| T0826 |
| ID: | 1403200141 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 544 (535) | ||
| Sequences: | 3639 (3200.1) | ||
| Seq/Len: | 6.802 | ||
| Nf(neff/√len): | 138.4 |
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: 6.802).
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 |
| 259_L | 431_D | 4.460 | 1.00 |
| 271_P | 506_E | 3.905 | 1.00 |
| 520_G | 535_D | 3.376 | 1.00 |
| 237_V | 449_Y | 3.002 | 1.00 |
| 367_N | 440_R | 2.880 | 1.00 |
| 43_G | 47_D | 2.833 | 1.00 |
| 259_L | 262_A | 2.693 | 1.00 |
| 517_T | 537_L | 2.647 | 1.00 |
| 363_D | 436_K | 2.455 | 1.00 |
| 335_P | 338_D | 2.450 | 1.00 |
| 431_D | 435_R | 2.321 | 1.00 |
| 234_V | 522_M | 2.286 | 1.00 |
| 248_G | 257_T | 2.283 | 1.00 |
| 330_V | 334_V | 2.248 | 1.00 |
| 235_V | 447_V | 2.201 | 1.00 |
| 317_E | 371_K | 2.184 | 1.00 |
| 255_Q | 261_A | 2.157 | 1.00 |
| 435_R | 438_E | 2.132 | 1.00 |
| 237_V | 430_I | 2.106 | 1.00 |
| 338_D | 344_L | 2.069 | 1.00 |
| 509_Y | 536_I | 2.051 | 1.00 |
| 280_T | 284_L | 2.026 | 1.00 |
| 438_E | 442_D | 2.003 | 1.00 |
| 273_V | 509_Y | 1.990 | 1.00 |
| 311_V | 522_M | 1.990 | 1.00 |
| 232_R | 444_E | 1.952 | 1.00 |
| 331_C | 335_P | 1.907 | 1.00 |
| 437_L | 447_V | 1.904 | 1.00 |
| 266_E | 438_E | 1.904 | 1.00 |
| 239_G | 242_T | 1.887 | 1.00 |
| 190_L | 193_P | 1.867 | 1.00 |
| 138_Y | 142_K | 1.860 | 1.00 |
| 234_V | 311_V | 1.842 | 1.00 |
| 236_L | 374_V | 1.839 | 1.00 |
| 284_L | 289_S | 1.800 | 1.00 |
| 88_V | 98_Y | 1.778 | 1.00 |
| 397_K | 424_L | 1.731 | 1.00 |
| 233_F | 445_S | 1.725 | 1.00 |
| 233_F | 373_A | 1.724 | 1.00 |
| 392_T | 425_Y | 1.717 | 1.00 |
| 250_N | 269_N | 1.708 | 1.00 |
| 337_T | 340_T | 1.700 | 1.00 |
| 257_T | 261_A | 1.675 | 1.00 |
| 338_D | 342_L | 1.671 | 1.00 |
| 331_C | 336_N | 1.651 | 1.00 |
| 356_N | 425_Y | 1.635 | 1.00 |
| 176_D | 179_S | 1.625 | 1.00 |
| 339_V | 342_L | 1.601 | 1.00 |
| 277_G | 280_T | 1.601 | 1.00 |
| 446_V | 483_M | 1.585 | 1.00 |
| 276_C | 280_T | 1.574 | 1.00 |
| 442_D | 484_W | 1.569 | 1.00 |
| 235_V | 445_S | 1.556 | 0.99 |
| 331_C | 334_V | 1.546 | 0.99 |
| 434_I | 447_V | 1.536 | 0.99 |
| 280_T | 283_S | 1.535 | 0.99 |
| 187_V | 190_L | 1.523 | 0.99 |
| 435_R | 439_N | 1.521 | 0.99 |
| 25_L | 28_N | 1.517 | 0.99 |
| 139_I | 143_V | 1.516 | 0.99 |
| 188_T | 191_I | 1.510 | 0.99 |
| 450_V | 511_H | 1.508 | 0.99 |
| 382_S | 423_V | 1.498 | 0.99 |
| 432_K | 435_R | 1.485 | 0.99 |
| 382_S | 422_T | 1.474 | 0.99 |
| 330_V | 335_P | 1.472 | 0.99 |
| 115_S | 118_L | 1.468 | 0.99 |
| 312_Q | 340_T | 1.467 | 0.99 |
| 114_E | 118_L | 1.465 | 0.99 |
| 338_D | 343_N | 1.460 | 0.99 |
| 307_L | 518_V | 1.440 | 0.99 |
| 248_G | 261_A | 1.439 | 0.99 |
| 189_H | 193_P | 1.437 | 0.99 |
| 361_K | 364_E | 1.435 | 0.99 |
| 285_P | 289_S | 1.432 | 0.99 |
| 428_Q | 432_K | 1.406 | 0.99 |
| 188_T | 193_P | 1.405 | 0.99 |
| 433_V | 447_V | 1.404 | 0.99 |
| 230_L | 444_E | 1.404 | 0.99 |
| 242_T | 423_V | 1.398 | 0.99 |
| 363_D | 367_N | 1.390 | 0.99 |
| 239_G | 426_V | 1.388 | 0.99 |
| 114_E | 117_R | 1.377 | 0.98 |
| 284_L | 290_T | 1.377 | 0.98 |
| 43_G | 46_A | 1.370 | 0.98 |
| 319_T | 375_L | 1.355 | 0.98 |
| 280_T | 378_H | 1.350 | 0.98 |
| 334_V | 337_T | 1.350 | 0.98 |
| 383_H | 452_D | 1.349 | 0.98 |
| 442_D | 447_V | 1.348 | 0.98 |
| 285_P | 288_F | 1.347 | 0.98 |
| 238_V | 284_L | 1.344 | 0.98 |
| 172_L | 176_D | 1.344 | 0.98 |
| 110_T | 114_E | 1.339 | 0.98 |
| 338_D | 341_S | 1.337 | 0.98 |
| 126_W | 132_V | 1.336 | 0.98 |
| 485_F | 488_A | 1.334 | 0.98 |
| 393_E | 396_R | 1.334 | 0.98 |
| 260_L | 430_I | 1.332 | 0.98 |
| 236_L | 448_H | 1.331 | 0.98 |
| 284_L | 288_F | 1.330 | 0.98 |
| 339_V | 343_N | 1.330 | 0.98 |
| 262_A | 431_D | 1.326 | 0.98 |
| 258_P | 427_D | 1.323 | 0.98 |
| 163_F | 166_A | 1.321 | 0.98 |
| 239_G | 449_Y | 1.321 | 0.98 |
| 359_L | 363_D | 1.319 | 0.98 |
| 382_S | 426_V | 1.319 | 0.98 |
| 171_M | 174_Y | 1.309 | 0.98 |
| 320_W | 378_H | 1.308 | 0.98 |
| 173_Q | 177_Y | 1.302 | 0.98 |
| 259_L | 434_I | 1.302 | 0.98 |
| 287_M | 450_V | 1.298 | 0.98 |
| 286_C | 291_F | 1.282 | 0.97 |
| 285_P | 291_F | 1.278 | 0.97 |
| 246_N | 420_D | 1.278 | 0.97 |
| 333_K | 336_N | 1.275 | 0.97 |
| 263_R | 431_D | 1.275 | 0.97 |
| 292_D | 297_D | 1.275 | 0.97 |
| 285_P | 290_T | 1.273 | 0.97 |
| 395_E | 428_Q | 1.269 | 0.97 |
| 182_R | 185_K | 1.268 | 0.97 |
| 191_I | 195_N | 1.268 | 0.97 |
| 25_L | 29_Y | 1.267 | 0.97 |
| 242_T | 426_V | 1.263 | 0.97 |
| 21_L | 28_N | 1.252 | 0.97 |
| 174_Y | 179_S | 1.246 | 0.97 |
| 268_V | 537_L | 1.242 | 0.97 |
| 244_A | 478_H | 1.239 | 0.96 |
| 66_H | 69_A | 1.239 | 0.96 |
| 28_N | 31_F | 1.237 | 0.96 |
| 330_V | 338_D | 1.232 | 0.96 |
| 356_N | 432_K | 1.231 | 0.96 |
| 339_V | 344_L | 1.223 | 0.96 |
| 273_V | 481_M | 1.220 | 0.96 |
| 28_N | 32_F | 1.218 | 0.96 |
| 193_P | 196_F | 1.217 | 0.96 |
| 213_P | 217_L | 1.215 | 0.96 |
| 24_S | 28_N | 1.214 | 0.96 |
| 28_N | 33_A | 1.211 | 0.96 |
| 275_S | 280_T | 1.208 | 0.96 |
| 276_C | 286_C | 1.208 | 0.96 |
| 264_G | 267_I | 1.204 | 0.96 |
| 118_L | 122_G | 1.204 | 0.96 |
| 392_T | 395_E | 1.204 | 0.96 |
| 424_L | 428_Q | 1.202 | 0.96 |
| 321_L | 365_V | 1.201 | 0.96 |
| 359_L | 433_V | 1.198 | 0.95 |
| 363_D | 440_R | 1.197 | 0.95 |
| 187_V | 191_I | 1.194 | 0.95 |
| 398_F | 402_C | 1.191 | 0.95 |
| 173_Q | 179_S | 1.186 | 0.95 |
| 187_V | 193_P | 1.183 | 0.95 |
| 330_V | 333_K | 1.183 | 0.95 |
| 242_T | 246_N | 1.183 | 0.95 |
| 451_S | 479_I | 1.179 | 0.95 |
| 124_V | 128_V | 1.179 | 0.95 |
| 174_Y | 177_Y | 1.177 | 0.95 |
| 171_M | 175_Q | 1.176 | 0.95 |
| 140_A | 144_K | 1.174 | 0.95 |
| 345_P | 348_C | 1.173 | 0.95 |
| 29_Y | 33_A | 1.172 | 0.95 |
| 172_L | 175_Q | 1.172 | 0.95 |
| 280_T | 285_P | 1.171 | 0.95 |
| 331_C | 338_D | 1.168 | 0.95 |
| 272_Q | 508_E | 1.167 | 0.95 |
| 112_A | 118_L | 1.166 | 0.95 |
| 481_M | 514_Y | 1.165 | 0.94 |
| 301_A | 304_Q | 1.164 | 0.94 |
| 377_L | 433_V | 1.153 | 0.94 |
| 168_G | 172_L | 1.150 | 0.94 |
| 172_L | 177_Y | 1.148 | 0.94 |
| 263_R | 430_I | 1.143 | 0.94 |
| 234_V | 446_V | 1.140 | 0.94 |
| 455_E | 459_E | 1.134 | 0.93 |
| 286_C | 289_S | 1.133 | 0.93 |
| 396_R | 401_T | 1.131 | 0.93 |
| 279_S | 282_H | 1.126 | 0.93 |
| 181_F | 185_K | 1.124 | 0.93 |
| 474_S | 477_T | 1.123 | 0.93 |
| 252_Y | 420_D | 1.123 | 0.93 |
| 281_A | 284_L | 1.120 | 0.93 |
| 188_T | 198_G | 1.119 | 0.93 |
| 236_L | 376_I | 1.110 | 0.92 |
| 429_F | 433_V | 1.110 | 0.92 |
| 174_Y | 178_A | 1.110 | 0.92 |
| 293_R | 296_Y | 1.108 | 0.92 |
| 267_I | 484_W | 1.105 | 0.92 |
| 32_F | 37_E | 1.104 | 0.92 |
| 337_T | 342_L | 1.104 | 0.92 |
| 462_M | 465_H | 1.101 | 0.92 |
| 398_F | 421_N | 1.100 | 0.92 |
| 362_F | 366_L | 1.100 | 0.92 |
| 337_T | 341_S | 1.099 | 0.92 |
| 358_L | 377_L | 1.099 | 0.92 |
| 214_Y | 217_L | 1.097 | 0.92 |
| 254_R | 420_D | 1.097 | 0.92 |
| 362_F | 377_L | 1.096 | 0.92 |
| 173_Q | 176_D | 1.094 | 0.92 |
| 170_A | 174_Y | 1.094 | 0.92 |
| 248_G | 255_Q | 1.094 | 0.92 |
| 364_E | 368_K | 1.091 | 0.92 |
| 327_C | 331_C | 1.088 | 0.91 |
| 277_G | 282_H | 1.088 | 0.91 |
| 448_H | 483_M | 1.085 | 0.91 |
| 310_I | 519_L | 1.085 | 0.91 |
| 257_T | 260_L | 1.084 | 0.91 |
| 151_E | 154_T | 1.084 | 0.91 |
| 234_V | 316_V | 1.084 | 0.91 |
| 159_A | 163_F | 1.083 | 0.91 |
| 428_Q | 431_D | 1.081 | 0.91 |
| 238_V | 376_I | 1.081 | 0.91 |
| 137_A | 141_V | 1.081 | 0.91 |
| 282_H | 286_C | 1.078 | 0.91 |
| 179_S | 185_K | 1.078 | 0.91 |
| 239_G | 430_I | 1.078 | 0.91 |
| 171_M | 177_Y | 1.077 | 0.91 |
| 334_V | 338_D | 1.075 | 0.91 |
| 175_Q | 178_A | 1.074 | 0.91 |
| 335_P | 340_T | 1.073 | 0.91 |
| 136_L | 140_A | 1.067 | 0.90 |
| 216_Q | 219_M | 1.067 | 0.90 |
| 75_K | 78_I | 1.063 | 0.90 |
| 232_R | 446_V | 1.062 | 0.90 |
| 280_T | 383_H | 1.059 | 0.90 |
| 56_V | 63_F | 1.056 | 0.90 |
| 311_V | 519_L | 1.056 | 0.90 |
| 282_H | 285_P | 1.055 | 0.90 |
| 47_D | 50_L | 1.054 | 0.90 |
| 111_T | 114_E | 1.054 | 0.90 |
| 300_K | 304_Q | 1.052 | 0.89 |
| 284_L | 292_D | 1.052 | 0.89 |
| 164_L | 168_G | 1.051 | 0.89 |
| 233_F | 443_L | 1.050 | 0.89 |
| 189_H | 192_V | 1.050 | 0.89 |
| 208_K | 211_N | 1.050 | 0.89 |
| 30_A | 33_A | 1.049 | 0.89 |
| 26_V | 29_Y | 1.047 | 0.89 |
| 238_V | 450_V | 1.044 | 0.89 |
| 275_S | 282_H | 1.043 | 0.89 |
| 217_L | 220_A | 1.042 | 0.89 |
| 129_C | 132_V | 1.040 | 0.89 |
| 332_G | 335_P | 1.039 | 0.89 |
| 91_Q | 95_F | 1.039 | 0.89 |
| 64_V | 68_I | 1.038 | 0.89 |
| 118_L | 123_Y | 1.037 | 0.89 |
| 188_T | 199_A | 1.037 | 0.89 |
| 333_K | 338_D | 1.037 | 0.89 |
| 321_L | 375_L | 1.037 | 0.89 |
| 28_N | 37_E | 1.035 | 0.88 |
| 27_L | 32_F | 1.035 | 0.88 |
| 287_M | 291_F | 1.035 | 0.88 |
| 474_S | 478_H | 1.034 | 0.88 |
| 27_L | 30_A | 1.031 | 0.88 |
| 190_L | 194_S | 1.031 | 0.88 |
| 21_L | 27_L | 1.031 | 0.88 |
| 32_F | 36_V | 1.030 | 0.88 |
| 294_T | 297_D | 1.029 | 0.88 |
| 189_H | 195_N | 1.028 | 0.88 |
| 40_P | 45_G | 1.026 | 0.88 |
| 519_L | 524_I | 1.024 | 0.88 |
| 195_N | 199_A | 1.023 | 0.88 |
| 289_S | 306_N | 1.023 | 0.88 |
| 43_G | 48_I | 1.023 | 0.88 |
| 26_V | 37_E | 1.014 | 0.87 |
| 319_T | 373_A | 1.014 | 0.87 |
| 200_G | 204_Y | 1.012 | 0.87 |
| 242_T | 260_L | 1.010 | 0.87 |
| 192_V | 195_N | 1.009 | 0.87 |
| 454_G | 457_L | 1.007 | 0.87 |
| 276_C | 279_S | 1.007 | 0.87 |
| 191_I | 194_S | 1.007 | 0.87 |
| 330_V | 336_N | 1.005 | 0.86 |
| 209_R | 213_P | 1.002 | 0.86 |
| 155_R | 159_A | 1.001 | 0.86 |
| 57_L | 67_V | 1.001 | 0.86 |
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 | |
| 4kavA | 1 | 0.6085 | 100 | 0.478 | Contact Map |
| 2w8dA | 2 | 0.579 | 100 | 0.526 | Contact Map |
| 2w5qA | 1 | 0.579 | 100 | 0.526 | Contact Map |
| 3lxqA | 2 | 0.579 | 100 | 0.534 | Contact Map |
| 3b5qA | 2 | 0.5368 | 100 | 0.552 | Contact Map |
| 2vqrA | 1 | 0.5441 | 100 | 0.557 | Contact Map |
| 2qzuA | 1 | 0.5625 | 100 | 0.563 | Contact Map |
| 1fsuA | 1 | 0.5276 | 100 | 0.568 | Contact Map |
| 1aukA | 1 | 0.5165 | 100 | 0.57 | Contact Map |
| 3ed4A | 4 | 0.5588 | 100 | 0.571 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)