| tgac c term1 |
| ID: | 1506634845 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 527 (521) | ||
| Sequences: | 10315 (8014.1) | ||
| Seq/Len: | 19.798 | ||
| Nf(neff/√len): | 351.1 |
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: 19.798).
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 |
| 230_A | 380_P | 3.671 | 1.00 |
| 261_A | 361_A | 3.077 | 1.00 |
| 26_R | 30_A | 2.843 | 1.00 |
| 27_L | 34_A | 2.797 | 1.00 |
| 102_A | 245_V | 2.754 | 1.00 |
| 182_H | 266_S | 2.709 | 1.00 |
| 3_E | 250_S | 2.674 | 1.00 |
| 181_L | 357_V | 2.671 | 1.00 |
| 158_S | 167_S | 2.647 | 1.00 |
| 248_R | 251_D | 2.644 | 1.00 |
| 222_D | 233_D | 2.642 | 1.00 |
| 228_F | 308_A | 2.615 | 1.00 |
| 247_K | 257_D | 2.593 | 1.00 |
| 19_D | 23_A | 2.589 | 1.00 |
| 227_S | 343_S | 2.584 | 1.00 |
| 260_L | 365_R | 2.579 | 1.00 |
| 24_L | 341_I | 2.545 | 1.00 |
| 98_T | 241_A | 2.541 | 1.00 |
| 286_E | 326_A | 2.510 | 1.00 |
| 368_T | 395_A | 2.506 | 1.00 |
| 369_V | 392_P | 2.499 | 1.00 |
| 117_Q | 194_D | 2.498 | 1.00 |
| 465_D | 505_D | 2.491 | 1.00 |
| 230_A | 377_A | 2.485 | 1.00 |
| 4_P | 264_R | 2.482 | 1.00 |
| 461_R | 505_D | 2.459 | 1.00 |
| 302_H | 403_L | 2.417 | 1.00 |
| 403_L | 421_E | 2.411 | 1.00 |
| 124_M | 153_A | 2.375 | 1.00 |
| 80_V | 88_M | 2.348 | 1.00 |
| 264_R | 421_E | 2.307 | 1.00 |
| 37_E | 63_R | 2.287 | 1.00 |
| 20_D | 23_A | 2.284 | 1.00 |
| 69_D | 72_R | 2.265 | 1.00 |
| 99_A | 197_L | 2.263 | 1.00 |
| 363_A | 370_P | 2.247 | 1.00 |
| 251_D | 254_A | 2.247 | 1.00 |
| 29_L | 368_T | 2.232 | 1.00 |
| 121_F | 187_S | 2.197 | 1.00 |
| 360_A | 404_A | 2.171 | 1.00 |
| 242_G | 354_L | 2.168 | 1.00 |
| 494_A | 500_L | 2.145 | 1.00 |
| 187_S | 193_C | 2.116 | 1.00 |
| 247_K | 255_A | 2.078 | 1.00 |
| 341_I | 355_A | 2.071 | 1.00 |
| 368_T | 397_A | 2.037 | 1.00 |
| 50_D | 55_A | 2.034 | 1.00 |
| 117_Q | 291_R | 2.021 | 1.00 |
| 443_L | 500_L | 2.005 | 1.00 |
| 390_E | 396_R | 2.004 | 1.00 |
| 186_Q | 190_A | 2.002 | 1.00 |
| 172_T | 175_S | 2.000 | 1.00 |
| 7_I | 357_V | 1.987 | 1.00 |
| 33_D | 224_R | 1.962 | 1.00 |
| 495_R | 499_A | 1.954 | 1.00 |
| 321_A | 338_V | 1.953 | 1.00 |
| 231_A | 376_E | 1.945 | 1.00 |
| 244_L | 357_V | 1.944 | 1.00 |
| 371_A | 395_A | 1.941 | 1.00 |
| 238_S | 348_T | 1.924 | 1.00 |
| 497_R | 501_L | 1.920 | 1.00 |
| 7_I | 361_A | 1.895 | 1.00 |
| 154_S | 169_T | 1.893 | 1.00 |
| 383_P | 386_A | 1.886 | 1.00 |
| 14_F | 355_A | 1.884 | 1.00 |
| 337_V | 390_E | 1.883 | 1.00 |
| 185_C | 263_V | 1.878 | 1.00 |
| 474_D | 477_C | 1.874 | 1.00 |
| 266_S | 418_V | 1.859 | 1.00 |
| 95_L | 122_V | 1.847 | 1.00 |
| 11_G | 98_T | 1.839 | 1.00 |
| 55_A | 58_K | 1.839 | 1.00 |
| 114_R | 162_G | 1.838 | 1.00 |
| 267_A | 292_A | 1.819 | 1.00 |
| 443_L | 494_A | 1.815 | 1.00 |
| 343_S | 373_L | 1.813 | 1.00 |
| 222_D | 226_K | 1.813 | 1.00 |
| 44_D | 47_A | 1.805 | 1.00 |
| 465_D | 501_L | 1.804 | 1.00 |
| 179_V | 416_A | 1.792 | 1.00 |
| 372_N | 375_A | 1.785 | 1.00 |
| 105_Q | 260_L | 1.781 | 1.00 |
| 456_Q | 459_K | 1.778 | 1.00 |
| 229_S | 375_A | 1.739 | 1.00 |
| 3_E | 6_A | 1.736 | 1.00 |
| 343_S | 372_N | 1.735 | 1.00 |
| 305_Y | 369_V | 1.729 | 1.00 |
| 337_V | 392_P | 1.726 | 1.00 |
| 367_R | 402_R | 1.704 | 1.00 |
| 18_A | 27_L | 1.685 | 1.00 |
| 456_Q | 460_L | 1.674 | 1.00 |
| 402_R | 422_R | 1.671 | 1.00 |
| 164_H | 287_A | 1.660 | 1.00 |
| 478_S | 482_T | 1.654 | 1.00 |
| 95_L | 157_L | 1.651 | 1.00 |
| 337_V | 396_R | 1.648 | 1.00 |
| 229_S | 376_E | 1.609 | 1.00 |
| 460_L | 479_L | 1.608 | 1.00 |
| 398_W | 402_R | 1.604 | 1.00 |
| 242_G | 358_L | 1.593 | 1.00 |
| 179_V | 414_T | 1.589 | 1.00 |
| 9_G | 105_Q | 1.583 | 1.00 |
| 400_D | 422_R | 1.576 | 1.00 |
| 22_E | 105_Q | 1.567 | 1.00 |
| 181_L | 418_V | 1.562 | 1.00 |
| 155_G | 412_S | 1.561 | 1.00 |
| 23_A | 26_R | 1.558 | 1.00 |
| 244_L | 354_L | 1.554 | 1.00 |
| 496_D | 499_A | 1.551 | 1.00 |
| 27_L | 32_T | 1.551 | 1.00 |
| 220_A | 226_K | 1.546 | 1.00 |
| 490_A | 507_L | 1.542 | 1.00 |
| 444_V | 480_A | 1.542 | 1.00 |
| 357_V | 420_L | 1.534 | 1.00 |
| 345_L | 355_A | 1.533 | 1.00 |
| 474_D | 478_S | 1.527 | 1.00 |
| 182_H | 192_E | 1.523 | 1.00 |
| 14_F | 242_G | 1.521 | 1.00 |
| 461_R | 501_L | 1.521 | 1.00 |
| 306_V | 324_L | 1.520 | 1.00 |
| 152_V | 277_L | 1.512 | 1.00 |
| 35_T | 65_G | 1.510 | 1.00 |
| 12_C | 21_P | 1.507 | 1.00 |
| 360_A | 364_L | 1.505 | 1.00 |
| 299_E | 302_H | 1.504 | 1.00 |
| 463_H | 467_H | 1.503 | 1.00 |
| 111_E | 484_T | 1.502 | 1.00 |
| 99_A | 243_V | 1.502 | 1.00 |
| 221_P | 233_D | 1.497 | 1.00 |
| 29_L | 395_A | 1.491 | 1.00 |
| 448_R | 486_F | 1.489 | 1.00 |
| 253_L | 423_A | 1.481 | 1.00 |
| 186_Q | 295_L | 1.480 | 1.00 |
| 197_L | 245_V | 1.477 | 1.00 |
| 447_G | 453_L | 1.475 | 1.00 |
| 461_R | 465_D | 1.473 | 1.00 |
| 288_V | 292_A | 1.471 | 1.00 |
| 36_R | 68_E | 1.470 | 1.00 |
| 181_L | 246_V | 1.468 | 1.00 |
| 181_L | 198_V | 1.464 | 1.00 |
| 33_D | 374_H | 1.455 | 1.00 |
| 305_Y | 360_A | 1.454 | 1.00 |
| 122_V | 199_G | 1.454 | 1.00 |
| 187_S | 192_E | 1.446 | 1.00 |
| 286_E | 290_R | 1.440 | 1.00 |
| 188_L | 248_R | 1.436 | 1.00 |
| 471_A | 474_D | 1.435 | 1.00 |
| 260_L | 361_A | 1.424 | 1.00 |
| 337_V | 369_V | 1.423 | 1.00 |
| 95_L | 243_V | 1.418 | 1.00 |
| 367_R | 422_R | 1.416 | 1.00 |
| 119_G | 166_P | 1.415 | 1.00 |
| 375_A | 391_L | 1.412 | 1.00 |
| 445_L | 457_A | 1.410 | 1.00 |
| 226_K | 231_A | 1.409 | 1.00 |
| 105_Q | 258_S | 1.402 | 0.99 |
| 95_L | 153_A | 1.397 | 0.99 |
| 168_I | 183_L | 1.392 | 0.99 |
| 450_G | 488_R | 1.391 | 0.99 |
| 99_A | 157_L | 1.385 | 0.99 |
| 98_T | 243_V | 1.382 | 0.99 |
| 477_C | 481_G | 1.378 | 0.99 |
| 269_N | 415_N | 1.373 | 0.99 |
| 28_L | 362_L | 1.363 | 0.99 |
| 103_L | 245_V | 1.356 | 0.99 |
| 405_G | 417_H | 1.355 | 0.99 |
| 10_A | 358_L | 1.354 | 0.99 |
| 26_R | 29_L | 1.349 | 0.99 |
| 123_G | 176_S | 1.340 | 0.99 |
| 367_R | 400_D | 1.339 | 0.99 |
| 5_I | 246_V | 1.337 | 0.99 |
| 384_W | 391_L | 1.337 | 0.99 |
| 199_G | 243_V | 1.334 | 0.99 |
| 364_L | 420_L | 1.328 | 0.99 |
| 10_A | 21_P | 1.327 | 0.99 |
| 449_T | 488_R | 1.322 | 0.99 |
| 5_I | 185_C | 1.315 | 0.99 |
| 170_I | 183_L | 1.311 | 0.99 |
| 249_L | 262_V | 1.306 | 0.99 |
| 332_R | 335_P | 1.305 | 0.99 |
| 291_R | 295_L | 1.301 | 0.99 |
| 18_A | 23_A | 1.300 | 0.99 |
| 328_Y | 405_G | 1.299 | 0.99 |
| 325_G | 387_L | 1.296 | 0.99 |
| 186_Q | 189_R | 1.296 | 0.99 |
| 100_W | 104_E | 1.286 | 0.99 |
| 267_A | 288_V | 1.282 | 0.99 |
| 119_G | 193_C | 1.277 | 0.99 |
| 226_K | 233_D | 1.277 | 0.99 |
| 19_D | 68_E | 1.272 | 0.99 |
| 103_L | 161_L | 1.269 | 0.99 |
| 109_V | 112_R | 1.260 | 0.99 |
| 41_D | 71_D | 1.259 | 0.99 |
| 179_V | 268_V | 1.258 | 0.99 |
| 37_E | 62_R | 1.252 | 0.99 |
| 60_T | 214_S | 1.249 | 0.99 |
| 195_T | 245_V | 1.247 | 0.99 |
| 362_L | 366_H | 1.244 | 0.98 |
| 35_T | 63_R | 1.243 | 0.98 |
| 258_S | 365_R | 1.240 | 0.98 |
| 240_G | 348_T | 1.239 | 0.98 |
| 449_T | 452_A | 1.239 | 0.98 |
| 379_H | 382_I | 1.230 | 0.98 |
| 65_G | 238_S | 1.220 | 0.98 |
| 229_S | 377_A | 1.219 | 0.98 |
| 314_R | 381_D | 1.213 | 0.98 |
| 448_R | 487_A | 1.213 | 0.98 |
| 443_L | 472_L | 1.210 | 0.98 |
| 200_S | 354_L | 1.210 | 0.98 |
| 476_A | 479_L | 1.208 | 0.98 |
| 181_L | 263_V | 1.208 | 0.98 |
| 492_V | 503_A | 1.199 | 0.98 |
| 77_F | 100_W | 1.197 | 0.98 |
| 26_R | 32_T | 1.185 | 0.98 |
| 193_C | 196_A | 1.183 | 0.98 |
| 457_A | 490_A | 1.182 | 0.98 |
| 39_P | 42_R | 1.176 | 0.98 |
| 298_V | 302_H | 1.172 | 0.98 |
| 194_D | 251_D | 1.167 | 0.97 |
| 182_H | 186_Q | 1.162 | 0.97 |
| 321_A | 382_I | 1.161 | 0.97 |
| 25_W | 370_P | 1.152 | 0.97 |
| 99_A | 161_L | 1.152 | 0.97 |
| 98_T | 101_E | 1.148 | 0.97 |
| 102_A | 197_L | 1.146 | 0.97 |
| 94_L | 241_A | 1.144 | 0.97 |
| 109_V | 484_T | 1.142 | 0.97 |
| 127_S | 150_G | 1.140 | 0.97 |
| 445_L | 460_L | 1.137 | 0.97 |
| 16_G | 34_A | 1.137 | 0.97 |
| 455_A | 459_K | 1.136 | 0.97 |
| 102_A | 243_V | 1.135 | 0.97 |
| 392_P | 396_R | 1.130 | 0.97 |
| 194_D | 248_R | 1.128 | 0.97 |
| 458_A | 462_A | 1.125 | 0.97 |
| 184_A | 196_A | 1.125 | 0.97 |
| 499_A | 503_A | 1.123 | 0.97 |
| 375_A | 378_P | 1.122 | 0.97 |
| 442_P | 491_A | 1.119 | 0.96 |
| 237_W | 349_Q | 1.117 | 0.96 |
| 275_A | 279_A | 1.115 | 0.96 |
| 298_V | 403_L | 1.112 | 0.96 |
| 443_L | 479_L | 1.111 | 0.96 |
| 155_G | 167_S | 1.109 | 0.96 |
| 378_P | 384_W | 1.103 | 0.96 |
| 265_A | 295_L | 1.095 | 0.96 |
| 122_V | 243_V | 1.090 | 0.96 |
| 378_P | 391_L | 1.088 | 0.96 |
| 470_L | 475_L | 1.079 | 0.95 |
| 501_L | 505_D | 1.079 | 0.95 |
| 11_G | 102_A | 1.077 | 0.95 |
| 103_L | 113_L | 1.073 | 0.95 |
| 197_L | 243_V | 1.073 | 0.95 |
| 268_V | 416_A | 1.070 | 0.95 |
| 441_L | 444_V | 1.069 | 0.95 |
| 118_T | 195_T | 1.066 | 0.95 |
| 455_A | 458_A | 1.062 | 0.95 |
| 13_R | 101_E | 1.059 | 0.95 |
| 14_F | 358_L | 1.054 | 0.95 |
| 121_F | 193_C | 1.047 | 0.94 |
| 124_M | 150_G | 1.046 | 0.94 |
| 77_F | 486_F | 1.045 | 0.94 |
| 279_A | 315_L | 1.044 | 0.94 |
| 31_G | 371_A | 1.041 | 0.94 |
| 303_V | 403_L | 1.038 | 0.94 |
| 360_A | 406_V | 1.033 | 0.94 |
| 125_M | 350_A | 1.025 | 0.93 |
| 293_L | 328_Y | 1.024 | 0.93 |
| 441_L | 473_A | 1.023 | 0.93 |
| 447_G | 452_A | 1.023 | 0.93 |
| 461_R | 508_A | 1.020 | 0.93 |
| 293_L | 303_V | 1.012 | 0.93 |
| 505_D | 509_Q | 1.011 | 0.93 |
| 38_V | 210_F | 1.010 | 0.93 |
| 95_L | 199_G | 1.005 | 0.93 |
| 25_W | 366_H | 1.004 | 0.93 |
| 185_C | 189_R | 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 | |
| 2vz8A | 2 | 0.9526 | 100 | 0.062 | Contact Map |
| 4na1A | 2 | 0.9753 | 100 | 0.074 | Contact Map |
| 4tktA | 1 | 0.9658 | 100 | 0.093 | Contact Map |
| 4kc5A | 4 | 0.9886 | 100 | 0.102 | Contact Map |
| 4zdnA | 1 | 0 | 100 | 0.102 | Contact Map |
| 4opeA | 4 | 0.9829 | 100 | 0.103 | Contact Map |
| 4qyrA | 1 | 0.9583 | 100 | 0.104 | Contact Map |
| 4mz0A | 2 | 0.9772 | 100 | 0.105 | Contact Map |
| 2qo3A | 2 | 0.9791 | 100 | 0.114 | Contact Map |
| 2hg4A | 6 | 0.9545 | 100 | 0.115 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)