| MalT180717 1-800 1-600 |
| ID: | 1501771250 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 600 (592) | ||
| Sequences: | 10865 (8868.6) | ||
| Seq/Len: | 18.353 | ||
| Nf(neff/√len): | 364.5 |
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: 18.353).
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 |
| 543_F | 546_T | 5.836 | 1.00 |
| 503_E | 506_R | 5.187 | 1.00 |
| 585_R | 588_E | 4.939 | 1.00 |
| 464_N | 467_E | 4.914 | 1.00 |
| 424_R | 427_E | 4.491 | 1.00 |
| 49_I | 158_L | 3.588 | 1.00 |
| 187_T | 190_E | 3.475 | 1.00 |
| 535_S | 551_Q | 2.986 | 1.00 |
| 495_G | 511_M | 2.929 | 1.00 |
| 267_T | 300_E | 2.909 | 1.00 |
| 548_W | 552_E | 2.872 | 1.00 |
| 27_S | 55_G | 2.783 | 1.00 |
| 344_H | 363_H | 2.736 | 1.00 |
| 26_L | 52_W | 2.730 | 1.00 |
| 191_A | 222_L | 2.710 | 1.00 |
| 456_A | 472_A | 2.639 | 1.00 |
| 51_Q | 55_G | 2.482 | 1.00 |
| 188_H | 209_S | 2.432 | 1.00 |
| 37_I | 49_I | 2.422 | 1.00 |
| 469_E | 473_K | 2.404 | 1.00 |
| 253_D | 330_Q | 2.376 | 1.00 |
| 53_A | 126_V | 2.353 | 1.00 |
| 519_R | 553_K | 2.318 | 1.00 |
| 264_D | 300_E | 2.301 | 1.00 |
| 27_S | 52_W | 2.297 | 1.00 |
| 548_W | 583_W | 2.238 | 1.00 |
| 22_L | 48_L | 2.233 | 1.00 |
| 548_W | 576_R | 2.183 | 1.00 |
| 508_L | 512_Q | 2.159 | 1.00 |
| 452_N | 471_L | 2.135 | 1.00 |
| 130_Y | 157_V | 2.079 | 1.00 |
| 23_L | 52_W | 2.066 | 1.00 |
| 195_F | 226_A | 2.061 | 1.00 |
| 26_L | 35_A | 2.058 | 1.00 |
| 264_D | 267_T | 2.057 | 1.00 |
| 508_L | 541_Q | 2.054 | 1.00 |
| 519_R | 527_A | 2.040 | 1.00 |
| 429_N | 433_A | 1.998 | 1.00 |
| 512_Q | 534_Q | 1.994 | 1.00 |
| 41_A | 160_R | 1.991 | 1.00 |
| 191_A | 212_C | 1.984 | 1.00 |
| 538_L | 546_T | 1.980 | 1.00 |
| 47_T | 51_Q | 1.975 | 1.00 |
| 469_E | 501_K | 1.965 | 1.00 |
| 192_K | 208_S | 1.938 | 1.00 |
| 580_L | 588_E | 1.933 | 1.00 |
| 538_L | 543_F | 1.930 | 1.00 |
| 531_L | 550_T | 1.920 | 1.00 |
| 49_I | 126_V | 1.919 | 1.00 |
| 348_A | 364_A | 1.916 | 1.00 |
| 498_L | 506_R | 1.890 | 1.00 |
| 552_E | 576_R | 1.886 | 1.00 |
| 548_W | 579_L | 1.884 | 1.00 |
| 580_L | 585_R | 1.881 | 1.00 |
| 577_A | 593_A | 1.871 | 1.00 |
| 415_Q | 419_M | 1.862 | 1.00 |
| 416_A | 432_L | 1.857 | 1.00 |
| 277_L | 347_A | 1.853 | 1.00 |
| 37_I | 179_I | 1.851 | 1.00 |
| 369_D | 372_M | 1.850 | 1.00 |
| 559_N | 569_H | 1.843 | 1.00 |
| 275_A | 329_R | 1.839 | 1.00 |
| 51_Q | 54_A | 1.819 | 1.00 |
| 274_S | 320_Y | 1.815 | 1.00 |
| 352_M | 372_M | 1.791 | 1.00 |
| 188_H | 213_D | 1.786 | 1.00 |
| 12_R | 51_Q | 1.775 | 1.00 |
| 498_L | 510_L | 1.763 | 1.00 |
| 191_A | 217_G | 1.757 | 1.00 |
| 188_H | 217_G | 1.743 | 1.00 |
| 345_R | 349_E | 1.735 | 1.00 |
| 538_L | 550_T | 1.724 | 1.00 |
| 39_S | 43_Y | 1.711 | 1.00 |
| 193_Q | 197_C | 1.710 | 1.00 |
| 270_F | 297_R | 1.695 | 1.00 |
| 590_E | 594_R | 1.667 | 1.00 |
| 190_E | 193_Q | 1.657 | 1.00 |
| 580_L | 592_S | 1.654 | 1.00 |
| 459_A | 467_E | 1.648 | 1.00 |
| 551_Q | 575_I | 1.648 | 1.00 |
| 531_L | 553_K | 1.628 | 1.00 |
| 20_E | 190_E | 1.613 | 1.00 |
| 469_E | 494_L | 1.609 | 1.00 |
| 16_T | 47_T | 1.608 | 1.00 |
| 508_L | 534_Q | 1.602 | 1.00 |
| 459_A | 464_N | 1.597 | 1.00 |
| 480_P | 487_R | 1.590 | 1.00 |
| 270_F | 289_T | 1.586 | 1.00 |
| 192_K | 209_S | 1.583 | 1.00 |
| 188_H | 192_K | 1.560 | 1.00 |
| 16_T | 51_Q | 1.546 | 1.00 |
| 491_T | 513_Q | 1.541 | 1.00 |
| 452_N | 474_L | 1.538 | 1.00 |
| 128_D | 158_L | 1.536 | 1.00 |
| 125_L | 155_L | 1.534 | 1.00 |
| 281_N | 284_L | 1.517 | 1.00 |
| 491_T | 510_L | 1.514 | 1.00 |
| 473_K | 477_E | 1.501 | 1.00 |
| 123_L | 153_L | 1.497 | 1.00 |
| 280_M | 285_I | 1.497 | 1.00 |
| 271_L | 328_L | 1.496 | 1.00 |
| 186_F | 194_F | 1.484 | 1.00 |
| 535_S | 554_A | 1.480 | 1.00 |
| 480_P | 513_Q | 1.478 | 1.00 |
| 204_E | 207_E | 1.469 | 1.00 |
| 419_M | 424_R | 1.468 | 1.00 |
| 531_L | 557_L | 1.467 | 1.00 |
| 552_E | 556_Q | 1.444 | 1.00 |
| 467_E | 470_R | 1.444 | 1.00 |
| 210_R | 244_A | 1.444 | 1.00 |
| 210_R | 214_D | 1.434 | 1.00 |
| 548_W | 580_L | 1.431 | 1.00 |
| 505_T | 541_Q | 1.425 | 1.00 |
| 534_Q | 550_T | 1.423 | 1.00 |
| 210_R | 213_D | 1.418 | 1.00 |
| 506_R | 509_A | 1.417 | 1.00 |
| 512_Q | 516_Q | 1.416 | 1.00 |
| 472_A | 493_V | 1.415 | 1.00 |
| 215_V | 225_I | 1.413 | 1.00 |
| 267_T | 301_I | 1.413 | 1.00 |
| 498_L | 503_E | 1.411 | 1.00 |
| 511_M | 533_Q | 1.410 | 1.00 |
| 325_G | 329_R | 1.407 | 0.99 |
| 412_V | 431_L | 1.400 | 0.99 |
| 419_M | 431_L | 1.392 | 0.99 |
| 508_L | 538_L | 1.390 | 0.99 |
| 549_E | 553_K | 1.390 | 0.99 |
| 195_F | 208_S | 1.385 | 0.99 |
| 474_L | 477_E | 1.381 | 0.99 |
| 534_Q | 538_L | 1.379 | 0.99 |
| 429_N | 462_D | 1.373 | 0.99 |
| 43_Y | 218_W | 1.373 | 0.99 |
| 436_E | 455_R | 1.364 | 0.99 |
| 573_V | 595_S | 1.356 | 0.99 |
| 25_K | 29_A | 1.355 | 0.99 |
| 537_I | 541_Q | 1.346 | 0.99 |
| 514_T | 530_S | 1.343 | 0.99 |
| 266_A | 297_R | 1.340 | 0.99 |
| 546_T | 549_E | 1.340 | 0.99 |
| 556_Q | 560_E | 1.334 | 0.99 |
| 559_N | 595_S | 1.331 | 0.99 |
| 555_F | 569_H | 1.331 | 0.99 |
| 18_V | 23_L | 1.329 | 0.99 |
| 573_V | 592_S | 1.315 | 0.99 |
| 306_L | 324_F | 1.309 | 0.99 |
| 134_T | 138_I | 1.305 | 0.99 |
| 24_A | 28_G | 1.295 | 0.99 |
| 555_F | 576_R | 1.295 | 0.99 |
| 272_L | 339_E | 1.294 | 0.99 |
| 473_K | 494_L | 1.293 | 0.99 |
| 19_R | 22_L | 1.292 | 0.99 |
| 419_M | 427_E | 1.291 | 0.99 |
| 326_N | 330_Q | 1.291 | 0.99 |
| 479_L | 486_S | 1.290 | 0.99 |
| 515_E | 534_Q | 1.287 | 0.99 |
| 42_G | 45_K | 1.286 | 0.99 |
| 512_Q | 546_T | 1.279 | 0.99 |
| 453_A | 493_V | 1.277 | 0.99 |
| 49_I | 53_A | 1.272 | 0.99 |
| 550_T | 553_K | 1.270 | 0.99 |
| 276_I | 347_A | 1.267 | 0.99 |
| 269_H | 273_K | 1.259 | 0.99 |
| 17_V | 197_C | 1.257 | 0.99 |
| 266_A | 293_N | 1.256 | 0.99 |
| 579_L | 583_W | 1.254 | 0.99 |
| 194_F | 222_L | 1.250 | 0.99 |
| 257_D | 327_F | 1.246 | 0.98 |
| 545_Q | 583_W | 1.245 | 0.98 |
| 275_A | 328_L | 1.244 | 0.98 |
| 308_L | 319_C | 1.239 | 0.98 |
| 576_R | 580_L | 1.238 | 0.98 |
| 18_V | 22_L | 1.233 | 0.98 |
| 580_L | 583_W | 1.229 | 0.98 |
| 41_A | 255_L | 1.228 | 0.98 |
| 440_K | 448_H | 1.228 | 0.98 |
| 23_L | 51_Q | 1.226 | 0.98 |
| 555_F | 559_N | 1.224 | 0.98 |
| 58_D | 121_S | 1.219 | 0.98 |
| 265_L | 268_R | 1.215 | 0.98 |
| 535_S | 547_A | 1.212 | 0.98 |
| 340_L | 344_H | 1.202 | 0.98 |
| 449_A | 475_A | 1.200 | 0.98 |
| 274_S | 285_I | 1.197 | 0.98 |
| 43_Y | 219_A | 1.195 | 0.98 |
| 205_A | 209_S | 1.191 | 0.98 |
| 36_L | 159_S | 1.188 | 0.98 |
| 519_R | 531_L | 1.188 | 0.98 |
| 256_V | 324_F | 1.188 | 0.98 |
| 274_S | 280_M | 1.186 | 0.98 |
| 40_P | 43_Y | 1.182 | 0.98 |
| 21_R | 25_K | 1.182 | 0.98 |
| 471_L | 474_L | 1.180 | 0.98 |
| 52_W | 156_V | 1.178 | 0.98 |
| 268_R | 272_L | 1.172 | 0.98 |
| 364_A | 372_M | 1.172 | 0.98 |
| 38_T | 178_E | 1.171 | 0.98 |
| 38_T | 176_L | 1.169 | 0.97 |
| 15_H | 197_C | 1.169 | 0.97 |
| 518_A | 526_Y | 1.166 | 0.97 |
| 459_A | 471_L | 1.165 | 0.97 |
| 62_Y | 74_F | 1.165 | 0.97 |
| 532_I | 575_I | 1.164 | 0.97 |
| 576_R | 592_S | 1.164 | 0.97 |
| 555_F | 573_V | 1.160 | 0.97 |
| 46_T | 129_D | 1.160 | 0.97 |
| 516_Q | 519_R | 1.158 | 0.97 |
| 270_F | 294_G | 1.158 | 0.97 |
| 559_N | 573_V | 1.156 | 0.97 |
| 515_E | 530_S | 1.154 | 0.97 |
| 515_E | 527_A | 1.151 | 0.97 |
| 506_R | 510_L | 1.150 | 0.97 |
| 555_F | 572_L | 1.150 | 0.97 |
| 49_I | 156_V | 1.150 | 0.97 |
| 551_Q | 579_L | 1.148 | 0.97 |
| 428_V | 458_V | 1.147 | 0.97 |
| 63_S | 129_D | 1.144 | 0.97 |
| 310_R | 319_C | 1.141 | 0.97 |
| 284_L | 350_S | 1.140 | 0.97 |
| 20_E | 24_A | 1.140 | 0.97 |
| 192_K | 212_C | 1.139 | 0.97 |
| 554_A | 572_L | 1.139 | 0.97 |
| 544_L | 579_L | 1.136 | 0.97 |
| 456_A | 475_A | 1.135 | 0.97 |
| 495_G | 514_T | 1.135 | 0.97 |
| 455_R | 459_A | 1.131 | 0.97 |
| 511_M | 530_S | 1.130 | 0.97 |
| 523_V | 526_Y | 1.129 | 0.97 |
| 474_L | 478_E | 1.127 | 0.97 |
| 211_I | 222_L | 1.127 | 0.97 |
| 467_E | 471_L | 1.126 | 0.97 |
| 433_A | 455_R | 1.126 | 0.97 |
| 57_N | 122_P | 1.124 | 0.97 |
| 46_T | 50_S | 1.122 | 0.97 |
| 342_E | 346_A | 1.120 | 0.96 |
| 492_S | 533_Q | 1.114 | 0.96 |
| 269_H | 339_E | 1.112 | 0.96 |
| 433_A | 437_H | 1.110 | 0.96 |
| 209_S | 213_D | 1.104 | 0.96 |
| 130_Y | 139_H | 1.102 | 0.96 |
| 469_E | 497_V | 1.102 | 0.96 |
| 528_L | 558_I | 1.101 | 0.96 |
| 257_D | 261_D | 1.100 | 0.96 |
| 434_R | 438_E | 1.100 | 0.96 |
| 375_D | 379_N | 1.099 | 0.96 |
| 61_W | 126_V | 1.096 | 0.96 |
| 505_T | 545_Q | 1.096 | 0.96 |
| 214_D | 326_N | 1.095 | 0.96 |
| 449_A | 479_L | 1.095 | 0.96 |
| 53_A | 124_Y | 1.094 | 0.96 |
| 518_A | 530_S | 1.090 | 0.96 |
| 212_C | 222_L | 1.087 | 0.96 |
| 286_T | 294_G | 1.085 | 0.96 |
| 192_K | 205_A | 1.084 | 0.96 |
| 494_L | 510_L | 1.083 | 0.96 |
| 307_F | 320_Y | 1.080 | 0.95 |
| 515_E | 519_R | 1.077 | 0.95 |
| 272_L | 331_R | 1.075 | 0.95 |
| 473_K | 506_R | 1.072 | 0.95 |
| 472_A | 490_A | 1.067 | 0.95 |
| 345_R | 369_D | 1.067 | 0.95 |
| 440_K | 474_L | 1.065 | 0.95 |
| 128_D | 131_H | 1.064 | 0.95 |
| 452_N | 478_E | 1.062 | 0.95 |
| 553_K | 556_Q | 1.061 | 0.95 |
| 146_I | 155_L | 1.060 | 0.95 |
| 389_E | 392_L | 1.052 | 0.95 |
| 192_K | 196_D | 1.050 | 0.94 |
| 39_S | 44_G | 1.048 | 0.94 |
| 456_A | 471_L | 1.047 | 0.94 |
| 267_T | 304_Q | 1.045 | 0.94 |
| 415_Q | 431_L | 1.045 | 0.94 |
| 75_A | 78_L | 1.044 | 0.94 |
| 528_L | 554_A | 1.041 | 0.94 |
| 22_L | 190_E | 1.040 | 0.94 |
| 33_R | 36_L | 1.036 | 0.94 |
| 494_L | 498_L | 1.036 | 0.94 |
| 412_V | 434_R | 1.036 | 0.94 |
| 476_L | 494_L | 1.036 | 0.94 |
| 29_A | 35_A | 1.034 | 0.94 |
| 198_R | 223_Q | 1.033 | 0.94 |
| 495_G | 510_L | 1.022 | 0.93 |
| 224_L | 259_V | 1.020 | 0.93 |
| 211_I | 240_A | 1.019 | 0.93 |
| 470_R | 474_L | 1.018 | 0.93 |
| 37_I | 48_L | 1.018 | 0.93 |
| 527_A | 531_L | 1.014 | 0.93 |
| 558_I | 572_L | 1.011 | 0.93 |
| 548_W | 585_R | 1.011 | 0.93 |
| 276_I | 329_R | 1.011 | 0.93 |
| 21_R | 24_A | 1.010 | 0.93 |
| 509_A | 513_Q | 1.010 | 0.93 |
| 50_S | 54_A | 1.009 | 0.93 |
| 469_E | 498_L | 1.009 | 0.93 |
| 515_E | 531_L | 1.008 | 0.93 |
| 441_D | 520_Q | 1.006 | 0.93 |
| 558_I | 568_M | 1.003 | 0.93 |
| 495_G | 507_S | 1.002 | 0.92 |
| 533_Q | 575_I | 1.000 | 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 | |
| 1z6tA | 4 | 0.715 | 100 | 0.55 | Contact Map |
| 2a5yB | 2 | 0.5767 | 100 | 0.617 | Contact Map |
| 3sfzA | 1 | 0.9283 | 100 | 0.629 | Contact Map |
| 1vt4I | 8 | 0.7117 | 99.9 | 0.681 | Contact Map |
| 2qenA | 1 | 0.5183 | 99.9 | 0.681 | Contact Map |
| 2fnaA | 2 | 0.5067 | 99.9 | 0.704 | Contact Map |
| 4jhrA | 2 | 0.3583 | 99.9 | 0.718 | Contact Map |
| 4a1sA | 2 | 0.5 | 99.8 | 0.74 | Contact Map |
| 3sf4A | 3 | 0.4367 | 99.8 | 0.742 | Contact Map |
| 1fnnA | 2 | 0.5217 | 99.8 | 0.746 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)