| BuA1 |
| ID: | 1515265597 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 583 (544) | ||
| Sequences: | 5140 (3460.7) | ||
| Seq/Len: | 9.449 | ||
| Nf(neff/√len): | 148.4 |
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: 9.449).
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 |
| 332_F | 531_T | 4.741 | 1.00 |
| 20_D | 179_P | 4.580 | 1.00 |
| 126_G | 137_F | 4.496 | 1.00 |
| 125_L | 142_L | 4.104 | 1.00 |
| 274_E | 350_R | 4.053 | 1.00 |
| 104_R | 138_E | 4.035 | 1.00 |
| 24_K | 68_L | 3.722 | 1.00 |
| 117_I | 124_R | 3.720 | 1.00 |
| 250_I | 258_K | 3.507 | 1.00 |
| 109_F | 152_V | 3.488 | 1.00 |
| 112_V | 176_I | 3.452 | 1.00 |
| 221_T | 265_A | 3.412 | 1.00 |
| 121_N | 148_N | 3.396 | 1.00 |
| 319_H | 350_R | 3.285 | 1.00 |
| 120_L | 150_L | 3.173 | 1.00 |
| 94_H | 147_T | 3.135 | 1.00 |
| 103_K | 184_E | 3.098 | 1.00 |
| 223_D | 265_A | 3.050 | 1.00 |
| 250_I | 256_N | 2.991 | 1.00 |
| 315_K | 343_E | 2.957 | 1.00 |
| 120_L | 125_L | 2.947 | 1.00 |
| 224_I | 275_I | 2.843 | 1.00 |
| 112_V | 116_A | 2.813 | 1.00 |
| 395_I | 454_I | 2.730 | 1.00 |
| 385_A | 422_L | 2.684 | 1.00 |
| 105_L | 143_L | 2.633 | 1.00 |
| 253_T | 256_N | 2.581 | 1.00 |
| 265_A | 270_K | 2.573 | 1.00 |
| 92_R | 149_S | 2.520 | 1.00 |
| 225_P | 263_N | 2.478 | 1.00 |
| 384_I | 419_A | 2.467 | 1.00 |
| 22_Q | 68_L | 2.413 | 1.00 |
| 199_K | 251_L | 2.386 | 1.00 |
| 319_H | 323_S | 2.363 | 1.00 |
| 333_V | 353_F | 2.334 | 1.00 |
| 103_K | 186_P | 2.317 | 1.00 |
| 112_V | 154_V | 2.284 | 1.00 |
| 282_T | 427_L | 2.280 | 1.00 |
| 418_K | 422_L | 2.268 | 1.00 |
| 109_F | 112_V | 2.248 | 1.00 |
| 73_G | 78_Q | 2.240 | 1.00 |
| 120_L | 139_I | 2.225 | 1.00 |
| 380_L | 419_A | 2.210 | 1.00 |
| 134_P | 386_R | 2.208 | 1.00 |
| 323_S | 327_E | 2.179 | 1.00 |
| 420_R | 428_I | 2.169 | 1.00 |
| 261_A | 274_E | 2.160 | 1.00 |
| 377_E | 414_N | 2.136 | 1.00 |
| 416_A | 420_R | 2.126 | 1.00 |
| 296_C | 394_I | 2.115 | 1.00 |
| 381_C | 418_K | 2.061 | 1.00 |
| 106_F | 138_E | 2.059 | 1.00 |
| 117_I | 127_R | 2.056 | 1.00 |
| 253_T | 292_K | 2.054 | 1.00 |
| 283_E | 288_L | 2.033 | 1.00 |
| 107_L | 118_V | 2.029 | 1.00 |
| 385_A | 388_K | 2.027 | 1.00 |
| 222_L | 264_L | 2.024 | 1.00 |
| 104_R | 187_A | 2.018 | 1.00 |
| 261_A | 272_S | 1.975 | 1.00 |
| 423_D | 426_R | 1.973 | 1.00 |
| 328_L | 567_A | 1.931 | 1.00 |
| 254_P | 354_L | 1.930 | 1.00 |
| 307_Y | 541_P | 1.926 | 1.00 |
| 194_Y | 388_K | 1.921 | 1.00 |
| 190_I | 209_V | 1.917 | 1.00 |
| 262_V | 275_I | 1.917 | 1.00 |
| 349_E | 390_R | 1.908 | 1.00 |
| 321_L | 562_G | 1.899 | 1.00 |
| 107_L | 139_I | 1.898 | 1.00 |
| 348_A | 355_V | 1.872 | 1.00 |
| 246_K | 249_P | 1.871 | 1.00 |
| 105_L | 184_E | 1.870 | 1.00 |
| 223_D | 263_N | 1.870 | 1.00 |
| 193_Y | 264_L | 1.868 | 1.00 |
| 117_I | 153_K | 1.865 | 1.00 |
| 413_S | 417_N | 1.860 | 1.00 |
| 263_N | 270_K | 1.852 | 1.00 |
| 24_K | 92_R | 1.850 | 1.00 |
| 198_A | 279_T | 1.848 | 1.00 |
| 287_I | 394_I | 1.847 | 1.00 |
| 263_N | 272_S | 1.813 | 1.00 |
| 246_K | 277_F | 1.812 | 1.00 |
| 123_K | 142_L | 1.798 | 1.00 |
| 289_L | 294_I | 1.791 | 1.00 |
| 110_G | 181_T | 1.790 | 1.00 |
| 94_H | 149_S | 1.783 | 1.00 |
| 280_I | 287_I | 1.764 | 1.00 |
| 64_E | 92_R | 1.763 | 1.00 |
| 90_W | 153_K | 1.755 | 1.00 |
| 322_L | 351_M | 1.750 | 1.00 |
| 92_R | 151_V | 1.745 | 1.00 |
| 305_T | 317_H | 1.739 | 1.00 |
| 289_L | 354_L | 1.736 | 1.00 |
| 96_E | 147_T | 1.719 | 1.00 |
| 320_T | 323_S | 1.714 | 1.00 |
| 308_Y | 314_S | 1.703 | 1.00 |
| 18_S | 179_P | 1.684 | 1.00 |
| 322_L | 353_F | 1.679 | 1.00 |
| 279_T | 291_D | 1.675 | 1.00 |
| 357_S | 387_D | 1.671 | 1.00 |
| 534_I | 538_F | 1.668 | 1.00 |
| 97_Y | 143_L | 1.647 | 1.00 |
| 106_F | 185_M | 1.646 | 1.00 |
| 222_L | 262_V | 1.645 | 1.00 |
| 192_D | 388_K | 1.641 | 1.00 |
| 333_V | 344_M | 1.641 | 1.00 |
| 515_I | 519_N | 1.629 | 1.00 |
| 314_S | 317_H | 1.629 | 1.00 |
| 474_V | 524_I | 1.622 | 1.00 |
| 417_N | 421_S | 1.613 | 1.00 |
| 198_A | 206_E | 1.601 | 1.00 |
| 88_T | 153_K | 1.601 | 1.00 |
| 205_I | 275_I | 1.594 | 1.00 |
| 104_R | 141_N | 1.588 | 1.00 |
| 104_R | 189_Y | 1.582 | 1.00 |
| 206_E | 243_F | 1.581 | 1.00 |
| 377_E | 418_K | 1.551 | 1.00 |
| 354_L | 394_I | 1.547 | 1.00 |
| 357_S | 383_M | 1.528 | 1.00 |
| 45_G | 48_Q | 1.523 | 1.00 |
| 128_H | 135_F | 1.517 | 1.00 |
| 254_P | 294_I | 1.516 | 1.00 |
| 90_W | 151_V | 1.509 | 1.00 |
| 191_R | 210_Q | 1.503 | 1.00 |
| 349_E | 392_N | 1.502 | 1.00 |
| 308_Y | 312_A | 1.501 | 1.00 |
| 133_T | 382_D | 1.488 | 1.00 |
| 325_A | 353_F | 1.487 | 1.00 |
| 281_R | 288_L | 1.486 | 1.00 |
| 195_V | 262_V | 1.485 | 1.00 |
| 124_R | 127_R | 1.478 | 1.00 |
| 255_E | 326_K | 1.464 | 1.00 |
| 570_V | 574_W | 1.464 | 1.00 |
| 381_C | 422_L | 1.457 | 1.00 |
| 69_L | 78_Q | 1.451 | 1.00 |
| 70_F | 78_Q | 1.446 | 1.00 |
| 70_F | 73_G | 1.438 | 1.00 |
| 249_P | 277_F | 1.433 | 1.00 |
| 416_A | 428_I | 1.433 | 1.00 |
| 274_E | 346_R | 1.416 | 0.99 |
| 255_E | 294_I | 1.413 | 0.99 |
| 380_L | 415_L | 1.404 | 0.99 |
| 75_W | 89_V | 1.397 | 0.99 |
| 315_K | 319_H | 1.395 | 0.99 |
| 203_N | 277_F | 1.385 | 0.99 |
| 301_I | 340_H | 1.385 | 0.99 |
| 16_T | 181_T | 1.378 | 0.99 |
| 22_Q | 70_F | 1.371 | 0.99 |
| 115_E | 129_I | 1.358 | 0.99 |
| 106_F | 136_N | 1.356 | 0.99 |
| 299_I | 330_C | 1.355 | 0.99 |
| 420_R | 453_D | 1.354 | 0.99 |
| 108_N | 136_N | 1.350 | 0.99 |
| 288_L | 293_E | 1.350 | 0.99 |
| 344_M | 348_A | 1.350 | 0.99 |
| 536_K | 562_G | 1.347 | 0.99 |
| 196_Q | 208_W | 1.345 | 0.99 |
| 128_H | 382_D | 1.343 | 0.99 |
| 340_H | 345_V | 1.332 | 0.99 |
| 197_L | 203_N | 1.330 | 0.99 |
| 116_A | 128_H | 1.327 | 0.99 |
| 328_L | 568_F | 1.320 | 0.99 |
| 255_E | 292_K | 1.316 | 0.99 |
| 347_E | 351_M | 1.314 | 0.99 |
| 323_S | 351_M | 1.309 | 0.99 |
| 188_T | 213_G | 1.308 | 0.99 |
| 325_A | 330_C | 1.307 | 0.99 |
| 534_I | 555_K | 1.306 | 0.99 |
| 104_R | 140_T | 1.301 | 0.99 |
| 102_G | 187_A | 1.295 | 0.99 |
| 541_P | 546_P | 1.294 | 0.99 |
| 108_N | 183_I | 1.293 | 0.99 |
| 378_Q | 382_D | 1.291 | 0.99 |
| 418_K | 421_S | 1.287 | 0.99 |
| 106_F | 189_Y | 1.285 | 0.99 |
| 120_L | 142_L | 1.284 | 0.99 |
| 191_R | 212_E | 1.283 | 0.99 |
| 355_V | 392_N | 1.278 | 0.99 |
| 373_Y | 414_N | 1.278 | 0.99 |
| 108_N | 181_T | 1.264 | 0.98 |
| 485_F | 528_A | 1.261 | 0.98 |
| 59_Q | 65_T | 1.254 | 0.98 |
| 152_V | 176_I | 1.252 | 0.98 |
| 308_Y | 317_H | 1.251 | 0.98 |
| 305_T | 314_S | 1.246 | 0.98 |
| 196_Q | 206_E | 1.244 | 0.98 |
| 224_I | 262_V | 1.240 | 0.98 |
| 17_T | 98_S | 1.233 | 0.98 |
| 125_L | 137_F | 1.229 | 0.98 |
| 200_D | 279_T | 1.220 | 0.98 |
| 285_I | 288_L | 1.216 | 0.98 |
| 318_A | 344_M | 1.214 | 0.98 |
| 190_I | 264_L | 1.213 | 0.98 |
| 326_K | 351_M | 1.211 | 0.98 |
| 98_S | 184_E | 1.202 | 0.98 |
| 25_T | 89_V | 1.201 | 0.98 |
| 324_W | 327_E | 1.199 | 0.98 |
| 15_Q | 103_K | 1.198 | 0.98 |
| 190_I | 266_S | 1.194 | 0.98 |
| 563_Q | 567_A | 1.192 | 0.98 |
| 118_V | 152_V | 1.190 | 0.98 |
| 225_P | 261_A | 1.188 | 0.97 |
| 195_V | 273_D | 1.187 | 0.97 |
| 71_V | 91_Y | 1.186 | 0.97 |
| 202_K | 251_L | 1.177 | 0.97 |
| 205_I | 277_F | 1.174 | 0.97 |
| 322_L | 348_A | 1.172 | 0.97 |
| 112_V | 152_V | 1.170 | 0.97 |
| 572_Q | 575_Y | 1.169 | 0.97 |
| 28_D | 90_W | 1.160 | 0.97 |
| 347_E | 350_R | 1.157 | 0.97 |
| 538_F | 555_K | 1.154 | 0.97 |
| 377_E | 381_C | 1.153 | 0.97 |
| 286_K | 293_E | 1.149 | 0.97 |
| 383_M | 393_I | 1.145 | 0.97 |
| 197_L | 277_F | 1.140 | 0.97 |
| 301_I | 321_L | 1.137 | 0.96 |
| 367_W | 376_A | 1.134 | 0.96 |
| 116_A | 152_V | 1.131 | 0.96 |
| 543_R | 546_P | 1.128 | 0.96 |
| 294_I | 354_L | 1.125 | 0.96 |
| 325_A | 535_L | 1.124 | 0.96 |
| 195_V | 207_G | 1.113 | 0.96 |
| 204_M | 243_F | 1.112 | 0.96 |
| 336_A | 340_H | 1.112 | 0.96 |
| 203_N | 249_P | 1.109 | 0.96 |
| 88_T | 155_D | 1.101 | 0.96 |
| 280_I | 394_I | 1.099 | 0.96 |
| 226_E | 229_V | 1.096 | 0.95 |
| 129_I | 375_N | 1.094 | 0.95 |
| 357_S | 386_R | 1.093 | 0.95 |
| 398_I | 419_A | 1.083 | 0.95 |
| 429_G | 456_S | 1.082 | 0.95 |
| 345_V | 355_V | 1.077 | 0.95 |
| 395_I | 427_L | 1.075 | 0.95 |
| 134_P | 387_D | 1.075 | 0.95 |
| 95_F | 150_L | 1.065 | 0.94 |
| 76_N | 174_G | 1.063 | 0.94 |
| 313_Y | 318_A | 1.060 | 0.94 |
| 498_H | 508_E | 1.059 | 0.94 |
| 381_C | 421_S | 1.057 | 0.94 |
| 281_R | 291_D | 1.056 | 0.94 |
| 259_L | 274_E | 1.055 | 0.94 |
| 207_G | 222_L | 1.051 | 0.94 |
| 190_I | 271_V | 1.050 | 0.94 |
| 115_E | 127_R | 1.048 | 0.94 |
| 195_V | 275_I | 1.046 | 0.94 |
| 532_P | 570_V | 1.041 | 0.94 |
| 139_I | 143_L | 1.036 | 0.93 |
| 345_V | 387_D | 1.035 | 0.93 |
| 359_I | 383_M | 1.022 | 0.93 |
| 119_W | 124_R | 1.022 | 0.93 |
| 319_H | 351_M | 1.021 | 0.93 |
| 320_T | 324_W | 1.021 | 0.93 |
| 381_C | 385_A | 1.020 | 0.93 |
| 322_L | 344_M | 1.020 | 0.93 |
| 287_I | 427_L | 1.016 | 0.92 |
| 188_T | 218_Q | 1.013 | 0.92 |
| 474_V | 478_F | 1.009 | 0.92 |
| 98_S | 105_L | 1.006 | 0.92 |
| 118_V | 150_L | 1.005 | 0.92 |
| 343_E | 346_R | 1.003 | 0.92 |
| 130_G | 360_P | 1.001 | 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 | |
| 1jz7A | 4 | 0.9057 | 100 | 0.271 | Contact Map |
| 1yq2A | 6 | 0.916 | 100 | 0.283 | Contact Map |
| 3fn9A | 4 | 0.9228 | 100 | 0.289 | Contact Map |
| 3cmgA | 1 | 0.9057 | 100 | 0.291 | Contact Map |
| 3obaA | 4 | 0.8954 | 100 | 0.292 | Contact Map |
| 3bgaA | 2 | 0.8937 | 100 | 0.296 | Contact Map |
| 3gm8A | 1 | 0.8748 | 100 | 0.305 | Contact Map |
| 4ypjA | 2 | 0 | 100 | 0.306 | Contact Map |
| 3hn3A | 4 | 0.9434 | 100 | 0.315 | Contact Map |
| 4cu7A | 1 | 0.928 | 100 | 0.324 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)