| aret |
| ID: | 1510856668 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 511 (485) | ||
| Sequences: | 2448 (1459.3) | ||
| Seq/Len: | 5.047 | ||
| Nf(neff/√len): | 66.3 |
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: 5.047).
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 |
| 102_N | 207_A | 5.125 | 1.00 |
| 90_N | 93_E | 4.715 | 1.00 |
| 37_V | 93_E | 3.852 | 1.00 |
| 95_R | 204_I | 3.621 | 1.00 |
| 345_A | 434_F | 3.499 | 1.00 |
| 48_G | 104_V | 3.189 | 1.00 |
| 94_F | 98_V | 3.107 | 1.00 |
| 91_E | 200_K | 2.981 | 1.00 |
| 416_V | 440_G | 2.923 | 1.00 |
| 100_R | 103_N | 2.914 | 1.00 |
| 44_E | 104_V | 2.714 | 1.00 |
| 100_R | 104_V | 2.504 | 1.00 |
| 98_V | 108_I | 2.419 | 1.00 |
| 40_A | 100_R | 2.337 | 1.00 |
| 495_S | 498_A | 2.292 | 1.00 |
| 466_D | 469_S | 2.287 | 1.00 |
| 55_V | 101_C | 2.279 | 1.00 |
| 116_H | 314_H | 2.234 | 1.00 |
| 76_R | 88_S | 2.220 | 1.00 |
| 184_A | 187_K | 2.201 | 1.00 |
| 37_V | 96_D | 2.192 | 1.00 |
| 107_R | 207_A | 2.181 | 1.00 |
| 47_L | 52_F | 2.105 | 1.00 |
| 33_E | 88_S | 2.019 | 1.00 |
| 191_R | 224_A | 2.004 | 1.00 |
| 485_S | 489_T | 1.975 | 1.00 |
| 454_T | 491_Q | 1.963 | 1.00 |
| 96_D | 100_R | 1.960 | 1.00 |
| 210_R | 248_E | 1.957 | 1.00 |
| 94_F | 110_V | 1.949 | 1.00 |
| 173_R | 219_P | 1.932 | 1.00 |
| 37_V | 40_A | 1.926 | 1.00 |
| 101_C | 108_I | 1.890 | 1.00 |
| 435_G | 441_F | 1.885 | 1.00 |
| 210_R | 315_D | 1.880 | 1.00 |
| 44_E | 100_R | 1.866 | 1.00 |
| 311_V | 339_A | 1.858 | 1.00 |
| 62_E | 83_K | 1.851 | 1.00 |
| 43_C | 104_V | 1.815 | 1.00 |
| 435_G | 458_G | 1.799 | 1.00 |
| 95_R | 99_T | 1.787 | 1.00 |
| 466_D | 470_G | 1.784 | 1.00 |
| 212_D | 314_H | 1.781 | 1.00 |
| 273_Y | 277_L | 1.779 | 1.00 |
| 111_D | 210_R | 1.768 | 1.00 |
| 195_A | 228_K | 1.749 | 1.00 |
| 248_E | 315_D | 1.728 | 1.00 |
| 41_L | 45_R | 1.723 | 1.00 |
| 165_S | 168_D | 1.711 | 1.00 |
| 36_W | 84_L | 1.689 | 0.99 |
| 40_A | 96_D | 1.685 | 0.99 |
| 57_V | 94_F | 1.684 | 0.99 |
| 192_S | 196_D | 1.682 | 0.99 |
| 246_F | 308_L | 1.657 | 0.99 |
| 115_N | 182_D | 1.636 | 0.99 |
| 57_V | 60_P | 1.632 | 0.99 |
| 452_S | 493_S | 1.628 | 0.99 |
| 212_D | 248_E | 1.621 | 0.99 |
| 40_A | 44_E | 1.608 | 0.99 |
| 117_M | 151_F | 1.603 | 0.99 |
| 248_E | 314_H | 1.591 | 0.99 |
| 183_L | 190_V | 1.581 | 0.99 |
| 61_N | 79_P | 1.581 | 0.99 |
| 312_D | 357_Y | 1.580 | 0.99 |
| 340_V | 406_I | 1.578 | 0.99 |
| 274_G | 316_N | 1.568 | 0.99 |
| 338_V | 444_F | 1.546 | 0.99 |
| 202_I | 243_P | 1.531 | 0.99 |
| 270_E | 309_V | 1.514 | 0.99 |
| 150_D | 187_K | 1.508 | 0.99 |
| 337_K | 405_Q | 1.500 | 0.99 |
| 113_V | 116_H | 1.498 | 0.99 |
| 92_N | 96_D | 1.489 | 0.98 |
| 117_M | 183_L | 1.483 | 0.98 |
| 418_G | 440_G | 1.479 | 0.98 |
| 98_V | 206_V | 1.472 | 0.98 |
| 281_V | 342_F | 1.466 | 0.98 |
| 404_R | 408_N | 1.464 | 0.98 |
| 163_I | 171_Q | 1.460 | 0.98 |
| 92_N | 95_R | 1.458 | 0.98 |
| 93_E | 96_D | 1.456 | 0.98 |
| 164_E | 171_Q | 1.454 | 0.98 |
| 111_D | 315_D | 1.450 | 0.98 |
| 193_M | 196_D | 1.442 | 0.98 |
| 200_K | 204_I | 1.426 | 0.98 |
| 39_I | 97_M | 1.403 | 0.97 |
| 60_P | 110_V | 1.398 | 0.97 |
| 212_D | 315_D | 1.388 | 0.97 |
| 224_A | 228_K | 1.384 | 0.97 |
| 353_V | 406_I | 1.381 | 0.97 |
| 213_A | 216_H | 1.379 | 0.97 |
| 57_V | 98_V | 1.378 | 0.97 |
| 341_G | 405_Q | 1.378 | 0.97 |
| 276_K | 279_T | 1.378 | 0.97 |
| 39_I | 57_V | 1.378 | 0.97 |
| 74_W | 78_Q | 1.357 | 0.97 |
| 112_A | 198_L | 1.352 | 0.97 |
| 389_A | 393_C | 1.347 | 0.97 |
| 52_F | 353_V | 1.340 | 0.96 |
| 506_H | 509_S | 1.336 | 0.96 |
| 244_F | 267_R | 1.326 | 0.96 |
| 43_C | 101_C | 1.323 | 0.96 |
| 456_Q | 489_T | 1.315 | 0.96 |
| 308_L | 352_R | 1.313 | 0.96 |
| 223_K | 227_D | 1.311 | 0.96 |
| 152_N | 186_E | 1.309 | 0.96 |
| 433_A | 443_V | 1.307 | 0.96 |
| 425_W | 441_F | 1.303 | 0.96 |
| 168_D | 171_Q | 1.303 | 0.96 |
| 188_D | 191_R | 1.296 | 0.95 |
| 288_K | 429_S | 1.295 | 0.95 |
| 341_G | 409_M | 1.291 | 0.95 |
| 116_H | 212_D | 1.289 | 0.95 |
| 156_C | 175_C | 1.278 | 0.95 |
| 63_N | 86_T | 1.278 | 0.95 |
| 133_Y | 138_N | 1.276 | 0.95 |
| 116_H | 248_E | 1.275 | 0.95 |
| 274_G | 278_G | 1.273 | 0.95 |
| 50_K | 407_R | 1.271 | 0.95 |
| 99_T | 103_N | 1.269 | 0.95 |
| 118_C | 181_L | 1.263 | 0.95 |
| 443_V | 494_I | 1.256 | 0.94 |
| 430_N | 447_D | 1.255 | 0.94 |
| 111_D | 248_E | 1.248 | 0.94 |
| 448_D | 497_S | 1.244 | 0.94 |
| 52_F | 410_V | 1.241 | 0.94 |
| 57_V | 110_V | 1.239 | 0.94 |
| 102_N | 107_R | 1.226 | 0.93 |
| 97_M | 101_C | 1.222 | 0.93 |
| 378_N | 381_V | 1.220 | 0.93 |
| 345_A | 442_I | 1.214 | 0.93 |
| 461_G | 485_S | 1.213 | 0.93 |
| 211_I | 214_S | 1.206 | 0.93 |
| 73_W | 78_Q | 1.205 | 0.93 |
| 111_D | 212_D | 1.204 | 0.93 |
| 165_S | 171_Q | 1.204 | 0.93 |
| 206_V | 209_F | 1.204 | 0.93 |
| 452_S | 491_Q | 1.201 | 0.92 |
| 340_V | 357_Y | 1.197 | 0.92 |
| 62_E | 86_T | 1.194 | 0.92 |
| 411_W | 415_V | 1.194 | 0.92 |
| 405_Q | 408_N | 1.190 | 0.92 |
| 111_D | 116_H | 1.185 | 0.92 |
| 30_H | 34_W | 1.185 | 0.92 |
| 58_S | 213_A | 1.181 | 0.92 |
| 109_Y | 246_F | 1.180 | 0.91 |
| 340_V | 343_M | 1.176 | 0.91 |
| 110_V | 206_V | 1.176 | 0.91 |
| 53_G | 414_N | 1.170 | 0.91 |
| 37_V | 41_L | 1.170 | 0.91 |
| 203_D | 230_H | 1.163 | 0.91 |
| 450_Q | 496_N | 1.163 | 0.91 |
| 176_Q | 181_L | 1.159 | 0.91 |
| 116_H | 210_R | 1.159 | 0.91 |
| 40_A | 93_E | 1.156 | 0.90 |
| 33_E | 76_R | 1.155 | 0.90 |
| 101_C | 106_V | 1.148 | 0.90 |
| 462_G | 484_V | 1.145 | 0.90 |
| 115_N | 180_L | 1.143 | 0.90 |
| 36_W | 60_P | 1.142 | 0.90 |
| 192_S | 228_K | 1.132 | 0.89 |
| 202_I | 229_L | 1.131 | 0.89 |
| 199_N | 228_K | 1.128 | 0.89 |
| 147_S | 150_D | 1.122 | 0.89 |
| 412_F | 416_V | 1.121 | 0.88 |
| 412_F | 440_G | 1.117 | 0.88 |
| 466_D | 480_I | 1.115 | 0.88 |
| 312_D | 340_V | 1.113 | 0.88 |
| 48_G | 106_V | 1.112 | 0.88 |
| 341_G | 444_F | 1.111 | 0.88 |
| 56_Q | 269_T | 1.110 | 0.88 |
| 183_L | 194_I | 1.110 | 0.88 |
| 95_R | 200_K | 1.106 | 0.88 |
| 66_V | 72_P | 1.106 | 0.88 |
| 313_N | 318_R | 1.104 | 0.87 |
| 152_N | 182_D | 1.102 | 0.87 |
| 189_Y | 192_S | 1.099 | 0.87 |
| 246_F | 269_T | 1.096 | 0.87 |
| 116_H | 315_D | 1.096 | 0.87 |
| 152_N | 185_L | 1.094 | 0.87 |
| 194_I | 198_L | 1.092 | 0.87 |
| 63_N | 75_E | 1.089 | 0.86 |
| 224_A | 227_D | 1.088 | 0.86 |
| 344_L | 410_V | 1.086 | 0.86 |
| 98_V | 204_I | 1.085 | 0.86 |
| 49_P | 407_R | 1.084 | 0.86 |
| 47_L | 406_I | 1.081 | 0.86 |
| 60_P | 94_F | 1.078 | 0.86 |
| 346_H | 421_F | 1.078 | 0.86 |
| 72_P | 75_E | 1.077 | 0.86 |
| 482_V | 485_S | 1.075 | 0.86 |
| 29_V | 47_L | 1.074 | 0.85 |
| 63_N | 78_Q | 1.073 | 0.85 |
| 335_L | 497_S | 1.072 | 0.85 |
| 506_H | 510_K | 1.072 | 0.85 |
| 119_G | 181_L | 1.071 | 0.85 |
| 96_D | 99_T | 1.068 | 0.85 |
| 36_W | 94_F | 1.068 | 0.85 |
| 49_P | 403_W | 1.066 | 0.85 |
| 342_F | 346_H | 1.066 | 0.85 |
| 480_I | 498_A | 1.065 | 0.85 |
| 43_C | 47_L | 1.063 | 0.85 |
| 112_A | 211_I | 1.055 | 0.84 |
| 363_F | 373_I | 1.052 | 0.84 |
| 210_R | 314_H | 1.051 | 0.84 |
| 123_A | 126_T | 1.050 | 0.84 |
| 213_A | 271_F | 1.048 | 0.83 |
| 91_E | 95_R | 1.046 | 0.83 |
| 320_H | 336_Y | 1.045 | 0.83 |
| 114_I | 211_I | 1.044 | 0.83 |
| 188_D | 192_S | 1.041 | 0.83 |
| 288_K | 291_Y | 1.039 | 0.83 |
| 219_P | 261_E | 1.038 | 0.83 |
| 310_F | 313_N | 1.035 | 0.82 |
| 390_D | 393_C | 1.033 | 0.82 |
| 429_S | 447_D | 1.029 | 0.82 |
| 431_Q | 451_L | 1.028 | 0.82 |
| 185_L | 194_I | 1.026 | 0.82 |
| 269_T | 354_M | 1.026 | 0.82 |
| 405_Q | 409_M | 1.019 | 0.81 |
| 118_C | 274_G | 1.019 | 0.81 |
| 459_L | 462_G | 1.018 | 0.81 |
| 505_I | 509_S | 1.018 | 0.81 |
| 169_P | 219_P | 1.014 | 0.81 |
| 275_A | 279_T | 1.013 | 0.81 |
| 108_I | 207_A | 1.011 | 0.80 |
| 28_I | 54_G | 1.010 | 0.80 |
| 454_T | 489_T | 1.007 | 0.80 |
| 102_N | 108_I | 1.006 | 0.80 |
| 49_P | 414_N | 1.006 | 0.80 |
| 431_Q | 494_I | 1.005 | 0.80 |
| 311_V | 340_V | 1.003 | 0.80 |
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 | |
| 4x9yA | 1 | 0.9628 | 100 | 0.239 | Contact Map |
| 1jaeA | 1 | 0.9139 | 100 | 0.262 | Contact Map |
| 1g94A | 1 | 0.863 | 100 | 0.31 | Contact Map |
| 1qhoA | 1 | 0.8669 | 100 | 0.336 | Contact Map |
| 4jcmA | 1 | 0.863 | 100 | 0.353 | Contact Map |
| 1cygA | 1 | 0.865 | 100 | 0.36 | Contact Map |
| 1d3cA | 1 | 0.8728 | 100 | 0.363 | Contact Map |
| 4e2oA | 1 | 0.818 | 100 | 0.363 | Contact Map |
| 4jclA | 1 | 0.8748 | 100 | 0.364 | Contact Map |
| 3bmvA | 1 | 0.8708 | 100 | 0.364 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)