| MELO3C022375-180 |
| ID: | 1434063491 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 508 (493) | ||
| Sequences: | 34235 (26628.2) | ||
| Seq/Len: | 69.442 | ||
| Nf(neff/√len): | 1199.3 |
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: 69.442).
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 |
| 355_N | 418_E | 3.937 | 1.00 |
| 408_D | 411_S | 3.923 | 1.00 |
| 408_D | 413_K | 3.577 | 1.00 |
| 466_E | 496_R | 3.090 | 1.00 |
| 260_R | 289_D | 3.023 | 1.00 |
| 314_A | 458_L | 2.953 | 1.00 |
| 324_A | 352_Y | 2.925 | 1.00 |
| 468_K | 496_R | 2.899 | 1.00 |
| 317_N | 364_Y | 2.867 | 1.00 |
| 314_A | 360_T | 2.821 | 1.00 |
| 327_K | 415_E | 2.661 | 1.00 |
| 326_K | 330_E | 2.655 | 1.00 |
| 330_E | 334_T | 2.646 | 1.00 |
| 401_R | 410_T | 2.642 | 1.00 |
| 380_S | 385_H | 2.612 | 1.00 |
| 378_S | 388_A | 2.602 | 1.00 |
| 98_F | 379_C | 2.595 | 1.00 |
| 378_S | 385_H | 2.583 | 1.00 |
| 310_T | 454_V | 2.543 | 1.00 |
| 328_V | 356_V | 2.532 | 1.00 |
| 97_V | 377_S | 2.505 | 1.00 |
| 354_Q | 455_G | 2.458 | 1.00 |
| 468_K | 494_L | 2.429 | 1.00 |
| 59_H | 63_Q | 2.403 | 1.00 |
| 387_P | 390_T | 2.386 | 1.00 |
| 155_S | 460_S | 2.350 | 1.00 |
| 181_L | 457_T | 2.332 | 1.00 |
| 253_Q | 293_K | 2.279 | 1.00 |
| 259_H | 271_T | 2.266 | 1.00 |
| 329_K | 333_D | 2.247 | 1.00 |
| 162_N | 464_S | 2.189 | 1.00 |
| 41_L | 44_L | 2.181 | 1.00 |
| 70_T | 77_L | 2.134 | 1.00 |
| 257_D | 289_D | 2.124 | 1.00 |
| 178_F | 315_M | 2.116 | 1.00 |
| 329_K | 466_E | 2.115 | 1.00 |
| 328_V | 462_I | 2.093 | 1.00 |
| 326_K | 466_E | 2.085 | 1.00 |
| 162_N | 497_A | 2.064 | 1.00 |
| 253_Q | 257_D | 2.061 | 1.00 |
| 340_R | 346_D | 2.056 | 1.00 |
| 375_S | 386_I | 2.041 | 1.00 |
| 68_I | 81_V | 2.028 | 1.00 |
| 325_L | 329_K | 2.023 | 1.00 |
| 325_L | 466_E | 1.977 | 1.00 |
| 57_T | 60_T | 1.961 | 1.00 |
| 461_L | 467_W | 1.910 | 1.00 |
| 67_P | 83_S | 1.907 | 1.00 |
| 327_K | 352_Y | 1.898 | 1.00 |
| 314_A | 356_V | 1.897 | 1.00 |
| 328_V | 353_L | 1.890 | 1.00 |
| 380_S | 383_G | 1.887 | 1.00 |
| 257_D | 261_S | 1.850 | 1.00 |
| 317_N | 363_L | 1.821 | 1.00 |
| 53_P | 56_R | 1.817 | 1.00 |
| 152_E | 188_T | 1.808 | 1.00 |
| 81_V | 90_C | 1.798 | 1.00 |
| 357_I | 454_V | 1.796 | 1.00 |
| 314_A | 318_L | 1.789 | 1.00 |
| 129_L | 295_L | 1.773 | 1.00 |
| 317_N | 321_H | 1.760 | 1.00 |
| 72_R | 77_L | 1.742 | 1.00 |
| 397_W | 401_R | 1.726 | 1.00 |
| 46_H | 49_L | 1.695 | 1.00 |
| 443_A | 447_M | 1.692 | 1.00 |
| 83_S | 86_A | 1.690 | 1.00 |
| 321_H | 324_A | 1.688 | 1.00 |
| 86_A | 382_G | 1.685 | 1.00 |
| 178_F | 311_I | 1.679 | 1.00 |
| 253_Q | 289_D | 1.674 | 1.00 |
| 44_L | 48_H | 1.670 | 1.00 |
| 343_D | 346_D | 1.668 | 1.00 |
| 79_V | 390_T | 1.658 | 1.00 |
| 162_N | 465_F | 1.653 | 1.00 |
| 403_P | 410_T | 1.633 | 1.00 |
| 153_E | 188_T | 1.630 | 1.00 |
| 355_N | 415_E | 1.620 | 1.00 |
| 254_N | 258_E | 1.611 | 1.00 |
| 311_I | 457_T | 1.598 | 1.00 |
| 250_W | 254_N | 1.595 | 1.00 |
| 208_K | 247_D | 1.593 | 1.00 |
| 326_K | 329_K | 1.592 | 1.00 |
| 60_T | 64_K | 1.586 | 1.00 |
| 57_T | 61_L | 1.585 | 1.00 |
| 354_Q | 358_S | 1.580 | 1.00 |
| 363_L | 401_R | 1.579 | 1.00 |
| 403_P | 409_S | 1.567 | 1.00 |
| 356_V | 412_F | 1.565 | 1.00 |
| 288_T | 291_I | 1.558 | 1.00 |
| 356_V | 360_T | 1.537 | 1.00 |
| 87_A | 399_I | 1.524 | 1.00 |
| 85_S | 382_G | 1.520 | 1.00 |
| 37_S | 65_Y | 1.504 | 1.00 |
| 243_S | 247_D | 1.502 | 1.00 |
| 151_K | 460_S | 1.500 | 1.00 |
| 258_E | 262_N | 1.499 | 1.00 |
| 153_E | 156_I | 1.496 | 1.00 |
| 329_K | 498_R | 1.492 | 1.00 |
| 315_M | 461_L | 1.491 | 1.00 |
| 478_T | 488_V | 1.481 | 1.00 |
| 257_D | 260_R | 1.473 | 1.00 |
| 60_T | 63_Q | 1.471 | 1.00 |
| 211_E | 215_R | 1.470 | 1.00 |
| 67_P | 404_K | 1.469 | 1.00 |
| 332_L | 459_G | 1.456 | 1.00 |
| 261_S | 265_E | 1.455 | 1.00 |
| 171_K | 492_E | 1.440 | 1.00 |
| 374_L | 389_D | 1.423 | 1.00 |
| 171_K | 470_V | 1.421 | 1.00 |
| 173_K | 176_S | 1.417 | 1.00 |
| 324_A | 356_V | 1.411 | 1.00 |
| 467_W | 495_C | 1.404 | 0.99 |
| 377_S | 388_A | 1.401 | 0.99 |
| 246_K | 250_W | 1.396 | 0.99 |
| 329_K | 462_I | 1.394 | 0.99 |
| 274_S | 278_R | 1.381 | 0.99 |
| 205_E | 208_K | 1.380 | 0.99 |
| 186_I | 303_A | 1.365 | 0.99 |
| 124_D | 128_N | 1.341 | 0.99 |
| 352_Y | 415_E | 1.340 | 0.99 |
| 189_M | 449_M | 1.338 | 0.99 |
| 378_S | 387_P | 1.334 | 0.99 |
| 319_L | 325_L | 1.334 | 0.99 |
| 255_L | 258_E | 1.330 | 0.99 |
| 161_L | 177_L | 1.330 | 0.99 |
| 151_K | 155_S | 1.311 | 0.99 |
| 88_E | 92_T | 1.304 | 0.99 |
| 317_N | 360_T | 1.295 | 0.99 |
| 400_Q | 436_P | 1.293 | 0.99 |
| 333_D | 498_R | 1.291 | 0.99 |
| 69_F | 80_V | 1.287 | 0.99 |
| 41_L | 48_H | 1.280 | 0.99 |
| 124_D | 127_R | 1.273 | 0.99 |
| 35_P | 79_V | 1.273 | 0.99 |
| 196_Y | 199_E | 1.269 | 0.99 |
| 318_L | 328_V | 1.268 | 0.99 |
| 193_K | 258_E | 1.267 | 0.99 |
| 154_I | 181_L | 1.266 | 0.99 |
| 310_T | 366_P | 1.262 | 0.99 |
| 263_E | 278_R | 1.260 | 0.99 |
| 207_K | 211_E | 1.260 | 0.99 |
| 333_D | 463_Q | 1.259 | 0.99 |
| 331_E | 350_L | 1.259 | 0.99 |
| 81_V | 86_A | 1.254 | 0.99 |
| 204_E | 208_K | 1.250 | 0.99 |
| 249_D | 253_Q | 1.247 | 0.99 |
| 42_P | 45_G | 1.245 | 0.98 |
| 315_M | 493_A | 1.245 | 0.98 |
| 59_H | 398_A | 1.241 | 0.98 |
| 335_Q | 350_L | 1.241 | 0.98 |
| 155_S | 341_I | 1.238 | 0.98 |
| 18_S | 22_I | 1.236 | 0.98 |
| 407_E | 413_K | 1.235 | 0.98 |
| 245_G | 249_D | 1.234 | 0.98 |
| 139_S | 142_R | 1.232 | 0.98 |
| 358_S | 434_F | 1.231 | 0.98 |
| 327_K | 330_E | 1.225 | 0.98 |
| 258_E | 261_S | 1.219 | 0.98 |
| 20_F | 24_K | 1.217 | 0.98 |
| 160_K | 164_V | 1.217 | 0.98 |
| 159_K | 162_N | 1.211 | 0.98 |
| 236_Q | 240_R | 1.209 | 0.98 |
| 271_T | 274_S | 1.203 | 0.98 |
| 188_T | 194_R | 1.192 | 0.98 |
| 155_S | 159_K | 1.191 | 0.98 |
| 403_P | 407_E | 1.189 | 0.98 |
| 63_Q | 403_P | 1.189 | 0.98 |
| 158_I | 460_S | 1.186 | 0.98 |
| 22_I | 26_K | 1.179 | 0.98 |
| 358_S | 451_N | 1.175 | 0.98 |
| 160_K | 177_L | 1.174 | 0.98 |
| 239_K | 243_S | 1.170 | 0.97 |
| 420_D | 423_R | 1.169 | 0.97 |
| 332_L | 353_L | 1.166 | 0.97 |
| 171_K | 494_L | 1.164 | 0.97 |
| 100_N | 376_S | 1.160 | 0.97 |
| 400_Q | 434_F | 1.153 | 0.97 |
| 332_L | 350_L | 1.153 | 0.97 |
| 470_V | 494_L | 1.147 | 0.97 |
| 154_I | 158_I | 1.146 | 0.97 |
| 318_L | 324_A | 1.144 | 0.97 |
| 99_A | 376_S | 1.140 | 0.97 |
| 37_S | 46_H | 1.140 | 0.97 |
| 40_P | 46_H | 1.139 | 0.97 |
| 21_F | 25_S | 1.135 | 0.97 |
| 324_A | 415_E | 1.131 | 0.97 |
| 316_S | 320_N | 1.129 | 0.97 |
| 460_S | 463_Q | 1.126 | 0.97 |
| 450_A | 454_V | 1.126 | 0.97 |
| 183_F | 304_T | 1.117 | 0.96 |
| 94_N | 379_C | 1.117 | 0.96 |
| 153_E | 184_N | 1.110 | 0.96 |
| 87_A | 394_V | 1.110 | 0.96 |
| 79_V | 386_I | 1.109 | 0.96 |
| 175_K | 312_E | 1.107 | 0.96 |
| 346_D | 349_N | 1.106 | 0.96 |
| 210_R | 214_E | 1.102 | 0.96 |
| 249_D | 293_K | 1.096 | 0.96 |
| 142_R | 145_M | 1.091 | 0.96 |
| 17_I | 21_F | 1.090 | 0.96 |
| 68_I | 86_A | 1.086 | 0.96 |
| 361_L | 436_P | 1.083 | 0.96 |
| 328_V | 352_Y | 1.083 | 0.96 |
| 181_L | 185_M | 1.076 | 0.95 |
| 360_T | 412_F | 1.076 | 0.95 |
| 261_S | 264_E | 1.072 | 0.95 |
| 157_L | 181_L | 1.071 | 0.95 |
| 207_K | 210_R | 1.071 | 0.95 |
| 158_I | 464_S | 1.068 | 0.95 |
| 94_N | 97_V | 1.067 | 0.95 |
| 19_I | 23_R | 1.065 | 0.95 |
| 279_L | 282_T | 1.057 | 0.95 |
| 447_M | 451_N | 1.056 | 0.95 |
| 347_I | 455_G | 1.053 | 0.95 |
| 187_M | 195_Y | 1.053 | 0.95 |
| 156_I | 159_K | 1.052 | 0.95 |
| 319_L | 467_W | 1.050 | 0.94 |
| 154_I | 456_L | 1.049 | 0.94 |
| 323_E | 327_K | 1.049 | 0.94 |
| 160_K | 163_R | 1.046 | 0.94 |
| 128_N | 291_I | 1.044 | 0.94 |
| 374_L | 391_I | 1.043 | 0.94 |
| 229_F | 234_D | 1.035 | 0.94 |
| 211_E | 214_E | 1.034 | 0.94 |
| 259_H | 274_S | 1.033 | 0.94 |
| 161_L | 495_C | 1.033 | 0.94 |
| 249_D | 290_E | 1.031 | 0.94 |
| 143_L | 452_R | 1.031 | 0.94 |
| 153_E | 194_R | 1.030 | 0.94 |
| 351_P | 355_N | 1.028 | 0.94 |
| 121_P | 125_H | 1.027 | 0.94 |
| 260_R | 280_Q | 1.026 | 0.94 |
| 141_I | 144_N | 1.025 | 0.93 |
| 82_S | 395_N | 1.022 | 0.93 |
| 213_M | 217_F | 1.021 | 0.93 |
| 97_V | 379_C | 1.020 | 0.93 |
| 96_I | 377_S | 1.012 | 0.93 |
| 159_K | 163_R | 1.008 | 0.93 |
| 62_S | 82_S | 1.005 | 0.93 |
| 61_L | 69_F | 1.004 | 0.93 |
| 323_E | 326_K | 1.002 | 0.92 |
| 117_L | 121_P | 1.002 | 0.92 |
| 240_R | 244_L | 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 | |
| 2hi4A | 1 | 0.9173 | 100 | 0.183 | Contact Map |
| 4r21A | 2 | 0.8228 | 100 | 0.186 | Contact Map |
| 3tbgA | 4 | 0.8957 | 100 | 0.186 | Contact Map |
| 4lxjA | 1 | 0.9705 | 100 | 0.186 | Contact Map |
| 3pm0A | 1 | 0.878 | 100 | 0.186 | Contact Map |
| 1r9oA | 1 | 0.878 | 100 | 0.197 | Contact Map |
| 3nxuA | 2 | 0.8917 | 100 | 0.198 | Contact Map |
| 3k9vA | 2 | 0.8957 | 100 | 0.199 | Contact Map |
| 3qz1A | 4 | 0.8602 | 100 | 0.201 | Contact Map |
| 3e6iA | 2 | 0.8917 | 100 | 0.201 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)