| Sialin |
| ID: | 1485219290 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 495 (421) | ||
| Sequences: | 15993 (9841.7) | ||
| Seq/Len: | 37.988 | ||
| Nf(neff/√len): | 479.7 |
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: 37.988).
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 |
| 162_G | 166_V | 3.448 | 1.00 |
| 145_G | 174_G | 3.314 | 1.00 |
| 160_G | 163_P | 3.293 | 1.00 |
| 323_N | 326_E | 3.216 | 1.00 |
| 118_G | 169_A | 3.122 | 1.00 |
| 147_A | 237_G | 3.041 | 1.00 |
| 196_S | 350_D | 2.877 | 1.00 |
| 104_D | 107_T | 2.856 | 1.00 |
| 154_P | 231_Y | 2.851 | 1.00 |
| 283_V | 287_K | 2.846 | 1.00 |
| 151_L | 234_G | 2.598 | 1.00 |
| 152_F | 167_L | 2.547 | 1.00 |
| 299_F | 436_P | 2.519 | 1.00 |
| 149_L | 167_L | 2.483 | 1.00 |
| 149_L | 174_G | 2.463 | 1.00 |
| 157_A | 163_P | 2.395 | 1.00 |
| 129_V | 133_I | 2.379 | 1.00 |
| 220_I | 228_Y | 2.363 | 1.00 |
| 242_L | 246_W | 2.345 | 1.00 |
| 122_T | 176_G | 2.263 | 1.00 |
| 303_W | 440_G | 2.245 | 1.00 |
| 461_Y | 465_A | 2.244 | 1.00 |
| 144_L | 241_F | 2.195 | 1.00 |
| 142_G | 177_V | 2.177 | 1.00 |
| 140_G | 245_I | 2.166 | 1.00 |
| 190_A | 198_L | 2.081 | 1.00 |
| 253_Q | 267_L | 2.075 | 1.00 |
| 122_T | 173_L | 2.071 | 1.00 |
| 295_V | 432_F | 2.068 | 1.00 |
| 113_G | 438_M | 1.994 | 1.00 |
| 149_L | 170_L | 1.933 | 1.00 |
| 106_E | 449_P | 1.927 | 1.00 |
| 304_T | 467_N | 1.911 | 1.00 |
| 114_S | 165_I | 1.877 | 1.00 |
| 161_V | 165_I | 1.875 | 1.00 |
| 111_I | 164_L | 1.844 | 1.00 |
| 156_A | 163_P | 1.841 | 1.00 |
| 100_K | 227_T | 1.810 | 1.00 |
| 194_E | 197_K | 1.796 | 1.00 |
| 147_A | 234_G | 1.772 | 1.00 |
| 126_G | 177_V | 1.764 | 1.00 |
| 153_T | 164_L | 1.764 | 1.00 |
| 47_F | 205_G | 1.762 | 1.00 |
| 300_S | 470_G | 1.754 | 1.00 |
| 131_S | 423_G | 1.743 | 1.00 |
| 284_P | 287_K | 1.712 | 1.00 |
| 129_V | 138_L | 1.701 | 1.00 |
| 117_Y | 438_M | 1.684 | 1.00 |
| 147_A | 241_F | 1.683 | 1.00 |
| 376_A | 464_A | 1.675 | 1.00 |
| 244_W | 248_V | 1.674 | 1.00 |
| 107_T | 161_V | 1.671 | 1.00 |
| 307_T | 444_A | 1.662 | 1.00 |
| 140_G | 241_F | 1.661 | 1.00 |
| 147_A | 238_I | 1.655 | 1.00 |
| 64_L | 108_Q | 1.623 | 1.00 |
| 127_G | 131_S | 1.616 | 1.00 |
| 43_A | 198_L | 1.609 | 1.00 |
| 137_M | 250_D | 1.606 | 1.00 |
| 300_S | 466_I | 1.605 | 1.00 |
| 346_G | 350_D | 1.581 | 1.00 |
| 39_R | 194_E | 1.581 | 1.00 |
| 128_Y | 132_K | 1.580 | 1.00 |
| 337_G | 341_C | 1.577 | 1.00 |
| 251_T | 254_K | 1.553 | 1.00 |
| 63_A | 221_C | 1.534 | 1.00 |
| 376_A | 468_V | 1.522 | 1.00 |
| 152_F | 155_I | 1.518 | 1.00 |
| 341_C | 401_T | 1.516 | 1.00 |
| 153_T | 167_L | 1.516 | 1.00 |
| 151_L | 155_I | 1.515 | 1.00 |
| 47_F | 208_L | 1.515 | 1.00 |
| 103_W | 161_V | 1.510 | 1.00 |
| 383_G | 464_A | 1.509 | 1.00 |
| 103_W | 107_T | 1.496 | 1.00 |
| 224_M | 228_Y | 1.496 | 1.00 |
| 376_A | 471_A | 1.488 | 1.00 |
| 63_A | 229_V | 1.480 | 1.00 |
| 184_A | 188_S | 1.479 | 1.00 |
| 417_I | 425_L | 1.468 | 1.00 |
| 63_A | 230_F | 1.467 | 1.00 |
| 250_D | 254_K | 1.466 | 1.00 |
| 243_L | 247_L | 1.466 | 1.00 |
| 225_N | 228_Y | 1.450 | 1.00 |
| 197_K | 347_Q | 1.445 | 1.00 |
| 351_N | 355_K | 1.439 | 1.00 |
| 281_P | 284_P | 1.435 | 1.00 |
| 156_A | 167_L | 1.433 | 1.00 |
| 149_L | 171_E | 1.419 | 1.00 |
| 191_P | 194_E | 1.413 | 1.00 |
| 130_A | 181_A | 1.397 | 0.99 |
| 231_Y | 235_T | 1.371 | 0.99 |
| 222_Y | 325_Q | 1.360 | 0.99 |
| 148_V | 152_F | 1.354 | 0.99 |
| 115_F | 119_Y | 1.352 | 0.99 |
| 390_S | 394_A | 1.351 | 0.99 |
| 317_K | 327_N | 1.339 | 0.99 |
| 51_F | 212_I | 1.336 | 0.99 |
| 136_K | 249_S | 1.334 | 0.99 |
| 126_G | 176_G | 1.310 | 0.99 |
| 337_G | 396_L | 1.306 | 0.99 |
| 380_V | 464_A | 1.303 | 0.99 |
| 446_S | 450_D | 1.301 | 0.99 |
| 131_S | 424_I | 1.300 | 0.99 |
| 447_L | 451_N | 1.292 | 0.99 |
| 264_E | 268_S | 1.289 | 0.99 |
| 189_W | 252_P | 1.283 | 0.99 |
| 135_G | 250_D | 1.277 | 0.99 |
| 347_Q | 351_N | 1.277 | 0.99 |
| 166_V | 170_L | 1.275 | 0.99 |
| 196_S | 349_A | 1.275 | 0.99 |
| 105_A | 449_P | 1.274 | 0.99 |
| 57_R | 119_Y | 1.265 | 0.99 |
| 307_T | 463_A | 1.263 | 0.99 |
| 260_H | 263_K | 1.260 | 0.99 |
| 127_G | 181_A | 1.256 | 0.99 |
| 145_G | 149_L | 1.252 | 0.99 |
| 48_F | 240_W | 1.251 | 0.99 |
| 249_S | 256_K | 1.243 | 0.98 |
| 110_W | 114_S | 1.238 | 0.98 |
| 285_I | 425_L | 1.237 | 0.98 |
| 348_A | 352_L | 1.234 | 0.98 |
| 115_F | 175_E | 1.230 | 0.98 |
| 141_F | 145_G | 1.222 | 0.98 |
| 64_L | 314_T | 1.222 | 0.98 |
| 211_V | 336_L | 1.217 | 0.98 |
| 146_T | 175_E | 1.215 | 0.98 |
| 114_S | 169_A | 1.212 | 0.98 |
| 381_A | 384_F | 1.210 | 0.98 |
| 59_N | 233_F | 1.208 | 0.98 |
| 38_A | 41_N | 1.204 | 0.98 |
| 56_L | 175_E | 1.203 | 0.98 |
| 451_N | 455_E | 1.199 | 0.98 |
| 373_I | 377_V | 1.197 | 0.98 |
| 137_M | 141_F | 1.196 | 0.98 |
| 135_G | 188_S | 1.194 | 0.98 |
| 197_K | 350_D | 1.192 | 0.98 |
| 291_L | 425_L | 1.188 | 0.98 |
| 133_I | 138_L | 1.184 | 0.98 |
| 43_A | 190_A | 1.182 | 0.98 |
| 260_H | 264_E | 1.182 | 0.98 |
| 68_V | 108_Q | 1.181 | 0.98 |
| 235_T | 239_F | 1.180 | 0.98 |
| 104_D | 449_P | 1.175 | 0.98 |
| 238_I | 242_L | 1.175 | 0.98 |
| 109_G | 445_K | 1.175 | 0.98 |
| 151_L | 231_Y | 1.172 | 0.98 |
| 134_G | 138_L | 1.163 | 0.97 |
| 344_L | 348_A | 1.159 | 0.97 |
| 468_V | 472_I | 1.156 | 0.97 |
| 298_H | 433_A | 1.153 | 0.97 |
| 157_A | 160_G | 1.150 | 0.97 |
| 49_G | 143_I | 1.148 | 0.97 |
| 118_G | 122_T | 1.143 | 0.97 |
| 56_L | 146_T | 1.138 | 0.97 |
| 302_N | 433_A | 1.134 | 0.97 |
| 381_A | 395_F | 1.131 | 0.97 |
| 220_I | 224_M | 1.130 | 0.97 |
| 59_N | 217_S | 1.129 | 0.97 |
| 378_F | 395_F | 1.129 | 0.97 |
| 134_G | 137_M | 1.128 | 0.97 |
| 445_K | 449_P | 1.122 | 0.97 |
| 220_I | 229_V | 1.119 | 0.96 |
| 45_L | 247_L | 1.109 | 0.96 |
| 218_G | 324_V | 1.107 | 0.96 |
| 214_L | 331_S | 1.107 | 0.96 |
| 143_I | 241_F | 1.107 | 0.96 |
| 340_L | 344_L | 1.104 | 0.96 |
| 37_S | 40_Y | 1.101 | 0.96 |
| 373_I | 471_A | 1.100 | 0.96 |
| 241_F | 245_I | 1.100 | 0.96 |
| 188_S | 251_T | 1.097 | 0.96 |
| 163_P | 167_L | 1.095 | 0.96 |
| 52_I | 240_W | 1.092 | 0.96 |
| 465_A | 469_F | 1.092 | 0.96 |
| 436_P | 440_G | 1.088 | 0.96 |
| 45_L | 244_W | 1.087 | 0.96 |
| 49_G | 139_L | 1.086 | 0.96 |
| 384_F | 461_Y | 1.084 | 0.96 |
| 458_T | 462_I | 1.081 | 0.95 |
| 297_A | 474_F | 1.073 | 0.95 |
| 110_W | 442_V | 1.070 | 0.95 |
| 182_M | 202_S | 1.068 | 0.95 |
| 56_L | 168_R | 1.067 | 0.95 |
| 200_S | 346_G | 1.067 | 0.95 |
| 228_Y | 231_Y | 1.066 | 0.95 |
| 291_L | 295_V | 1.065 | 0.95 |
| 336_L | 340_L | 1.064 | 0.95 |
| 362_C | 366_I | 1.062 | 0.95 |
| 215_P | 218_G | 1.058 | 0.95 |
| 348_A | 367_F | 1.058 | 0.95 |
| 103_W | 108_Q | 1.054 | 0.95 |
| 443_I | 446_S | 1.051 | 0.94 |
| 131_S | 184_A | 1.048 | 0.94 |
| 184_A | 423_G | 1.047 | 0.94 |
| 55_A | 213_S | 1.043 | 0.94 |
| 315_Y | 320_L | 1.042 | 0.94 |
| 345_S | 405_F | 1.041 | 0.94 |
| 123_Q | 430_N | 1.039 | 0.94 |
| 41_N | 247_L | 1.038 | 0.94 |
| 109_G | 311_L | 1.035 | 0.94 |
| 100_K | 224_M | 1.031 | 0.94 |
| 322_F | 326_E | 1.031 | 0.94 |
| 216_L | 219_I | 1.031 | 0.94 |
| 306_Y | 437_G | 1.030 | 0.94 |
| 54_Y | 57_R | 1.029 | 0.94 |
| 118_G | 172_G | 1.027 | 0.94 |
| 127_G | 423_G | 1.027 | 0.94 |
| 55_A | 233_F | 1.025 | 0.93 |
| 163_P | 166_V | 1.024 | 0.93 |
| 204_A | 207_Q | 1.022 | 0.93 |
| 133_I | 137_M | 1.018 | 0.93 |
| 204_A | 343_I | 1.017 | 0.93 |
| 435_I | 439_V | 1.016 | 0.93 |
| 326_E | 329_F | 1.016 | 0.93 |
| 152_F | 163_P | 1.015 | 0.93 |
| 344_L | 347_Q | 1.008 | 0.93 |
| 106_E | 446_S | 1.007 | 0.93 |
| 186_W | 202_S | 1.006 | 0.93 |
| 217_S | 229_V | 1.006 | 0.93 |
| 154_P | 227_T | 1.005 | 0.93 |
| 100_K | 226_W | 1.005 | 0.93 |
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 | |
| 1pw4A | 1 | 0.8444 | 100 | 0.49 | Contact Map |
| 4j05A | 2 | 0.7636 | 100 | 0.512 | Contact Map |
| 4pypA | 1 | 0.8 | 100 | 0.534 | Contact Map |
| 3wdoA | 1 | 0.8101 | 100 | 0.536 | Contact Map |
| 3o7qA | 1 | 0.7758 | 100 | 0.539 | Contact Map |
| 2gfpA | 2 | 0.7475 | 100 | 0.546 | Contact Map |
| 4zw9A | 1 | 0 | 100 | 0.553 | Contact Map |
| 4ldsA | 2 | 0.798 | 100 | 0.557 | Contact Map |
| 4gc0A | 1 | 0.8485 | 100 | 0.562 | Contact Map |
| 2cfqA | 1 | 0.8182 | 100 | 0.574 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)