| lntEco |
| ID: | 1488194838 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 512 (500) | ||
| Sequences: | 4388 (3324.1) | ||
| Seq/Len: | 8.776 | ||
| Nf(neff/√len): | 148.7 |
Jackhmmer Results: (2016_04)
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: 8.776).
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 |
| 167_M | 171_A | 6.607 | 1.00 |
| 451_V | 472_T | 4.858 | 1.00 |
| 453_G | 457_E | 4.820 | 1.00 |
| 462_I | 468_E | 4.205 | 1.00 |
| 426_F | 450_A | 4.115 | 1.00 |
| 316_I | 410_I | 3.702 | 1.00 |
| 161_K | 434_L | 3.639 | 1.00 |
| 436_L | 484_A | 3.596 | 1.00 |
| 253_T | 265_W | 3.232 | 1.00 |
| 315_T | 334_N | 3.166 | 1.00 |
| 432_R | 435_E | 3.161 | 1.00 |
| 229_G | 249_Y | 3.065 | 1.00 |
| 20_F | 43_G | 3.027 | 1.00 |
| 411_S | 444_T | 2.749 | 1.00 |
| 125_A | 129_P | 2.599 | 1.00 |
| 152_G | 169_V | 2.591 | 1.00 |
| 157_D | 430_R | 2.490 | 1.00 |
| 433_A | 440_L | 2.489 | 1.00 |
| 225_S | 260_S | 2.438 | 1.00 |
| 225_S | 471_T | 2.401 | 1.00 |
| 57_A | 106_G | 2.308 | 1.00 |
| 248_I | 467_R | 2.264 | 1.00 |
| 483_Y | 488_N | 2.244 | 1.00 |
| 439_P | 454_P | 2.178 | 1.00 |
| 288_L | 295_L | 2.154 | 1.00 |
| 71_G | 149_L | 2.130 | 1.00 |
| 382_L | 406_Y | 2.129 | 1.00 |
| 35_P | 38_I | 2.104 | 1.00 |
| 348_E | 364_S | 2.097 | 1.00 |
| 223_Q | 473_N | 2.033 | 1.00 |
| 224_V | 441_L | 2.026 | 1.00 |
| 226_M | 449_T | 2.025 | 1.00 |
| 209_R | 212_Q | 2.019 | 1.00 |
| 482_P | 486_T | 2.001 | 1.00 |
| 226_M | 443_S | 1.993 | 1.00 |
| 247_K | 251_N | 1.957 | 1.00 |
| 301_D | 334_N | 1.948 | 1.00 |
| 385_A | 396_V | 1.942 | 1.00 |
| 18_L | 62_C | 1.933 | 1.00 |
| 439_P | 475_T | 1.918 | 1.00 |
| 407_L | 440_L | 1.897 | 1.00 |
| 155_Q | 176_L | 1.892 | 1.00 |
| 225_S | 256_L | 1.880 | 1.00 |
| 397_R | 487_G | 1.869 | 1.00 |
| 61_F | 99_A | 1.865 | 1.00 |
| 164_A | 431_M | 1.864 | 1.00 |
| 165_P | 437_A | 1.861 | 1.00 |
| 300_V | 365_F | 1.855 | 1.00 |
| 25_T | 70_S | 1.840 | 1.00 |
| 60_G | 106_G | 1.837 | 1.00 |
| 14_L | 62_C | 1.831 | 1.00 |
| 376_S | 381_E | 1.830 | 1.00 |
| 165_P | 434_L | 1.799 | 1.00 |
| 437_A | 481_T | 1.793 | 1.00 |
| 24_G | 40_S | 1.793 | 1.00 |
| 440_L | 452_I | 1.788 | 1.00 |
| 53_P | 110_G | 1.774 | 1.00 |
| 243_L | 247_K | 1.766 | 1.00 |
| 163_L | 175_L | 1.764 | 1.00 |
| 153_Y | 431_M | 1.760 | 1.00 |
| 316_I | 384_A | 1.739 | 1.00 |
| 406_Y | 474_V | 1.736 | 1.00 |
| 60_G | 64_G | 1.734 | 1.00 |
| 133_Q | 174_F | 1.727 | 1.00 |
| 165_P | 208_L | 1.720 | 1.00 |
| 230_D | 467_R | 1.716 | 1.00 |
| 253_T | 263_I | 1.704 | 1.00 |
| 453_G | 459_Q | 1.684 | 1.00 |
| 17_A | 21_G | 1.661 | 1.00 |
| 164_A | 172_I | 1.650 | 1.00 |
| 110_G | 114_R | 1.650 | 1.00 |
| 226_M | 441_L | 1.642 | 1.00 |
| 315_T | 332_R | 1.633 | 1.00 |
| 413_D | 425_H | 1.625 | 1.00 |
| 352_R | 359_D | 1.617 | 1.00 |
| 46_A | 184_A | 1.615 | 1.00 |
| 423_W | 448_I | 1.610 | 1.00 |
| 26_L | 31_Y | 1.600 | 1.00 |
| 129_P | 178_M | 1.577 | 1.00 |
| 153_Y | 428_M | 1.567 | 1.00 |
| 37_A | 155_Q | 1.566 | 1.00 |
| 296_V | 318_T | 1.557 | 1.00 |
| 426_F | 458_I | 1.555 | 1.00 |
| 78_S | 416_F | 1.554 | 1.00 |
| 390_I | 440_L | 1.545 | 1.00 |
| 260_S | 471_T | 1.544 | 1.00 |
| 52_R | 55_Q | 1.532 | 1.00 |
| 381_E | 405_D | 1.519 | 1.00 |
| 225_S | 469_V | 1.507 | 1.00 |
| 383_T | 407_L | 1.506 | 1.00 |
| 72_I | 146_F | 1.499 | 1.00 |
| 383_T | 404_T | 1.498 | 1.00 |
| 38_I | 180_S | 1.493 | 1.00 |
| 429_A | 440_L | 1.482 | 1.00 |
| 27_A | 37_A | 1.480 | 1.00 |
| 252_A | 255_P | 1.476 | 1.00 |
| 77_V | 419_S | 1.467 | 1.00 |
| 460_A | 470_L | 1.463 | 1.00 |
| 48_T | 109_A | 1.460 | 1.00 |
| 112_L | 128_A | 1.455 | 0.99 |
| 17_A | 47_L | 1.449 | 0.99 |
| 62_C | 66_G | 1.448 | 0.99 |
| 449_T | 462_I | 1.440 | 0.99 |
| 166_I | 482_P | 1.429 | 0.99 |
| 480_L | 485_R | 1.418 | 0.99 |
| 56_S | 109_A | 1.416 | 0.99 |
| 17_A | 59_I | 1.414 | 0.99 |
| 138_L | 142_V | 1.413 | 0.99 |
| 264_I | 408_L | 1.405 | 0.99 |
| 460_A | 472_T | 1.398 | 0.99 |
| 347_L | 351_L | 1.393 | 0.99 |
| 65_F | 69_G | 1.384 | 0.99 |
| 40_S | 63_W | 1.381 | 0.99 |
| 390_I | 409_T | 1.357 | 0.99 |
| 60_G | 109_A | 1.354 | 0.99 |
| 205_P | 208_L | 1.342 | 0.99 |
| 417_G | 465_F | 1.342 | 0.99 |
| 301_D | 315_T | 1.333 | 0.99 |
| 377_A | 380_I | 1.326 | 0.99 |
| 221_T | 473_N | 1.324 | 0.99 |
| 190_R | 193_R | 1.324 | 0.99 |
| 136_E | 173_N | 1.323 | 0.99 |
| 56_S | 113_S | 1.321 | 0.99 |
| 380_I | 405_D | 1.319 | 0.99 |
| 405_D | 476_P | 1.312 | 0.99 |
| 42_M | 180_S | 1.312 | 0.99 |
| 37_A | 154_S | 1.311 | 0.99 |
| 458_I | 461_M | 1.305 | 0.99 |
| 350_I | 354_L | 1.295 | 0.99 |
| 35_P | 39_I | 1.293 | 0.99 |
| 38_I | 155_Q | 1.291 | 0.99 |
| 97_L | 104_Y | 1.287 | 0.98 |
| 208_L | 213_W | 1.282 | 0.98 |
| 68_F | 139_R | 1.280 | 0.98 |
| 184_A | 188_V | 1.269 | 0.98 |
| 49_F | 188_V | 1.269 | 0.98 |
| 426_F | 452_I | 1.269 | 0.98 |
| 51_R | 55_Q | 1.266 | 0.98 |
| 348_E | 352_R | 1.266 | 0.98 |
| 480_L | 484_A | 1.262 | 0.98 |
| 65_F | 102_S | 1.261 | 0.98 |
| 205_P | 209_R | 1.259 | 0.98 |
| 53_P | 57_A | 1.253 | 0.98 |
| 14_L | 58_A | 1.244 | 0.98 |
| 54_L | 58_A | 1.243 | 0.98 |
| 413_D | 442_R | 1.242 | 0.98 |
| 439_P | 474_V | 1.234 | 0.98 |
| 43_G | 180_S | 1.234 | 0.98 |
| 251_N | 255_P | 1.231 | 0.98 |
| 208_L | 212_Q | 1.225 | 0.98 |
| 299_I | 317_I | 1.224 | 0.98 |
| 33_V | 36_A | 1.224 | 0.98 |
| 21_G | 66_G | 1.222 | 0.98 |
| 24_G | 63_W | 1.222 | 0.98 |
| 323_A | 328_E | 1.220 | 0.98 |
| 69_G | 98_A | 1.220 | 0.98 |
| 249_Y | 269_A | 1.218 | 0.98 |
| 28_F | 67_L | 1.214 | 0.98 |
| 133_Q | 173_N | 1.212 | 0.97 |
| 316_I | 386_I | 1.212 | 0.97 |
| 496_A | 500_F | 1.212 | 0.97 |
| 337_H | 395_Q | 1.210 | 0.97 |
| 223_Q | 471_T | 1.210 | 0.97 |
| 441_L | 474_V | 1.209 | 0.97 |
| 252_A | 469_V | 1.206 | 0.97 |
| 296_V | 408_L | 1.204 | 0.97 |
| 13_R | 50_N | 1.204 | 0.97 |
| 44_L | 109_A | 1.203 | 0.97 |
| 13_R | 59_I | 1.198 | 0.97 |
| 73_N | 420_I | 1.192 | 0.97 |
| 94_V | 97_L | 1.185 | 0.97 |
| 155_Q | 172_I | 1.180 | 0.97 |
| 22_A | 26_L | 1.165 | 0.97 |
| 162_G | 165_P | 1.164 | 0.97 |
| 313_Y | 334_N | 1.157 | 0.96 |
| 97_L | 101_L | 1.153 | 0.96 |
| 262_L | 296_V | 1.153 | 0.96 |
| 320_G | 330_A | 1.150 | 0.96 |
| 151_F | 177_M | 1.148 | 0.96 |
| 129_P | 174_F | 1.147 | 0.96 |
| 100_Y | 105_T | 1.140 | 0.96 |
| 131_L | 498_F | 1.140 | 0.96 |
| 241_Q | 244_N | 1.137 | 0.96 |
| 313_Y | 366_S | 1.137 | 0.96 |
| 236_K | 268_S | 1.132 | 0.96 |
| 47_L | 59_I | 1.123 | 0.96 |
| 138_L | 141_W | 1.119 | 0.95 |
| 93_L | 97_L | 1.118 | 0.95 |
| 233_Q | 236_K | 1.116 | 0.95 |
| 163_L | 205_P | 1.114 | 0.95 |
| 161_K | 431_M | 1.111 | 0.95 |
| 31_Y | 420_I | 1.110 | 0.95 |
| 129_P | 181_G | 1.110 | 0.95 |
| 323_A | 329_S | 1.109 | 0.95 |
| 18_L | 66_G | 1.107 | 0.95 |
| 250_Y | 254_A | 1.106 | 0.95 |
| 285_D | 289_R | 1.105 | 0.95 |
| 451_V | 474_V | 1.105 | 0.95 |
| 230_D | 446_N | 1.104 | 0.95 |
| 226_M | 470_L | 1.102 | 0.95 |
| 422_P | 464_Q | 1.098 | 0.95 |
| 46_A | 187_L | 1.095 | 0.95 |
| 268_S | 300_V | 1.092 | 0.95 |
| 221_T | 475_T | 1.090 | 0.95 |
| 454_P | 477_T | 1.086 | 0.94 |
| 226_M | 451_V | 1.084 | 0.94 |
| 104_Y | 108_F | 1.084 | 0.94 |
| 137_F | 141_W | 1.084 | 0.94 |
| 439_P | 451_V | 1.076 | 0.94 |
| 406_Y | 441_L | 1.076 | 0.94 |
| 241_Q | 245_T | 1.073 | 0.94 |
| 100_Y | 104_Y | 1.064 | 0.94 |
| 167_M | 175_L | 1.064 | 0.94 |
| 301_D | 332_R | 1.064 | 0.94 |
| 148_W | 424_Q | 1.064 | 0.94 |
| 44_L | 63_W | 1.062 | 0.94 |
| 162_G | 434_L | 1.062 | 0.94 |
| 318_T | 375_L | 1.060 | 0.93 |
| 56_S | 60_G | 1.059 | 0.93 |
| 101_L | 105_T | 1.057 | 0.93 |
| 20_F | 47_L | 1.054 | 0.93 |
| 224_V | 406_Y | 1.048 | 0.93 |
| 423_W | 464_Q | 1.047 | 0.93 |
| 294_S | 318_T | 1.046 | 0.93 |
| 45_Q | 128_A | 1.043 | 0.93 |
| 24_G | 151_F | 1.039 | 0.93 |
| 165_P | 482_P | 1.029 | 0.92 |
| 130_A | 495_T | 1.026 | 0.92 |
| 336_N | 398_D | 1.026 | 0.92 |
| 134_V | 495_T | 1.021 | 0.92 |
| 235_L | 241_Q | 1.021 | 0.92 |
| 320_G | 328_E | 1.019 | 0.92 |
| 452_I | 458_I | 1.016 | 0.91 |
| 109_A | 113_S | 1.015 | 0.91 |
| 45_Q | 181_G | 1.015 | 0.91 |
| 303_R | 313_Y | 1.012 | 0.91 |
| 347_L | 350_I | 1.011 | 0.91 |
| 134_V | 138_L | 1.007 | 0.91 |
| 61_F | 65_F | 1.007 | 0.91 |
| 43_G | 47_L | 1.001 | 0.91 |
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 | |
| 1uf5A | 2 | 0.5078 | 100 | 0.636 | Contact Map |
| 2w1vA | 2 | 0.4805 | 100 | 0.664 | Contact Map |
| 3p8kA | 2 | 0.4746 | 100 | 0.665 | Contact Map |
| 2e11A | 4 | 0.4629 | 100 | 0.67 | Contact Map |
| 4izuA | 1 | 0.4434 | 100 | 0.671 | Contact Map |
| 1f89A | 2 | 0.4785 | 100 | 0.671 | Contact Map |
| 3ivzA | 2 | 0.4512 | 100 | 0.673 | Contact Map |
| 4f4hA | 2 | 0.5059 | 100 | 0.675 | Contact Map |
| 4hg5A | 4 | 0.4902 | 100 | 0.675 | Contact Map |
| 1emsA | 2 | 0.5098 | 100 | 0.676 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)