| TssFmeta |
| ID: | 1518568427 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 587 (580) | ||
| Sequences: | 6583 (4441.8) | ||
| Seq/Len: | 11.350 | ||
| Nf(neff/√len): | 184.4 |
HHblits Results: (2016_02)
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: 11.350).
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 |
| 339_D | 413_T | 5.485 | 1.00 |
| 91_S | 301_V | 5.125 | 1.00 |
| 198_L | 277_V | 4.594 | 1.00 |
| 309_A | 412_I | 4.190 | 1.00 |
| 177_S | 257_H | 3.927 | 1.00 |
| 160_F | 273_F | 3.583 | 1.00 |
| 140_A | 161_A | 3.559 | 1.00 |
| 525_D | 565_T | 3.456 | 1.00 |
| 467_H | 489_Y | 3.430 | 1.00 |
| 8_Y | 65_D | 3.386 | 1.00 |
| 94_A | 295_C | 3.328 | 1.00 |
| 510_H | 525_D | 3.280 | 1.00 |
| 392_L | 408_L | 3.205 | 1.00 |
| 503_A | 534_G | 3.192 | 1.00 |
| 161_A | 272_G | 3.104 | 1.00 |
| 340_A | 351_E | 2.984 | 1.00 |
| 142_E | 161_A | 2.941 | 1.00 |
| 197_R | 280_S | 2.911 | 1.00 |
| 549_N | 580_N | 2.903 | 1.00 |
| 159_G | 274_D | 2.896 | 1.00 |
| 338_V | 376_T | 2.878 | 1.00 |
| 258_L | 275_L | 2.868 | 1.00 |
| 92_V | 255_F | 2.825 | 1.00 |
| 159_G | 272_G | 2.818 | 1.00 |
| 340_A | 411_R | 2.795 | 1.00 |
| 174_H | 262_E | 2.768 | 1.00 |
| 141_V | 158_I | 2.686 | 1.00 |
| 341_V | 390_L | 2.599 | 1.00 |
| 545_G | 566_L | 2.560 | 1.00 |
| 134_I | 299_V | 2.547 | 1.00 |
| 527_E | 567_I | 2.542 | 1.00 |
| 479_A | 483_R | 2.540 | 1.00 |
| 175_R | 257_H | 2.511 | 1.00 |
| 219_S | 259_N | 2.509 | 1.00 |
| 93_V | 114_V | 2.505 | 1.00 |
| 530_L | 566_L | 2.493 | 1.00 |
| 204_R | 274_D | 2.453 | 1.00 |
| 224_A | 227_D | 2.443 | 1.00 |
| 144_V | 294_L | 2.398 | 1.00 |
| 565_T | 576_R | 2.392 | 1.00 |
| 195_T | 256_V | 2.384 | 1.00 |
| 158_I | 294_L | 2.371 | 1.00 |
| 224_A | 550_R | 2.369 | 1.00 |
| 93_V | 301_V | 2.359 | 1.00 |
| 158_I | 277_V | 2.337 | 1.00 |
| 514_R | 563_Q | 2.327 | 1.00 |
| 323_L | 410_L | 2.322 | 1.00 |
| 306_T | 411_R | 2.321 | 1.00 |
| 177_S | 221_G | 2.308 | 1.00 |
| 178_L | 256_V | 2.301 | 1.00 |
| 181_A | 295_C | 2.275 | 1.00 |
| 194_M | 277_V | 2.265 | 1.00 |
| 323_L | 338_V | 2.260 | 1.00 |
| 503_A | 535_F | 2.251 | 1.00 |
| 221_G | 257_H | 2.219 | 1.00 |
| 132_R | 299_V | 2.207 | 1.00 |
| 219_S | 257_H | 2.193 | 1.00 |
| 114_V | 130_T | 2.163 | 1.00 |
| 107_T | 135_P | 2.161 | 1.00 |
| 306_T | 339_D | 2.151 | 1.00 |
| 156_L | 279_L | 2.149 | 1.00 |
| 188_S | 254_M | 2.137 | 1.00 |
| 434_Q | 440_V | 2.103 | 1.00 |
| 168_W | 273_F | 2.065 | 1.00 |
| 139_L | 168_W | 2.032 | 1.00 |
| 131_T | 229_L | 2.030 | 1.00 |
| 161_A | 271_S | 2.024 | 1.00 |
| 162_C | 167_D | 1.998 | 1.00 |
| 180_L | 256_V | 1.988 | 1.00 |
| 156_L | 294_L | 1.983 | 1.00 |
| 155_V | 276_E | 1.967 | 1.00 |
| 160_F | 178_L | 1.945 | 1.00 |
| 217_W | 260_G | 1.938 | 1.00 |
| 107_T | 133_A | 1.933 | 1.00 |
| 320_E | 377_R | 1.929 | 1.00 |
| 198_L | 218_F | 1.922 | 1.00 |
| 529_T | 567_I | 1.907 | 1.00 |
| 141_V | 160_F | 1.894 | 1.00 |
| 113_E | 127_R | 1.894 | 1.00 |
| 526_V | 552_L | 1.865 | 1.00 |
| 343_G | 352_Y | 1.839 | 1.00 |
| 110_A | 133_A | 1.833 | 1.00 |
| 141_V | 178_L | 1.803 | 1.00 |
| 548_L | 552_L | 1.801 | 1.00 |
| 105_A | 137_N | 1.795 | 1.00 |
| 157_K | 274_D | 1.792 | 1.00 |
| 167_D | 170_Q | 1.791 | 1.00 |
| 96_T | 441_S | 1.790 | 1.00 |
| 506_A | 529_T | 1.789 | 1.00 |
| 525_D | 576_R | 1.780 | 1.00 |
| 228_R | 241_Q | 1.778 | 1.00 |
| 385_M | 417_G | 1.777 | 1.00 |
| 551_F | 555_Y | 1.771 | 1.00 |
| 182_A | 187_S | 1.771 | 1.00 |
| 143_K | 159_G | 1.771 | 1.00 |
| 228_R | 238_S | 1.755 | 1.00 |
| 528_V | 548_L | 1.747 | 1.00 |
| 201_L | 277_V | 1.740 | 1.00 |
| 525_D | 563_Q | 1.740 | 1.00 |
| 526_V | 562_N | 1.735 | 1.00 |
| 91_S | 446_C | 1.711 | 1.00 |
| 199_A | 280_S | 1.681 | 1.00 |
| 225_E | 238_S | 1.670 | 1.00 |
| 16_L | 20_G | 1.661 | 1.00 |
| 90_L | 249_F | 1.648 | 1.00 |
| 82_H | 236_A | 1.583 | 1.00 |
| 95_L | 108_V | 1.579 | 1.00 |
| 532_G | 568_V | 1.577 | 1.00 |
| 11_A | 61_R | 1.567 | 1.00 |
| 295_C | 298_C | 1.556 | 1.00 |
| 132_R | 221_G | 1.548 | 1.00 |
| 191_H | 220_P | 1.546 | 1.00 |
| 315_N | 318_E | 1.535 | 1.00 |
| 95_L | 299_V | 1.525 | 1.00 |
| 265_S | 273_F | 1.522 | 1.00 |
| 144_V | 289_V | 1.521 | 1.00 |
| 504_I | 530_L | 1.520 | 1.00 |
| 143_K | 291_D | 1.519 | 1.00 |
| 204_R | 276_E | 1.509 | 1.00 |
| 308_E | 411_R | 1.509 | 1.00 |
| 258_L | 277_V | 1.500 | 1.00 |
| 309_A | 410_L | 1.498 | 1.00 |
| 180_L | 194_M | 1.495 | 1.00 |
| 201_L | 217_W | 1.490 | 1.00 |
| 512_I | 525_D | 1.490 | 1.00 |
| 202_Y | 278_V | 1.488 | 1.00 |
| 320_E | 379_K | 1.482 | 1.00 |
| 338_V | 412_I | 1.475 | 1.00 |
| 530_L | 541_I | 1.469 | 1.00 |
| 15_Y | 19_A | 1.464 | 1.00 |
| 336_Y | 339_D | 1.459 | 1.00 |
| 341_V | 410_L | 1.443 | 1.00 |
| 336_Y | 415_T | 1.438 | 1.00 |
| 105_A | 135_P | 1.435 | 1.00 |
| 322_L | 387_D | 1.431 | 1.00 |
| 510_H | 527_E | 1.418 | 1.00 |
| 157_K | 276_E | 1.407 | 0.99 |
| 246_Y | 500_R | 1.404 | 0.99 |
| 194_M | 256_V | 1.403 | 0.99 |
| 160_F | 168_W | 1.403 | 0.99 |
| 134_I | 297_H | 1.401 | 0.99 |
| 197_R | 281_Q | 1.389 | 0.99 |
| 527_E | 565_T | 1.389 | 0.99 |
| 162_C | 168_W | 1.388 | 0.99 |
| 180_L | 187_S | 1.388 | 0.99 |
| 434_Q | 439_P | 1.385 | 0.99 |
| 53_F | 57_M | 1.377 | 0.99 |
| 202_Y | 276_E | 1.376 | 0.99 |
| 145_V | 157_K | 1.370 | 0.99 |
| 92_V | 298_C | 1.366 | 0.99 |
| 94_A | 443_R | 1.362 | 0.99 |
| 508_Q | 529_T | 1.361 | 0.99 |
| 178_L | 258_L | 1.359 | 0.99 |
| 29_D | 33_M | 1.355 | 0.99 |
| 572_G | 575_I | 1.353 | 0.99 |
| 180_L | 190_L | 1.350 | 0.99 |
| 89_S | 448_P | 1.348 | 0.99 |
| 158_I | 275_L | 1.348 | 0.99 |
| 16_L | 53_F | 1.345 | 0.99 |
| 90_L | 229_L | 1.343 | 0.99 |
| 322_L | 389_W | 1.330 | 0.99 |
| 541_I | 568_V | 1.327 | 0.99 |
| 180_L | 294_L | 1.323 | 0.99 |
| 334_E | 417_G | 1.312 | 0.99 |
| 142_E | 272_G | 1.307 | 0.99 |
| 132_R | 252_K | 1.306 | 0.99 |
| 255_F | 298_C | 1.303 | 0.99 |
| 431_R | 434_Q | 1.301 | 0.99 |
| 306_T | 413_T | 1.300 | 0.99 |
| 344_S | 409_S | 1.297 | 0.99 |
| 325_P | 412_I | 1.291 | 0.99 |
| 505_L | 531_D | 1.290 | 0.99 |
| 531_D | 570_P | 1.289 | 0.99 |
| 7_R | 11_A | 1.287 | 0.99 |
| 563_Q | 576_R | 1.285 | 0.99 |
| 130_T | 299_V | 1.283 | 0.99 |
| 175_R | 259_N | 1.280 | 0.99 |
| 95_L | 114_V | 1.271 | 0.99 |
| 573_K | 576_R | 1.268 | 0.99 |
| 111_G | 129_R | 1.266 | 0.99 |
| 36_L | 41_T | 1.261 | 0.99 |
| 144_V | 158_I | 1.251 | 0.99 |
| 507_V | 526_V | 1.244 | 0.98 |
| 144_V | 291_D | 1.239 | 0.98 |
| 352_Y | 372_R | 1.239 | 0.98 |
| 201_L | 218_F | 1.238 | 0.98 |
| 92_V | 179_Y | 1.234 | 0.98 |
| 89_S | 128_Y | 1.233 | 0.98 |
| 184_A | 251_E | 1.231 | 0.98 |
| 479_A | 507_V | 1.230 | 0.98 |
| 178_L | 296_L | 1.228 | 0.98 |
| 200_A | 213_R | 1.226 | 0.98 |
| 508_Q | 527_E | 1.226 | 0.98 |
| 512_I | 563_Q | 1.222 | 0.98 |
| 415_T | 451_P | 1.222 | 0.98 |
| 158_I | 258_L | 1.221 | 0.98 |
| 179_Y | 446_C | 1.219 | 0.98 |
| 544_F | 548_L | 1.215 | 0.98 |
| 379_K | 389_W | 1.214 | 0.98 |
| 523_G | 561_F | 1.211 | 0.98 |
| 186_V | 293_A | 1.210 | 0.98 |
| 421_R | 451_P | 1.205 | 0.98 |
| 112_L | 434_Q | 1.204 | 0.98 |
| 232_K | 236_A | 1.200 | 0.98 |
| 221_G | 227_D | 1.199 | 0.98 |
| 571_E | 574_C | 1.197 | 0.98 |
| 570_P | 575_I | 1.196 | 0.98 |
| 82_H | 244_L | 1.195 | 0.98 |
| 85_R | 336_Y | 1.194 | 0.98 |
| 180_L | 191_H | 1.192 | 0.98 |
| 57_M | 60_L | 1.184 | 0.98 |
| 301_V | 444_N | 1.182 | 0.98 |
| 371_E | 396_R | 1.175 | 0.98 |
| 337_S | 413_T | 1.175 | 0.98 |
| 387_D | 417_G | 1.171 | 0.98 |
| 57_M | 61_R | 1.171 | 0.98 |
| 482_L | 552_L | 1.163 | 0.97 |
| 203_L | 275_L | 1.162 | 0.97 |
| 9_F | 13_M | 1.158 | 0.97 |
| 17_R | 47_E | 1.155 | 0.97 |
| 325_P | 335_I | 1.150 | 0.97 |
| 568_V | 571_E | 1.150 | 0.97 |
| 490_N | 498_H | 1.146 | 0.97 |
| 136_L | 297_H | 1.144 | 0.97 |
| 193_M | 279_L | 1.142 | 0.97 |
| 104_M | 172_D | 1.136 | 0.97 |
| 490_N | 497_N | 1.133 | 0.97 |
| 90_L | 131_T | 1.127 | 0.97 |
| 141_V | 294_L | 1.126 | 0.97 |
| 530_L | 544_F | 1.121 | 0.97 |
| 240_Y | 551_F | 1.121 | 0.97 |
| 20_G | 55_F | 1.117 | 0.96 |
| 530_L | 535_F | 1.114 | 0.96 |
| 140_A | 163_S | 1.110 | 0.96 |
| 98_R | 101_V | 1.105 | 0.96 |
| 200_A | 278_V | 1.104 | 0.96 |
| 109_P | 112_L | 1.103 | 0.96 |
| 330_D | 333_T | 1.097 | 0.96 |
| 154_S | 279_L | 1.094 | 0.96 |
| 320_E | 389_W | 1.088 | 0.96 |
| 124_T | 332_Y | 1.087 | 0.96 |
| 82_H | 467_H | 1.087 | 0.96 |
| 89_S | 420_P | 1.087 | 0.96 |
| 16_L | 50_F | 1.086 | 0.96 |
| 156_L | 289_V | 1.084 | 0.96 |
| 191_H | 223_F | 1.083 | 0.96 |
| 219_S | 224_A | 1.083 | 0.96 |
| 113_E | 129_R | 1.072 | 0.95 |
| 194_M | 198_L | 1.070 | 0.95 |
| 290_T | 293_A | 1.069 | 0.95 |
| 190_L | 294_L | 1.068 | 0.95 |
| 91_S | 444_N | 1.064 | 0.95 |
| 390_L | 410_L | 1.059 | 0.95 |
| 87_I | 90_L | 1.059 | 0.95 |
| 94_A | 298_C | 1.057 | 0.95 |
| 463_R | 484_G | 1.055 | 0.95 |
| 109_P | 133_A | 1.052 | 0.95 |
| 162_C | 171_V | 1.051 | 0.94 |
| 95_L | 130_T | 1.050 | 0.94 |
| 307_L | 333_T | 1.049 | 0.94 |
| 233_G | 236_A | 1.047 | 0.94 |
| 311_P | 407_T | 1.043 | 0.94 |
| 338_V | 374_Y | 1.043 | 0.94 |
| 305_F | 416_N | 1.043 | 0.94 |
| 116_S | 119_V | 1.038 | 0.94 |
| 63_K | 66_D | 1.033 | 0.94 |
| 307_L | 325_P | 1.028 | 0.94 |
| 232_K | 241_Q | 1.027 | 0.94 |
| 137_N | 297_H | 1.025 | 0.93 |
| 206_P | 272_G | 1.025 | 0.93 |
| 251_E | 446_C | 1.024 | 0.93 |
| 499_R | 534_G | 1.021 | 0.93 |
| 326_K | 329_Q | 1.018 | 0.93 |
| 571_E | 575_I | 1.018 | 0.93 |
| 386_Y | 454_P | 1.017 | 0.93 |
| 63_K | 70_E | 1.010 | 0.93 |
| 195_T | 542_H | 1.010 | 0.93 |
| 87_I | 244_L | 1.007 | 0.93 |
| 92_V | 446_C | 1.007 | 0.93 |
| 160_F | 275_L | 1.006 | 0.93 |
| 505_L | 569_Q | 1.005 | 0.93 |
| 36_L | 39_A | 1.004 | 0.93 |
| 115_T | 127_R | 1.003 | 0.93 |
| 376_T | 388_T | 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 | |
| 4me7E | 2 | 0.075 | 14.1 | 0.983 | Contact Map |
| 2l7bA | 1 | 0.1414 | 13.8 | 0.983 | Contact Map |
| 3he5A | 3 | 0.0358 | 12.5 | 0.984 | Contact Map |
| 2mmbA | 1 | 0.0613 | 12.4 | 0.984 | Contact Map |
| 1j03A | 1 | 0.0596 | 11.8 | 0.984 | Contact Map |
| 1h0hA | 2 | 0.1755 | 9.7 | 0.984 | Contact Map |
| 3r0sA | 1 | 0.0937 | 8.3 | 0.985 | Contact Map |
| 2cw1A | 1 | 0.1005 | 7.7 | 0.985 | Contact Map |
| 2ee7A | 1 | 0.1431 | 7.7 | 0.985 | Contact Map |
| 3hn0A | 2 | 0.1516 | 6.9 | 0.985 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)