| uniref90_hh |
| ID: | 1508108305 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 435 (394) | ||
| Sequences: | 9463 (6760.7) | ||
| Seq/Len: | 24.018 | ||
| Nf(neff/√len): | 340.6 |
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: 24.018).
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 |
| 248_A | 391_A | 3.756 | 1.00 |
| 215_L | 260_I | 3.395 | 1.00 |
| 350_C | 393_I | 3.384 | 1.00 |
| 354_M | 389_I | 3.218 | 1.00 |
| 332_A | 349_V | 3.155 | 1.00 |
| 215_L | 256_Y | 3.010 | 1.00 |
| 208_R | 275_L | 2.981 | 1.00 |
| 401_S | 404_S | 2.888 | 1.00 |
| 23_A | 47_G | 2.824 | 1.00 |
| 26_F | 43_F | 2.795 | 1.00 |
| 49_G | 67_A | 2.719 | 1.00 |
| 86_T | 134_S | 2.590 | 1.00 |
| 131_T | 135_L | 2.480 | 1.00 |
| 45_L | 166_F | 2.450 | 1.00 |
| 245_W | 388_L | 2.417 | 1.00 |
| 296_T | 301_V | 2.387 | 1.00 |
| 73_L | 86_T | 2.379 | 1.00 |
| 209_G | 261_L | 2.374 | 1.00 |
| 214_G | 218_L | 2.364 | 1.00 |
| 171_F | 266_L | 2.362 | 1.00 |
| 106_Y | 342_P | 2.355 | 1.00 |
| 129_R | 174_A | 2.341 | 1.00 |
| 69_C | 89_F | 2.308 | 1.00 |
| 67_A | 166_F | 2.305 | 1.00 |
| 70_A | 90_Q | 2.285 | 1.00 |
| 204_A | 267_H | 2.263 | 1.00 |
| 244_V | 391_A | 2.257 | 1.00 |
| 267_H | 272_G | 2.235 | 1.00 |
| 30_C | 43_F | 2.202 | 1.00 |
| 256_Y | 260_I | 2.160 | 1.00 |
| 76_S | 82_V | 2.144 | 1.00 |
| 297_H | 301_V | 2.123 | 1.00 |
| 201_S | 272_G | 2.119 | 1.00 |
| 314_L | 334_S | 2.097 | 1.00 |
| 314_L | 330_T | 2.067 | 1.00 |
| 164_P | 191_Q | 2.057 | 1.00 |
| 185_R | 312_R | 2.051 | 1.00 |
| 161_K | 164_P | 2.024 | 1.00 |
| 182_S | 316_R | 1.994 | 1.00 |
| 294_E | 394_M | 1.994 | 1.00 |
| 297_H | 382_T | 1.956 | 1.00 |
| 208_R | 263_D | 1.934 | 1.00 |
| 275_L | 291_W | 1.933 | 1.00 |
| 392_Y | 409_C | 1.904 | 1.00 |
| 396_A | 405_L | 1.879 | 1.00 |
| 41_Y | 164_P | 1.857 | 1.00 |
| 68_V | 162_A | 1.853 | 1.00 |
| 328_L | 349_V | 1.852 | 1.00 |
| 318_V | 333_F | 1.829 | 1.00 |
| 84_R | 88_C | 1.816 | 1.00 |
| 274_E | 309_S | 1.809 | 1.00 |
| 135_L | 139_E | 1.771 | 1.00 |
| 298_R | 358_D | 1.768 | 1.00 |
| 130_V | 169_L | 1.737 | 1.00 |
| 297_H | 379_R | 1.737 | 1.00 |
| 400_R | 404_S | 1.736 | 1.00 |
| 325_W | 329_Q | 1.732 | 1.00 |
| 300_S | 359_Y | 1.727 | 1.00 |
| 383_W | 387_Q | 1.708 | 1.00 |
| 308_Q | 312_R | 1.702 | 1.00 |
| 201_S | 267_H | 1.695 | 1.00 |
| 300_S | 358_D | 1.695 | 1.00 |
| 44_L | 167_S | 1.661 | 1.00 |
| 396_A | 409_C | 1.632 | 1.00 |
| 346_F | 396_A | 1.619 | 1.00 |
| 61_V | 65_T | 1.612 | 1.00 |
| 241_I | 412_Y | 1.609 | 1.00 |
| 183_F | 187_Q | 1.603 | 1.00 |
| 162_A | 166_F | 1.595 | 1.00 |
| 236_Q | 239_E | 1.594 | 1.00 |
| 70_A | 130_V | 1.579 | 1.00 |
| 66_P | 90_Q | 1.577 | 1.00 |
| 49_G | 170_L | 1.562 | 1.00 |
| 328_L | 352_A | 1.562 | 1.00 |
| 350_C | 354_M | 1.561 | 1.00 |
| 73_L | 82_V | 1.556 | 1.00 |
| 351_W | 390_I | 1.547 | 1.00 |
| 50_A | 54_A | 1.541 | 1.00 |
| 23_A | 269_A | 1.513 | 1.00 |
| 132_S | 168_Y | 1.511 | 1.00 |
| 346_F | 402_L | 1.500 | 1.00 |
| 205_L | 264_S | 1.500 | 1.00 |
| 228_A | 398_E | 1.496 | 1.00 |
| 72_A | 76_S | 1.492 | 1.00 |
| 159_V | 164_P | 1.491 | 1.00 |
| 379_R | 383_W | 1.465 | 1.00 |
| 231_G | 234_D | 1.459 | 1.00 |
| 399_V | 405_L | 1.438 | 1.00 |
| 101_L | 113_S | 1.437 | 1.00 |
| 406_W | 410_N | 1.436 | 1.00 |
| 189_R | 272_G | 1.433 | 1.00 |
| 141_K | 184_Q | 1.431 | 1.00 |
| 209_G | 268_A | 1.425 | 1.00 |
| 200_H | 204_A | 1.414 | 1.00 |
| 324_A | 360_L | 1.412 | 1.00 |
| 299_I | 386_T | 1.396 | 0.99 |
| 101_L | 115_R | 1.388 | 0.99 |
| 53_V | 60_A | 1.388 | 0.99 |
| 390_I | 394_M | 1.365 | 0.99 |
| 77_L | 82_V | 1.363 | 0.99 |
| 299_I | 354_M | 1.357 | 0.99 |
| 159_V | 191_Q | 1.355 | 0.99 |
| 384_A | 388_L | 1.349 | 0.99 |
| 53_V | 57_G | 1.336 | 0.99 |
| 71_V | 75_C | 1.335 | 0.99 |
| 320_Q | 326_P | 1.326 | 0.99 |
| 74_L | 137_I | 1.325 | 0.99 |
| 57_G | 61_V | 1.320 | 0.99 |
| 300_S | 304_R | 1.314 | 0.99 |
| 407_L | 411_S | 1.305 | 0.99 |
| 297_H | 383_W | 1.302 | 0.99 |
| 240_C | 408_L | 1.289 | 0.99 |
| 129_R | 181_C | 1.288 | 0.99 |
| 402_L | 406_W | 1.282 | 0.99 |
| 43_F | 47_G | 1.280 | 0.99 |
| 185_R | 274_E | 1.277 | 0.99 |
| 311_A | 315_R | 1.276 | 0.99 |
| 263_D | 275_L | 1.273 | 0.99 |
| 69_C | 73_L | 1.271 | 0.99 |
| 343_G | 399_V | 1.264 | 0.99 |
| 332_A | 345_V | 1.262 | 0.99 |
| 331_F | 355_V | 1.255 | 0.99 |
| 102_H | 106_Y | 1.254 | 0.99 |
| 259_W | 263_D | 1.251 | 0.99 |
| 203_W | 207_W | 1.241 | 0.98 |
| 74_L | 77_L | 1.241 | 0.98 |
| 88_C | 92_S | 1.234 | 0.98 |
| 74_L | 133_L | 1.228 | 0.98 |
| 223_S | 246_T | 1.223 | 0.98 |
| 245_W | 391_A | 1.213 | 0.98 |
| 240_C | 411_S | 1.211 | 0.98 |
| 216_E | 254_T | 1.209 | 0.98 |
| 174_A | 181_C | 1.207 | 0.98 |
| 70_A | 86_T | 1.207 | 0.98 |
| 83_H | 87_F | 1.200 | 0.98 |
| 16_Q | 265_L | 1.199 | 0.98 |
| 390_I | 393_I | 1.198 | 0.98 |
| 91_M | 333_F | 1.192 | 0.98 |
| 336_W | 345_V | 1.190 | 0.98 |
| 81_Q | 323_R | 1.185 | 0.98 |
| 136_D | 317_L | 1.184 | 0.98 |
| 331_F | 334_S | 1.182 | 0.98 |
| 163_L | 167_S | 1.181 | 0.98 |
| 387_Q | 391_A | 1.178 | 0.98 |
| 350_C | 389_I | 1.172 | 0.98 |
| 248_A | 387_Q | 1.159 | 0.97 |
| 225_V | 229_G | 1.158 | 0.97 |
| 395_L | 409_C | 1.140 | 0.97 |
| 396_A | 406_W | 1.136 | 0.97 |
| 181_C | 274_E | 1.134 | 0.97 |
| 378_Y | 382_T | 1.132 | 0.97 |
| 243_V | 408_L | 1.130 | 0.97 |
| 46_T | 50_A | 1.127 | 0.97 |
| 410_N | 414_S | 1.126 | 0.97 |
| 91_M | 131_T | 1.125 | 0.97 |
| 133_L | 160_C | 1.123 | 0.97 |
| 23_A | 27_N | 1.122 | 0.97 |
| 202_F | 268_A | 1.121 | 0.97 |
| 292_T | 295_R | 1.120 | 0.96 |
| 101_L | 104_T | 1.113 | 0.96 |
| 244_V | 412_Y | 1.110 | 0.96 |
| 232_L | 235_C | 1.109 | 0.96 |
| 311_A | 327_L | 1.109 | 0.96 |
| 209_G | 265_L | 1.103 | 0.96 |
| 186_F | 190_V | 1.103 | 0.96 |
| 376_L | 379_R | 1.099 | 0.96 |
| 407_L | 410_N | 1.096 | 0.96 |
| 302_F | 394_M | 1.096 | 0.96 |
| 96_L | 100_G | 1.094 | 0.96 |
| 392_Y | 396_A | 1.091 | 0.96 |
| 342_P | 345_V | 1.084 | 0.96 |
| 227_D | 246_T | 1.083 | 0.96 |
| 248_A | 394_M | 1.081 | 0.95 |
| 244_V | 395_L | 1.081 | 0.95 |
| 322_S | 329_Q | 1.078 | 0.95 |
| 66_P | 130_V | 1.077 | 0.95 |
| 83_H | 135_L | 1.075 | 0.95 |
| 375_R | 378_Y | 1.074 | 0.95 |
| 322_S | 326_P | 1.073 | 0.95 |
| 251_F | 394_M | 1.072 | 0.95 |
| 302_F | 390_I | 1.071 | 0.95 |
| 130_V | 165_Y | 1.070 | 0.95 |
| 388_L | 392_Y | 1.065 | 0.95 |
| 238_F | 242_Y | 1.053 | 0.95 |
| 291_W | 308_Q | 1.052 | 0.95 |
| 404_S | 407_L | 1.048 | 0.94 |
| 49_G | 64_F | 1.047 | 0.94 |
| 12_I | 16_Q | 1.045 | 0.94 |
| 101_L | 114_V | 1.039 | 0.94 |
| 334_S | 347_G | 1.029 | 0.94 |
| 20_F | 269_A | 1.027 | 0.94 |
| 95_T | 103_Y | 1.027 | 0.94 |
| 380_T | 383_W | 1.025 | 0.93 |
| 96_L | 116_F | 1.015 | 0.93 |
| 100_G | 104_T | 1.014 | 0.93 |
| 87_F | 92_S | 1.009 | 0.93 |
| 351_W | 393_I | 1.008 | 0.93 |
| 324_A | 356_E | 1.006 | 0.93 |
| 75_C | 160_C | 1.003 | 0.93 |
| 20_F | 23_A | 1.002 | 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 | |
| 2wdqC | 3 | 0.1655 | 2 | 0.978 | Contact Map |
| 1v54K | 2 | 0.0391 | 1.9 | 0.978 | Contact Map |
| 2xseA | 1 | 0.1149 | 1.6 | 0.979 | Contact Map |
| 1ynwB | 1 | 0.0253 | 1.4 | 0.98 | Contact Map |
| 3zuxA | 1 | 0.2943 | 1.3 | 0.981 | Contact Map |
| 1r4iA | 2 | 0.0207 | 1 | 0.982 | Contact Map |
| 2le3A | 1 | 0.0966 | 1 | 0.982 | Contact Map |
| 2i2jA | 1 | 0.0483 | 1 | 0.982 | Contact Map |
| 1lbjA | 1 | 0.0506 | 1 | 0.982 | Contact Map |
| 1q90L | 1 | 0.0736 | 1 | 0.982 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)