_Q | 1.555 | 0.97 |
| 48_V | 109_L | 1.537 | 0.96 |
| 421_L | 431_Q | 1.537 | 0.96 |
| 483_K | 487_D | 1.524 | 0.96 |
| 181_L | 210_A | 1.522 | 0.96 |
| 290_R | 394_Y | 1.520 | 0.96 |
| 244_S | 247_D | 1.508 | 0.96 |
| 411_Y | 415_M | 1.504 | 0.96 |
| 106_G | 154_W | 1.502 | 0.96 |
| 110_M | 134_L | 1.491 | 0.95 |
| 116_A | 127_I | 1.479 | 0.95 |
| 132_I | 177_L | 1.462 | 0.95 |
| 414_H | 435_S | 1.456 | 0.94 |
| 151_T | 168_S | 1.454 | 0.94 |
| 98_W | 102_Y | 1.450 | 0.94 |
| 350_L | 417_Q | 1.434 | 0.94 |
| 49_A | 198_Y | 1.427 | 0.94 |
| 172_G | 175_S | 1.419 | 0.93 |
| 98_W | 163_F | 1.409 | 0.93 |
| 286_P | 418_W | 1.396 | 0.93 |
| 404_L | 409_A | 1.393 | 0.93 |
| 164_D | 168_S | 1.392 | 0.92 |
| 409_A | 412_E | 1.391 | 0.92 |
| 349_L | 379_E | 1.389 | 0.92 |
| 404_L | 408_K | 1.387 | 0.92 |
| 110_M | 114_K | 1.387 | 0.92 |
| 407_E | 437_T | 1.377 | 0.92 |
| 362_V | 367_S | 1.373 | 0.92 |
| 204_N | 208_T | 1.370 | 0.92 |
| 209_L | 249_L | 1.368 | 0.92 |
| 279_A | 284_L | 1.365 | 0.92 |
| 166_Q | 484_L | 1.364 | 0.91 |
| 176_L | 179_E | 1.362 | 0.91 |
| 404_L | 412_E | 1.356 | 0.91 |
| 435_S | 438_A | 1.355 | 0.91 |
| 221_M | 228_K | 1.351 | 0.91 |
| 178_D | 182_Q | 1.334 | 0.90 |
| 174_L | 214_K | 1.332 | 0.90 |
| 215_F | 233_G | 1.329 | 0.90 |
| 132_I | 180_A | 1.326 | 0.90 |
| 70_Q | 74_D | 1.326 | 0.90 |
| 48_V | 112_A | 1.325 | 0.90 |
| 378_R | 395_V | 1.324 | 0.90 |
| 280_S | 312_N | 1.310 | 0.89 |
| 356_Y | 372_L | 1.307 | 0.89 |
| 473_A | 476_E | 1.304 | 0.89 |
| 131_K | 183_I | 1.295 | 0.88 |
| 373_Y | 412_E | 1.294 | 0.88 |
| 168_S | 171_N | 1.293 | 0.88 |
| 432_W | 456_L | 1.290 | 0.88 |
| 343_Y | 348_Q | 1.290 | 0.88 |
| 150_F | 172_G | 1.287 | 0.88 |
| 49_A | 197_I | 1.282 | 0.88 |
| 223_D | 358_R | 1.279 | 0.88 |
| 473_A | 477_S | 1.279 | 0.88 |
| 327_S | 330_S | 1.278 | 0.88 |
| 45_F | 129_Q | 1.270 | 0.87 |
| 150_F | 176_L | 1.270 | 0.87 |
| 466_E | 470_N | 1.268 | 0.87 |
| 375_K | 379_E | 1.265 | 0.87 |
| 134_L | 176_L | 1.262 | 0.87 |
| 172_G | 176_L | 1.260 | 0.87 |
| 26_W | 31_H | 1.257 | 0.86 |
| 284_L | 309_G | 1.253 | 0.86 |
| 214_K | 235_L | 1.251 | 0.86 |
| 346_Q | 376_G | 1.248 | 0.86 |
| 389_A | 393_T | 1.235 | 0.85 |
| 16_T | 20_F | 1.231 | 0.85 |
| 111_L | 114_K | 1.230 | 0.85 |
| 397_G | 400_E | 1.230 | 0.85 |
| 181_L | 207_M | 1.224 | 0.84 |
| 220_V | 427_E | 1.221 | 0.84 |
| 143_M | 486_F | 1.208 | 0.83 |
| 388_E | 391_I | 1.196 | 0.82 |
| 382_A | 391_I | 1.191 | 0.82 |
| 174_L | 232_I | 1.187 | 0.82 |
| 135_A | 176_L | 1.182 | 0.81 |
| 181_L | 240_G | 1.170 | 0.80 |
| 242_V | 343_Y | 1.167 | 0.80 |
| 232_I | 236_L | 1.166 | 0.80 |
| 227_S | 230_T | 1.164 | 0.80 |
| 235_L | 239_G | 1.160 | 0.80 |
| 291_N | 397_G | 1.157 | 0.79 |
| 109_L | 133_L | 1.157 | 0.79 |
| 381_C | 391_I | 1.149 | 0.79 |
| 174_L | 221_M | 1.144 | 0.78 |
| 295_I | 299_F | 1.136 | 0.78 |
| 244_S | 379_E | 1.136 | 0.78 |
| 215_F | 241_M | 1.135 | 0.78 |
| 150_F | 164_D | 1.132 | 0.77 |
| 214_K | 218_L | 1.130 | 0.77 |
| 97_T | 145_W | 1.129 | 0.77 |
| 388_E | 392_D | 1.128 | 0.77 |
| 162_K | 476_E | 1.125 | 0.77 |
| 378_R | 382_A | 1.124 | 0.77 |
| 165_S | 485_W | 1.119 | 0.76 |
| 237_Q | 355_A | 1.117 | 0.76 |
| 237_Q | 352_E | 1.113 | 0.76 |
| 234_T | 238_A | 1.112 | 0.76 |
| 125_N | 185_D | 1.110 | 0.75 |
| 125_N | 207_M | 1.106 | 0.75 |
| 392_D | 396_T | 1.106 | 0.75 |
| 387_A | 390_D | 1.101 | 0.75 |
| 143_M | 484_L | 1.098 | 0.74 |
| 283_M | 419_I | 1.087 | 0.73 |
| 474_P | 478_P | 1.079 | 0.72 |
| 127_I | 131_K | 1.075 | 0.72 |
| 378_R | 391_I | 1.075 | 0.72 |
| 382_A | 388_E | 1.074 | 0.72 |
| 283_M | 299_F | 1.068 | 0.71 |
| 386_V | 391_I | 1.065 | 0.71 |
| 350_L | 420_D | 1.065 | 0.71 |
| 408_K | 411_Y | 1.055 | 0.70 |
| 128_A | 180_A | 1.049 | 0.69 |
| 198_Y | 249_L | 1.045 | 0.69 |
| 142_T | 169_V | 1.044 | 0.69 |
| 142_T | 484_L | 1.043 | 0.69 |
| 178_D | 232_I | 1.043 | 0.69 |
| 174_L | 218_L | 1.042 | 0.69 |
| 208_T | 242_V | 1.037 | 0.68 |
| 135_A | 180_A | 1.034 | 0.68 |
| 346_Q | 420_D | 1.033 | 0.68 |
| 363_A | 372_L | 1.028 | 0.67 |
| 352_E | 356_Y | 1.028 | 0.67 |
| 380_A | 384_Y | 1.026 | 0.67 |
| 356_Y | 369_A | 1.024 | 0.67 |
| 397_G | 401_L | 1.022 | 0.66 |
| 113_I | 127_I | 1.022 | 0.66 |
| 414_H | 431_Q | 1.020 | 0.66 |
| 228_K | 232_I | 1.018 | 0.66 |
| 152_E | 158_I | 1.016 | 0.66 |
| 357_A | 409_A | 1.015 | 0.66 |
| 203_M | 207_M | 1.012 | 0.65 |
| 245_A | 345_C | 1.010 | 0.65 |
| 45_F | 49_A | 1.006 | 0.65 |
| 372_L | 375_K | 1.005 | 0.65 |
| 347_E | 417_Q | 1.004 | 0.64 |
| 216_R | 427_E | 1.004 | 0.64 |
| 344_S | 383_F | 1.002 | 0.64 |
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 | |
| 3mx3A | 2 | 0.8689 | 100 | 0.378 | Contact Map |
| 3sghA | 2 | 0.877 | 100 | 0.397 | Contact Map |
| 4f53A | 2 | 0.8668 | 100 | 0.397 | Contact Map |
| 3ejnA | 1 | 0.832 | 100 | 0.402 | Contact Map |
| 3p1uA | 2 | 0.8893 | 100 | 0.405 | Contact Map |
| 3ehmA | 2 | 0.8811 | 100 | 0.407 | Contact Map |
| 3cghA | 1 | 0.9078 | 100 | 0.413 | Contact Map |
| 3gzsA | 2 | 0.877 | 100 | 0.414 | Contact Map |
| 4mruA | 2 | 0.8586 | 100 | 0.415 | Contact Map |
| 4lerA | 1 | 0.8443 | 100 | 0.438 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)