| -ACTIVE |
| ID: | 1493643112 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 397 (384) | ||
| Sequences: | 9657 (4453) | ||
| Seq/Len: | 25.148 | ||
| Nf(neff/√len): | 227.2 |
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: 25.148).
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 |
| 80_D | 148_D | 5.574 | 1.00 |
| 144_S | 147_Q | 4.316 | 1.00 |
| 204_Q | 238_K | 4.058 | 1.00 |
| 134_R | 137_E | 3.788 | 1.00 |
| 146_H | 221_D | 3.727 | 1.00 |
| 337_T | 384_E | 3.572 | 1.00 |
| 83_K | 148_D | 3.540 | 1.00 |
| 90_V | 145_L | 3.389 | 1.00 |
| 144_S | 148_D | 3.290 | 1.00 |
| 62_L | 140_E | 3.248 | 1.00 |
| 82_L | 87_I | 3.112 | 1.00 |
| 139_K | 217_E | 2.964 | 1.00 |
| 62_L | 137_E | 2.943 | 1.00 |
| 48_S | 77_T | 2.886 | 1.00 |
| 212_K | 242_Q | 2.780 | 1.00 |
| 145_L | 152_V | 2.746 | 1.00 |
| 138_F | 142_V | 2.731 | 1.00 |
| 79_V | 148_D | 2.637 | 1.00 |
| 244_H | 277_G | 2.458 | 1.00 |
| 100_S | 109_Y | 2.457 | 1.00 |
| 205_K | 209_D | 2.447 | 1.00 |
| 140_E | 144_S | 2.410 | 1.00 |
| 142_V | 152_V | 2.383 | 1.00 |
| 145_L | 150_I | 2.376 | 1.00 |
| 215_V | 250_I | 2.327 | 1.00 |
| 48_S | 78_G | 2.325 | 1.00 |
| 136_K | 139_K | 2.259 | 1.00 |
| 213_F | 218_Y | 2.238 | 1.00 |
| 97_A | 120_V | 2.205 | 1.00 |
| 92_L | 95_V | 2.164 | 1.00 |
| 211_L | 239_A | 2.134 | 1.00 |
| 138_F | 220_V | 2.127 | 1.00 |
| 158_Y | 210_S | 2.091 | 1.00 |
| 42_M | 47_F | 2.081 | 1.00 |
| 141_M | 145_L | 2.074 | 1.00 |
| 119_N | 210_S | 2.053 | 1.00 |
| 135_I | 218_Y | 2.053 | 1.00 |
| 39_I | 333_I | 2.028 | 1.00 |
| 37_E | 88_T | 2.001 | 1.00 |
| 138_F | 154_M | 2.001 | 1.00 |
| 240_A | 244_H | 1.991 | 1.00 |
| 79_V | 145_L | 1.987 | 1.00 |
| 216_N | 246_I | 1.859 | 1.00 |
| 196_I | 203_V | 1.856 | 1.00 |
| 137_E | 140_E | 1.855 | 1.00 |
| 37_E | 89_H | 1.820 | 1.00 |
| 138_F | 141_M | 1.800 | 1.00 |
| 95_V | 138_F | 1.788 | 1.00 |
| 143_L | 147_Q | 1.781 | 1.00 |
| 82_L | 90_V | 1.770 | 1.00 |
| 73_D | 137_E | 1.758 | 1.00 |
| 336_V | 367_A | 1.749 | 1.00 |
| 139_K | 218_Y | 1.747 | 1.00 |
| 49_I | 55_M | 1.746 | 1.00 |
| 23_W | 219_H | 1.745 | 1.00 |
| 73_D | 76_K | 1.743 | 1.00 |
| 335_Y | 338_S | 1.728 | 1.00 |
| 121_P | 138_F | 1.705 | 1.00 |
| 62_L | 65_T | 1.698 | 1.00 |
| 153_N | 222_G | 1.681 | 1.00 |
| 38_V | 87_I | 1.679 | 1.00 |
| 120_V | 135_I | 1.664 | 1.00 |
| 82_L | 150_I | 1.659 | 1.00 |
| 64_L | 141_M | 1.659 | 1.00 |
| 161_T | 177_Y | 1.658 | 1.00 |
| 368_Q | 384_E | 1.650 | 1.00 |
| 213_F | 217_E | 1.647 | 1.00 |
| 197_A | 200_R | 1.641 | 1.00 |
| 208_I | 242_Q | 1.594 | 1.00 |
| 219_H | 247_D | 1.593 | 1.00 |
| 89_H | 151_G | 1.588 | 1.00 |
| 39_I | 89_H | 1.569 | 1.00 |
| 284_N | 334_N | 1.567 | 1.00 |
| 42_M | 64_L | 1.566 | 1.00 |
| 78_G | 81_S | 1.546 | 1.00 |
| 26_D | 219_H | 1.521 | 1.00 |
| 44_V | 64_L | 1.509 | 1.00 |
| 75_V | 92_L | 1.507 | 1.00 |
| 119_N | 213_F | 1.505 | 1.00 |
| 47_F | 78_G | 1.505 | 1.00 |
| 243_L | 250_I | 1.502 | 1.00 |
| 83_K | 150_I | 1.478 | 1.00 |
| 112_G | 130_N | 1.475 | 1.00 |
| 361_I | 365_E | 1.474 | 1.00 |
| 42_M | 90_V | 1.465 | 1.00 |
| 242_Q | 245_A | 1.464 | 1.00 |
| 212_K | 216_N | 1.459 | 1.00 |
| 92_L | 141_M | 1.458 | 1.00 |
| 87_I | 150_I | 1.453 | 1.00 |
| 96_F | 115_P | 1.446 | 1.00 |
| 97_A | 123_G | 1.445 | 1.00 |
| 238_K | 242_Q | 1.428 | 1.00 |
| 205_K | 242_Q | 1.417 | 1.00 |
| 76_K | 144_S | 1.414 | 1.00 |
| 39_I | 153_N | 1.403 | 0.99 |
| 73_D | 77_T | 1.403 | 0.99 |
| 372_M | 380_M | 1.402 | 0.99 |
| 97_A | 122_E | 1.390 | 0.99 |
| 65_T | 144_S | 1.381 | 0.99 |
| 66_E | 144_S | 1.375 | 0.99 |
| 202_M | 205_K | 1.373 | 0.99 |
| 161_T | 196_I | 1.370 | 0.99 |
| 121_P | 214_W | 1.343 | 0.99 |
| 345_W | 364_D | 1.340 | 0.99 |
| 44_V | 92_L | 1.335 | 0.99 |
| 119_N | 209_D | 1.319 | 0.99 |
| 97_A | 116_R | 1.310 | 0.99 |
| 76_K | 140_E | 1.302 | 0.99 |
| 240_A | 252_L | 1.291 | 0.99 |
| 226_D | 340_D | 1.290 | 0.99 |
| 198_A | 207_I | 1.287 | 0.99 |
| 355_D | 359_D | 1.284 | 0.99 |
| 65_T | 140_E | 1.282 | 0.99 |
| 369_A | 373_T | 1.281 | 0.99 |
| 212_K | 246_I | 1.277 | 0.99 |
| 241_T | 267_D | 1.275 | 0.99 |
| 42_M | 82_L | 1.264 | 0.99 |
| 42_M | 75_V | 1.257 | 0.99 |
| 115_P | 118_Y | 1.243 | 0.98 |
| 79_V | 144_S | 1.239 | 0.98 |
| 295_V | 370_I | 1.235 | 0.98 |
| 364_D | 387_L | 1.235 | 0.98 |
| 24_E | 143_L | 1.234 | 0.98 |
| 208_I | 212_K | 1.231 | 0.98 |
| 89_H | 153_N | 1.229 | 0.98 |
| 368_Q | 380_M | 1.228 | 0.98 |
| 211_L | 223_F | 1.225 | 0.98 |
| 291_L | 367_A | 1.224 | 0.98 |
| 215_V | 243_L | 1.222 | 0.98 |
| 208_I | 238_K | 1.211 | 0.98 |
| 317_G | 374_S | 1.210 | 0.98 |
| 96_F | 210_S | 1.209 | 0.98 |
| 153_N | 253_Y | 1.195 | 0.98 |
| 119_N | 206_F | 1.192 | 0.98 |
| 21_A | 143_L | 1.185 | 0.98 |
| 42_M | 382_G | 1.181 | 0.98 |
| 37_E | 251_A | 1.176 | 0.98 |
| 255_E | 340_D | 1.175 | 0.98 |
| 97_A | 129_A | 1.171 | 0.98 |
| 61_Y | 126_A | 1.168 | 0.97 |
| 21_A | 24_E | 1.167 | 0.97 |
| 357_E | 389_T | 1.160 | 0.97 |
| 226_D | 255_E | 1.159 | 0.97 |
| 47_F | 81_S | 1.159 | 0.97 |
| 157_V | 160_H | 1.152 | 0.97 |
| 318_V | 328_S | 1.151 | 0.97 |
| 234_D | 237_S | 1.150 | 0.97 |
| 81_S | 84_Q | 1.142 | 0.97 |
| 287_L | 374_S | 1.133 | 0.97 |
| 208_I | 239_A | 1.131 | 0.97 |
| 255_E | 339_H | 1.124 | 0.97 |
| 181_D | 185_N | 1.122 | 0.97 |
| 95_V | 154_M | 1.121 | 0.97 |
| 295_V | 367_A | 1.118 | 0.96 |
| 169_F | 206_F | 1.113 | 0.96 |
| 380_M | 384_E | 1.111 | 0.96 |
| 224_R | 340_D | 1.110 | 0.96 |
| 154_M | 220_V | 1.109 | 0.96 |
| 355_D | 358_A | 1.098 | 0.96 |
| 73_D | 140_E | 1.096 | 0.96 |
| 238_K | 241_T | 1.095 | 0.96 |
| 156_V | 223_F | 1.090 | 0.96 |
| 293_G | 313_A | 1.085 | 0.96 |
| 235_T | 239_A | 1.085 | 0.96 |
| 43_D | 93_Q | 1.083 | 0.96 |
| 211_L | 243_L | 1.079 | 0.95 |
| 241_T | 245_A | 1.077 | 0.95 |
| 36_D | 88_T | 1.073 | 0.95 |
| 117_N | 120_V | 1.072 | 0.95 |
| 160_H | 340_D | 1.070 | 0.95 |
| 41_E | 93_Q | 1.068 | 0.95 |
| 87_I | 380_M | 1.067 | 0.95 |
| 145_L | 148_D | 1.063 | 0.95 |
| 14_D | 17_K | 1.061 | 0.95 |
| 100_S | 114_D | 1.057 | 0.95 |
| 136_K | 140_E | 1.052 | 0.95 |
| 82_L | 86_G | 1.050 | 0.94 |
| 118_Y | 196_I | 1.049 | 0.94 |
| 287_L | 291_L | 1.048 | 0.94 |
| 215_V | 247_D | 1.037 | 0.94 |
| 88_T | 150_I | 1.035 | 0.94 |
| 333_I | 379_F | 1.027 | 0.94 |
| 158_Y | 225_F | 1.022 | 0.93 |
| 76_K | 137_E | 1.020 | 0.93 |
| 160_H | 339_H | 1.018 | 0.93 |
| 155_D | 224_R | 1.015 | 0.93 |
| 163_A | 185_N | 1.011 | 0.93 |
| 160_H | 226_D | 1.009 | 0.93 |
| 195_E | 230_L | 1.004 | 0.93 |
| 283_F | 379_F | 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 | |
| 2wanA | 1 | 0.995 | 100 | 0.155 | Contact Map |
| 3wdhA | 1 | 0.9798 | 100 | 0.18 | Contact Map |
| 2e8yA | 2 | 0.9798 | 100 | 0.191 | Contact Map |
| 4j3vA | 1 | 0.9849 | 100 | 0.272 | Contact Map |
| 3fawA | 1 | 0.9496 | 100 | 0.273 | Contact Map |
| 2ya1A | 1 | 0.9622 | 100 | 0.276 | Contact Map |
| 1ea9C | 2 | 0.8589 | 100 | 0.277 | Contact Map |
| 1j0hA | 2 | 0.8589 | 100 | 0.28 | Contact Map |
| 1bf2A | 1 | 0.9219 | 100 | 0.281 | Contact Map |
| 2ya0A | 1 | 0.9572 | 100 | 0.283 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)