| melon-160 |
| ID: | 1431740413 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 508 (493) | ||
| Sequences: | 34504 (26819.5) | ||
| Seq/Len: | 69.988 | ||
| Nf(neff/√len): | 1207.9 |
Jackhmmer Results: (2015_01_07)
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: 69.988).
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 |
| 361_C | 424_E | 3.958 | 1.00 |
| 414_D | 417_S | 3.954 | 1.00 |
| 414_D | 419_R | 3.537 | 1.00 |
| 265_R | 295_D | 3.020 | 1.00 |
| 469_D | 499_K | 2.963 | 1.00 |
| 320_A | 461_L | 2.956 | 1.00 |
| 330_V | 358_Y | 2.882 | 1.00 |
| 320_A | 366_T | 2.831 | 1.00 |
| 323_N | 370_Y | 2.824 | 1.00 |
| 471_K | 499_K | 2.758 | 1.00 |
| 336_A | 340_S | 2.705 | 1.00 |
| 332_K | 336_A | 2.677 | 1.00 |
| 333_K | 421_E | 2.647 | 1.00 |
| 386_S | 391_N | 2.624 | 1.00 |
| 407_R | 416_T | 2.607 | 1.00 |
| 384_D | 394_R | 2.598 | 1.00 |
| 100_F | 385_C | 2.570 | 1.00 |
| 334_A | 362_I | 2.513 | 1.00 |
| 316_T | 457_M | 2.475 | 1.00 |
| 360_R | 458_G | 2.465 | 1.00 |
| 384_D | 391_N | 2.434 | 1.00 |
| 471_K | 497_L | 2.405 | 1.00 |
| 61_Q | 65_Q | 2.396 | 1.00 |
| 99_I | 383_A | 2.392 | 1.00 |
| 393_P | 396_T | 2.362 | 1.00 |
| 43_I | 46_I | 2.322 | 1.00 |
| 183_L | 460_M | 2.312 | 1.00 |
| 157_R | 463_T | 2.272 | 1.00 |
| 258_Q | 299_K | 2.209 | 1.00 |
| 335_R | 339_E | 2.209 | 1.00 |
| 164_F | 467_C | 2.177 | 1.00 |
| 264_H | 277_C | 2.176 | 1.00 |
| 72_S | 79_L | 2.147 | 1.00 |
| 335_R | 469_D | 2.137 | 1.00 |
| 381_S | 392_I | 2.112 | 1.00 |
| 262_D | 295_D | 2.107 | 1.00 |
| 334_A | 465_I | 2.099 | 1.00 |
| 180_V | 321_M | 2.098 | 1.00 |
| 332_K | 469_D | 2.090 | 1.00 |
| 346_K | 352_D | 2.089 | 1.00 |
| 258_Q | 262_D | 2.066 | 1.00 |
| 331_L | 335_R | 2.003 | 1.00 |
| 70_V | 83_V | 1.966 | 1.00 |
| 331_L | 469_D | 1.961 | 1.00 |
| 386_S | 389_G | 1.942 | 1.00 |
| 464_L | 470_W | 1.931 | 1.00 |
| 164_F | 500_A | 1.929 | 1.00 |
| 59_T | 62_T | 1.925 | 1.00 |
| 320_A | 362_I | 1.895 | 1.00 |
| 334_A | 359_L | 1.876 | 1.00 |
| 333_K | 358_Y | 1.872 | 1.00 |
| 69_P | 85_S | 1.843 | 1.00 |
| 262_D | 266_R | 1.840 | 1.00 |
| 55_P | 58_R | 1.838 | 1.00 |
| 83_V | 92_C | 1.838 | 1.00 |
| 320_A | 324_L | 1.818 | 1.00 |
| 154_D | 190_R | 1.814 | 1.00 |
| 363_V | 457_M | 1.810 | 1.00 |
| 323_N | 369_L | 1.794 | 1.00 |
| 48_H | 51_L | 1.748 | 1.00 |
| 46_I | 50_H | 1.743 | 1.00 |
| 74_R | 79_L | 1.739 | 1.00 |
| 131_L | 301_L | 1.717 | 1.00 |
| 259_G | 263_E | 1.713 | 1.00 |
| 327_H | 330_V | 1.713 | 1.00 |
| 323_N | 327_H | 1.707 | 1.00 |
| 164_F | 468_F | 1.705 | 1.00 |
| 180_V | 317_I | 1.702 | 1.00 |
| 88_A | 388_S | 1.699 | 1.00 |
| 85_S | 88_A | 1.692 | 1.00 |
| 403_W | 407_R | 1.685 | 1.00 |
| 258_Q | 295_D | 1.683 | 1.00 |
| 446_A | 450_T | 1.658 | 1.00 |
| 81_V | 396_T | 1.657 | 1.00 |
| 409_P | 416_T | 1.642 | 1.00 |
| 59_T | 63_L | 1.637 | 1.00 |
| 409_P | 415_P | 1.635 | 1.00 |
| 349_E | 352_D | 1.626 | 1.00 |
| 332_K | 335_R | 1.618 | 1.00 |
| 155_E | 190_R | 1.615 | 1.00 |
| 62_T | 66_K | 1.613 | 1.00 |
| 361_C | 421_E | 1.610 | 1.00 |
| 213_A | 217_E | 1.606 | 1.00 |
| 39_S | 67_Y | 1.604 | 1.00 |
| 210_T | 252_R | 1.590 | 1.00 |
| 294_T | 297_I | 1.571 | 1.00 |
| 317_I | 460_M | 1.568 | 1.00 |
| 255_A | 259_G | 1.563 | 1.00 |
| 369_L | 407_R | 1.558 | 1.00 |
| 248_K | 252_R | 1.557 | 1.00 |
| 362_I | 418_F | 1.550 | 1.00 |
| 87_E | 388_S | 1.537 | 1.00 |
| 360_R | 364_L | 1.527 | 1.00 |
| 263_E | 267_G | 1.517 | 1.00 |
| 338_I | 462_G | 1.513 | 1.00 |
| 89_A | 405_I | 1.508 | 1.00 |
| 25_K | 29_K | 1.505 | 1.00 |
| 153_R | 463_T | 1.505 | 1.00 |
| 251_A | 255_A | 1.498 | 1.00 |
| 362_I | 366_T | 1.479 | 1.00 |
| 155_E | 158_R | 1.478 | 1.00 |
| 321_M | 464_L | 1.476 | 1.00 |
| 262_D | 265_R | 1.468 | 1.00 |
| 62_T | 65_Q | 1.467 | 1.00 |
| 330_V | 362_I | 1.446 | 1.00 |
| 69_P | 410_T | 1.435 | 1.00 |
| 481_N | 491_A | 1.420 | 1.00 |
| 24_I | 28_L | 1.418 | 1.00 |
| 173_K | 495_E | 1.415 | 1.00 |
| 266_R | 270_S | 1.412 | 1.00 |
| 217_E | 245_R | 1.403 | 0.99 |
| 380_K | 395_D | 1.399 | 0.99 |
| 173_K | 473_I | 1.397 | 0.99 |
| 110_H | 115_N | 1.395 | 0.99 |
| 325_L | 331_L | 1.384 | 0.99 |
| 470_W | 498_C | 1.381 | 0.99 |
| 44_P | 47_G | 1.374 | 0.99 |
| 358_Y | 421_E | 1.374 | 0.99 |
| 335_R | 465_I | 1.371 | 0.99 |
| 175_E | 178_P | 1.357 | 0.99 |
| 71_L | 82_V | 1.352 | 0.99 |
| 280_A | 284_K | 1.352 | 0.99 |
| 126_D | 130_K | 1.328 | 0.99 |
| 188_T | 309_G | 1.317 | 0.99 |
| 90_E | 94_T | 1.313 | 0.99 |
| 406_H | 439_A | 1.313 | 0.99 |
| 191_M | 452_M | 1.310 | 0.99 |
| 163_I | 179_L | 1.308 | 0.99 |
| 43_I | 50_H | 1.306 | 0.99 |
| 153_R | 157_R | 1.304 | 0.99 |
| 263_E | 266_R | 1.298 | 0.99 |
| 156_V | 183_L | 1.295 | 0.99 |
| 384_D | 393_P | 1.293 | 0.99 |
| 277_C | 280_A | 1.291 | 0.99 |
| 341_Q | 356_L | 1.286 | 0.99 |
| 337_E | 356_L | 1.284 | 0.99 |
| 244_K | 248_K | 1.271 | 0.99 |
| 126_D | 129_R | 1.268 | 0.99 |
| 83_V | 88_A | 1.268 | 0.99 |
| 37_P | 81_V | 1.264 | 0.99 |
| 195_K | 263_E | 1.264 | 0.99 |
| 233_I | 238_D | 1.261 | 0.99 |
| 323_N | 366_T | 1.249 | 0.99 |
| 316_T | 372_A | 1.246 | 0.98 |
| 61_Q | 404_A | 1.244 | 0.98 |
| 364_L | 437_M | 1.244 | 0.98 |
| 321_M | 496_A | 1.242 | 0.98 |
| 198_Y | 201_E | 1.239 | 0.98 |
| 157_R | 347_L | 1.235 | 0.98 |
| 65_Q | 409_P | 1.228 | 0.98 |
| 383_A | 394_R | 1.228 | 0.98 |
| 324_L | 334_A | 1.225 | 0.98 |
| 260_L | 263_E | 1.222 | 0.98 |
| 427_N | 430_G | 1.220 | 0.98 |
| 409_P | 413_E | 1.219 | 0.98 |
| 413_E | 419_R | 1.217 | 0.98 |
| 324_L | 330_V | 1.217 | 0.98 |
| 156_V | 160_V | 1.214 | 0.98 |
| 241_G | 245_R | 1.213 | 0.98 |
| 254_D | 258_Q | 1.213 | 0.98 |
| 339_E | 466_Q | 1.210 | 0.98 |
| 207_E | 210_T | 1.210 | 0.98 |
| 162_K | 166_V | 1.202 | 0.98 |
| 333_K | 336_A | 1.192 | 0.98 |
| 250_I | 254_D | 1.189 | 0.98 |
| 27_L | 30_F | 1.186 | 0.98 |
| 162_K | 179_L | 1.180 | 0.98 |
| 254_D | 299_K | 1.178 | 0.98 |
| 157_R | 161_K | 1.177 | 0.98 |
| 190_R | 196_R | 1.175 | 0.98 |
| 96_N | 385_C | 1.172 | 0.98 |
| 364_L | 454_H | 1.172 | 0.98 |
| 173_K | 497_L | 1.169 | 0.97 |
| 160_V | 463_T | 1.167 | 0.97 |
| 161_K | 164_F | 1.157 | 0.97 |
| 338_I | 359_L | 1.156 | 0.97 |
| 338_I | 356_L | 1.155 | 0.97 |
| 406_H | 437_M | 1.153 | 0.97 |
| 330_V | 421_E | 1.147 | 0.97 |
| 285_L | 288_T | 1.146 | 0.97 |
| 96_N | 99_I | 1.134 | 0.97 |
| 453_A | 457_M | 1.133 | 0.97 |
| 102_N | 382_S | 1.129 | 0.97 |
| 89_A | 400_V | 1.126 | 0.97 |
| 155_E | 186_N | 1.121 | 0.97 |
| 207_E | 211_F | 1.120 | 0.96 |
| 42_S | 48_H | 1.115 | 0.96 |
| 21_L | 25_K | 1.114 | 0.96 |
| 81_V | 392_I | 1.114 | 0.96 |
| 367_L | 439_A | 1.114 | 0.96 |
| 70_V | 88_A | 1.113 | 0.96 |
| 322_S | 326_N | 1.113 | 0.96 |
| 352_D | 355_K | 1.111 | 0.96 |
| 463_T | 466_Q | 1.108 | 0.96 |
| 101_A | 382_S | 1.108 | 0.96 |
| 473_I | 497_L | 1.105 | 0.96 |
| 158_R | 161_K | 1.104 | 0.96 |
| 39_S | 48_H | 1.099 | 0.96 |
| 211_F | 215_V | 1.095 | 0.96 |
| 366_T | 418_F | 1.093 | 0.96 |
| 189_M | 197_Y | 1.085 | 0.96 |
| 183_L | 187_I | 1.084 | 0.96 |
| 185_M | 310_S | 1.084 | 0.96 |
| 25_K | 28_L | 1.079 | 0.95 |
| 156_V | 459_L | 1.079 | 0.95 |
| 177_K | 318_E | 1.074 | 0.95 |
| 325_L | 470_W | 1.074 | 0.95 |
| 130_K | 297_I | 1.073 | 0.95 |
| 84_T | 401_N | 1.071 | 0.95 |
| 91_E | 388_S | 1.071 | 0.95 |
| 159_A | 183_L | 1.067 | 0.95 |
| 98_V | 383_A | 1.060 | 0.95 |
| 334_A | 358_Y | 1.056 | 0.95 |
| 335_R | 501_R | 1.055 | 0.95 |
| 329_S | 333_K | 1.052 | 0.95 |
| 144_R | 147_A | 1.050 | 0.94 |
| 433_N | 436_L | 1.049 | 0.94 |
| 142_S | 146_N | 1.049 | 0.94 |
| 162_K | 165_E | 1.047 | 0.94 |
| 145_L | 455_R | 1.047 | 0.94 |
| 208_A | 211_F | 1.046 | 0.94 |
| 229_D | 232_P | 1.042 | 0.94 |
| 339_E | 501_R | 1.041 | 0.94 |
| 353_L | 458_G | 1.034 | 0.94 |
| 163_I | 498_C | 1.032 | 0.94 |
| 329_S | 332_K | 1.030 | 0.94 |
| 23_I | 27_L | 1.027 | 0.94 |
| 160_V | 467_C | 1.025 | 0.93 |
| 450_T | 454_H | 1.021 | 0.93 |
| 213_A | 216_H | 1.019 | 0.93 |
| 254_D | 296_D | 1.018 | 0.93 |
| 160_V | 468_F | 1.017 | 0.93 |
| 235_K | 238_D | 1.015 | 0.93 |
| 46_I | 49_L | 1.015 | 0.93 |
| 321_M | 465_I | 1.012 | 0.93 |
| 320_A | 363_V | 1.012 | 0.93 |
| 22_A | 26_Y | 1.012 | 0.93 |
| 151_I | 190_R | 1.006 | 0.93 |
| 380_K | 397_I | 1.006 | 0.93 |
| 317_I | 457_M | 1.006 | 0.93 |
| 212_Q | 216_H | 1.002 | 0.92 |
| 176_F | 321_M | 1.001 | 0.92 |
| 325_L | 496_A | 1.001 | 0.92 |
| 99_I | 385_C | 1.000 | 0.92 |
| 228_A | 232_P | 1.000 | 0.92 |
| 357_S | 361_C | 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 | |
| 4r21A | 2 | 0.8268 | 100 | 0.18 | Contact Map |
| 4lxjA | 1 | 0.9587 | 100 | 0.187 | Contact Map |
| 2hi4A | 1 | 0.9134 | 100 | 0.189 | Contact Map |
| 3pm0A | 1 | 0.876 | 100 | 0.189 | Contact Map |
| 3tbgA | 4 | 0.8937 | 100 | 0.193 | Contact Map |
| 1r9oA | 1 | 0.874 | 100 | 0.198 | Contact Map |
| 3nxuA | 2 | 0.8957 | 100 | 0.199 | Contact Map |
| 3e6iA | 2 | 0.8878 | 100 | 0.202 | Contact Map |
| 1po5A | 1 | 0.8937 | 100 | 0.203 | Contact Map |
| 2fdvA | 4 | 0.8976 | 100 | 0.205 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)