| uni90_jc |
| ID: | 1508107233 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 435 (408) | ||
| Sequences: | 5016 (4199.1) | ||
| Seq/Len: | 12.294 | ||
| Nf(neff/√len): | 207.9 |
Jackhmmer Results: (2016_04)
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: 12.294).
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 |
| 119_T | 124_M | 3.076 | 1.00 |
| 216_E | 220_V | 2.797 | 1.00 |
| 296_T | 301_V | 2.651 | 1.00 |
| 80_Q | 83_H | 2.586 | 1.00 |
| 119_T | 122_S | 2.561 | 1.00 |
| 215_L | 219_N | 2.552 | 1.00 |
| 256_Y | 260_I | 2.548 | 1.00 |
| 131_T | 135_L | 2.461 | 1.00 |
| 121_S | 124_M | 2.355 | 1.00 |
| 214_G | 217_C | 2.276 | 1.00 |
| 332_A | 349_V | 2.270 | 1.00 |
| 21_P | 27_N | 2.220 | 1.00 |
| 214_G | 219_N | 2.180 | 1.00 |
| 223_S | 226_V | 2.173 | 1.00 |
| 211_Q | 214_G | 2.124 | 1.00 |
| 216_E | 219_N | 2.022 | 1.00 |
| 224_R | 228_A | 1.998 | 1.00 |
| 390_I | 394_M | 1.925 | 1.00 |
| 201_S | 204_A | 1.910 | 1.00 |
| 171_F | 266_L | 1.884 | 1.00 |
| 212_I | 216_E | 1.882 | 1.00 |
| 214_G | 218_L | 1.862 | 1.00 |
| 350_C | 393_I | 1.844 | 1.00 |
| 223_S | 228_A | 1.844 | 1.00 |
| 215_L | 218_L | 1.836 | 1.00 |
| 86_T | 134_S | 1.822 | 1.00 |
| 67_A | 166_F | 1.815 | 1.00 |
| 117_C | 124_M | 1.803 | 1.00 |
| 219_N | 222_V | 1.798 | 1.00 |
| 383_W | 387_Q | 1.797 | 1.00 |
| 182_S | 316_R | 1.794 | 1.00 |
| 223_S | 229_G | 1.776 | 1.00 |
| 314_L | 334_S | 1.769 | 1.00 |
| 78_A | 144_A | 1.768 | 1.00 |
| 204_A | 208_R | 1.762 | 1.00 |
| 129_R | 174_A | 1.757 | 1.00 |
| 117_C | 122_S | 1.746 | 1.00 |
| 211_Q | 215_L | 1.746 | 1.00 |
| 401_S | 404_S | 1.745 | 1.00 |
| 212_I | 215_L | 1.735 | 1.00 |
| 225_V | 228_A | 1.704 | 1.00 |
| 248_A | 391_A | 1.699 | 1.00 |
| 45_L | 166_F | 1.698 | 1.00 |
| 267_H | 272_G | 1.694 | 1.00 |
| 204_A | 207_W | 1.687 | 1.00 |
| 297_H | 301_V | 1.686 | 1.00 |
| 122_S | 125_L | 1.684 | 1.00 |
| 208_R | 212_I | 1.674 | 1.00 |
| 208_R | 211_Q | 1.666 | 1.00 |
| 314_L | 330_T | 1.665 | 1.00 |
| 226_V | 229_G | 1.649 | 1.00 |
| 214_G | 222_V | 1.647 | 1.00 |
| 223_S | 227_D | 1.642 | 1.00 |
| 135_L | 139_E | 1.642 | 1.00 |
| 225_V | 229_G | 1.636 | 1.00 |
| 354_M | 389_I | 1.635 | 1.00 |
| 208_R | 215_L | 1.624 | 1.00 |
| 224_R | 227_D | 1.622 | 1.00 |
| 53_V | 57_G | 1.618 | 1.00 |
| 252_K | 256_Y | 1.607 | 1.00 |
| 69_C | 89_F | 1.600 | 1.00 |
| 217_C | 220_V | 1.594 | 1.00 |
| 224_R | 229_G | 1.582 | 1.00 |
| 325_W | 329_Q | 1.582 | 1.00 |
| 203_W | 206_S | 1.575 | 1.00 |
| 19_A | 27_N | 1.570 | 1.00 |
| 218_L | 222_V | 1.560 | 1.00 |
| 106_Y | 342_P | 1.556 | 1.00 |
| 252_K | 255_Y | 1.526 | 1.00 |
| 215_L | 220_V | 1.517 | 1.00 |
| 298_R | 358_D | 1.516 | 1.00 |
| 202_F | 205_L | 1.516 | 1.00 |
| 23_A | 27_N | 1.515 | 1.00 |
| 217_C | 222_V | 1.514 | 1.00 |
| 247_T | 250_L | 1.510 | 1.00 |
| 205_L | 208_R | 1.509 | 1.00 |
| 318_V | 333_F | 1.506 | 1.00 |
| 118_I | 124_M | 1.504 | 1.00 |
| 207_W | 211_Q | 1.499 | 1.00 |
| 161_K | 164_P | 1.485 | 1.00 |
| 185_R | 312_R | 1.479 | 1.00 |
| 300_S | 359_Y | 1.471 | 1.00 |
| 328_L | 349_V | 1.469 | 1.00 |
| 350_C | 354_M | 1.460 | 1.00 |
| 208_R | 214_G | 1.456 | 1.00 |
| 308_Q | 312_R | 1.453 | 1.00 |
| 247_T | 251_F | 1.452 | 1.00 |
| 393_I | 396_A | 1.452 | 1.00 |
| 102_H | 106_Y | 1.441 | 1.00 |
| 164_P | 191_Q | 1.433 | 1.00 |
| 101_L | 105_E | 1.433 | 1.00 |
| 390_I | 393_I | 1.420 | 1.00 |
| 49_G | 67_A | 1.419 | 1.00 |
| 214_G | 220_V | 1.412 | 1.00 |
| 74_L | 77_L | 1.408 | 1.00 |
| 48_G | 51_L | 1.406 | 0.99 |
| 323_R | 359_Y | 1.399 | 0.99 |
| 218_L | 221_A | 1.391 | 0.99 |
| 288_A | 291_W | 1.391 | 0.99 |
| 98_H | 102_H | 1.374 | 0.99 |
| 212_I | 219_N | 1.373 | 0.99 |
| 183_F | 187_Q | 1.366 | 0.99 |
| 70_A | 90_Q | 1.351 | 0.99 |
| 209_G | 214_G | 1.342 | 0.99 |
| 119_T | 123_L | 1.341 | 0.99 |
| 212_I | 220_V | 1.341 | 0.99 |
| 208_R | 219_N | 1.332 | 0.99 |
| 396_A | 405_L | 1.331 | 0.99 |
| 211_Q | 219_N | 1.329 | 0.99 |
| 386_T | 390_I | 1.327 | 0.99 |
| 49_G | 53_V | 1.325 | 0.99 |
| 251_F | 255_Y | 1.321 | 0.99 |
| 399_V | 405_L | 1.314 | 0.99 |
| 336_W | 345_V | 1.311 | 0.99 |
| 211_Q | 217_C | 1.292 | 0.99 |
| 211_Q | 220_V | 1.290 | 0.99 |
| 48_G | 52_A | 1.287 | 0.99 |
| 209_G | 216_E | 1.280 | 0.99 |
| 98_H | 101_L | 1.269 | 0.99 |
| 21_P | 25_L | 1.268 | 0.99 |
| 328_L | 352_A | 1.264 | 0.99 |
| 331_F | 355_V | 1.256 | 0.99 |
| 294_E | 394_M | 1.245 | 0.98 |
| 287_D | 290_I | 1.243 | 0.98 |
| 259_W | 263_D | 1.239 | 0.98 |
| 207_W | 214_G | 1.238 | 0.98 |
| 217_C | 221_A | 1.236 | 0.98 |
| 189_R | 272_G | 1.223 | 0.98 |
| 119_T | 125_L | 1.221 | 0.98 |
| 68_V | 162_A | 1.216 | 0.98 |
| 66_P | 90_Q | 1.211 | 0.98 |
| 212_I | 218_L | 1.202 | 0.98 |
| 50_A | 54_A | 1.201 | 0.98 |
| 83_H | 87_F | 1.199 | 0.98 |
| 211_Q | 218_L | 1.197 | 0.98 |
| 132_S | 168_Y | 1.197 | 0.98 |
| 49_G | 52_A | 1.196 | 0.98 |
| 73_L | 86_T | 1.195 | 0.98 |
| 215_L | 222_V | 1.191 | 0.98 |
| 69_C | 73_L | 1.190 | 0.98 |
| 70_A | 130_V | 1.187 | 0.98 |
| 202_F | 206_S | 1.187 | 0.98 |
| 250_L | 254_T | 1.179 | 0.98 |
| 16_Q | 21_P | 1.179 | 0.98 |
| 251_F | 254_T | 1.178 | 0.98 |
| 56_M | 60_A | 1.176 | 0.98 |
| 300_S | 358_D | 1.171 | 0.98 |
| 346_F | 396_A | 1.169 | 0.97 |
| 208_R | 216_E | 1.168 | 0.97 |
| 205_L | 209_G | 1.166 | 0.97 |
| 247_T | 254_T | 1.166 | 0.97 |
| 21_P | 29_L | 1.164 | 0.97 |
| 209_G | 212_I | 1.163 | 0.97 |
| 299_I | 354_M | 1.157 | 0.97 |
| 20_F | 28_Y | 1.156 | 0.97 |
| 231_G | 234_D | 1.151 | 0.97 |
| 247_T | 255_Y | 1.151 | 0.97 |
| 41_Y | 164_P | 1.140 | 0.97 |
| 118_I | 122_S | 1.138 | 0.97 |
| 205_L | 212_I | 1.137 | 0.97 |
| 251_F | 256_Y | 1.133 | 0.97 |
| 53_V | 60_A | 1.130 | 0.97 |
| 211_Q | 216_E | 1.129 | 0.97 |
| 250_L | 255_Y | 1.122 | 0.97 |
| 129_R | 132_S | 1.117 | 0.96 |
| 213_L | 216_E | 1.115 | 0.96 |
| 16_Q | 20_F | 1.113 | 0.96 |
| 319_F | 326_P | 1.111 | 0.96 |
| 101_L | 104_T | 1.111 | 0.96 |
| 274_E | 309_S | 1.107 | 0.96 |
| 70_A | 86_T | 1.100 | 0.96 |
| 236_Q | 239_E | 1.099 | 0.96 |
| 84_R | 88_C | 1.098 | 0.96 |
| 208_R | 217_C | 1.095 | 0.96 |
| 392_Y | 409_C | 1.092 | 0.96 |
| 130_V | 134_S | 1.090 | 0.96 |
| 131_T | 134_S | 1.090 | 0.96 |
| 141_K | 184_Q | 1.090 | 0.96 |
| 378_Y | 382_T | 1.089 | 0.96 |
| 20_F | 27_N | 1.085 | 0.96 |
| 130_V | 169_L | 1.085 | 0.96 |
| 212_I | 217_C | 1.085 | 0.96 |
| 332_A | 345_V | 1.083 | 0.96 |
| 331_F | 334_S | 1.082 | 0.96 |
| 162_A | 166_F | 1.082 | 0.96 |
| 26_F | 30_C | 1.078 | 0.95 |
| 102_H | 105_E | 1.077 | 0.95 |
| 71_V | 75_C | 1.076 | 0.95 |
| 384_A | 388_L | 1.073 | 0.95 |
| 19_A | 23_A | 1.072 | 0.95 |
| 209_G | 217_C | 1.071 | 0.95 |
| 57_G | 60_A | 1.070 | 0.95 |
| 396_A | 409_C | 1.070 | 0.95 |
| 387_Q | 390_I | 1.067 | 0.95 |
| 245_W | 388_L | 1.066 | 0.95 |
| 210_L | 217_C | 1.065 | 0.95 |
| 244_V | 391_A | 1.064 | 0.95 |
| 207_W | 210_L | 1.062 | 0.95 |
| 379_R | 383_W | 1.059 | 0.95 |
| 324_A | 360_L | 1.056 | 0.95 |
| 247_T | 252_K | 1.052 | 0.95 |
| 311_A | 315_R | 1.045 | 0.94 |
| 15_Y | 21_P | 1.045 | 0.94 |
| 21_P | 28_Y | 1.041 | 0.94 |
| 90_Q | 93_W | 1.040 | 0.94 |
| 213_L | 217_C | 1.037 | 0.94 |
| 394_M | 398_E | 1.035 | 0.94 |
| 204_A | 211_Q | 1.031 | 0.94 |
| 375_R | 378_Y | 1.031 | 0.94 |
| 18_A | 21_P | 1.029 | 0.94 |
| 300_S | 304_R | 1.029 | 0.94 |
| 208_R | 218_L | 1.028 | 0.94 |
| 240_C | 243_V | 1.028 | 0.94 |
| 21_P | 24_L | 1.027 | 0.94 |
| 392_Y | 396_A | 1.025 | 0.93 |
| 52_A | 57_G | 1.025 | 0.93 |
| 72_A | 76_S | 1.024 | 0.93 |
| 207_W | 212_I | 1.023 | 0.93 |
| 207_W | 215_L | 1.022 | 0.93 |
| 201_S | 205_L | 1.021 | 0.93 |
| 96_L | 100_G | 1.016 | 0.93 |
| 174_A | 181_C | 1.011 | 0.93 |
| 99_L | 102_H | 1.010 | 0.93 |
| 67_A | 70_A | 1.009 | 0.93 |
| 127_T | 131_T | 1.008 | 0.93 |
| 24_L | 28_Y | 1.005 | 0.93 |
| 132_S | 136_D | 1.001 | 0.92 |
| 44_L | 167_S | 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 | |
| 2i2jA | 1 | 0.0483 | 1.8 | 0.981 | Contact Map |
| 3zuxA | 1 | 0.2966 | 1.6 | 0.981 | Contact Map |
| 4n7wA | 2 | 0.3057 | 1.5 | 0.982 | Contact Map |
| 4v1aq | 1 | 0.0851 | 1.4 | 0.982 | Contact Map |
| 1q90L | 1 | 0.0736 | 1.4 | 0.982 | Contact Map |
| 4ogqE | 1 | 0.0713 | 1.3 | 0.982 | Contact Map |
| 3pfzA | 1 | 0.131 | 1.3 | 0.982 | Contact Map |
| 1xkmB | 2 | 0.0575 | 1 | 0.983 | Contact Map |
| 3rqwA | 10 | 0.1287 | 1 | 0.983 | Contact Map |
| 1gotG | 1 | 0.1241 | 1 | 0.984 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)