| T0770 80-488 |
| ID: | 1399570646 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 409 (395) | ||
| Sequences: | 4125 (3645) | ||
| Seq/Len: | 10.443 | ||
| Nf(neff/√len): | 183.4 |
HHblits Results: (2013_03)
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: 10.443).
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 |
| 266_C | 270_L | 4.357 | 1.00 |
| 52_K | 100_E | 3.928 | 1.00 |
| 99_D | 135_K | 3.860 | 1.00 |
| 385_P | 389_T | 3.602 | 1.00 |
| 86_S | 89_S | 3.505 | 1.00 |
| 136_F | 272_L | 3.438 | 1.00 |
| 154_G | 158_Q | 3.289 | 1.00 |
| 26_G | 58_H | 3.218 | 1.00 |
| 144_D | 147_P | 3.100 | 1.00 |
| 96_S | 100_E | 3.074 | 1.00 |
| 202_N | 206_K | 2.989 | 1.00 |
| 268_E | 272_L | 2.953 | 1.00 |
| 133_S | 269_Q | 2.947 | 1.00 |
| 133_S | 264_Y | 2.918 | 1.00 |
| 132_K | 155_T | 2.869 | 1.00 |
| 279_R | 331_L | 2.821 | 1.00 |
| 140_M | 272_L | 2.813 | 1.00 |
| 286_N | 289_K | 2.747 | 1.00 |
| 88_E | 92_N | 2.727 | 1.00 |
| 53_I | 124_M | 2.683 | 1.00 |
| 335_H | 356_S | 2.535 | 1.00 |
| 52_K | 97_L | 2.495 | 1.00 |
| 100_E | 104_I | 2.437 | 1.00 |
| 102_L | 131_A | 2.432 | 1.00 |
| 136_F | 153_I | 2.426 | 1.00 |
| 89_S | 92_N | 2.375 | 1.00 |
| 95_L | 135_K | 2.362 | 1.00 |
| 73_E | 93_G | 2.359 | 1.00 |
| 68_D | 86_S | 2.339 | 1.00 |
| 92_N | 96_S | 2.305 | 1.00 |
| 338_Q | 352_Q | 2.268 | 1.00 |
| 154_G | 273_E | 2.267 | 1.00 |
| 46_N | 52_K | 2.247 | 1.00 |
| 34_I | 46_N | 2.200 | 1.00 |
| 68_D | 84_F | 2.173 | 1.00 |
| 85_D | 89_S | 2.165 | 1.00 |
| 277_Y | 289_K | 2.160 | 1.00 |
| 93_G | 97_L | 2.157 | 1.00 |
| 278_A | 334_I | 2.153 | 1.00 |
| 150_A | 280_G | 2.140 | 1.00 |
| 38_E | 46_N | 2.138 | 1.00 |
| 60_Y | 138_T | 2.127 | 1.00 |
| 132_K | 152_A | 2.124 | 1.00 |
| 146_D | 151_T | 2.098 | 1.00 |
| 137_R | 268_E | 2.075 | 1.00 |
| 273_E | 294_Y | 2.069 | 1.00 |
| 278_A | 331_L | 2.023 | 1.00 |
| 152_A | 155_T | 1.990 | 1.00 |
| 43_V | 104_I | 1.989 | 1.00 |
| 139_L | 147_P | 1.970 | 1.00 |
| 100_E | 103_Q | 1.950 | 1.00 |
| 146_D | 280_G | 1.935 | 1.00 |
| 52_K | 104_I | 1.932 | 1.00 |
| 94_V | 138_T | 1.926 | 1.00 |
| 44_N | 48_I | 1.926 | 1.00 |
| 137_R | 348_E | 1.921 | 1.00 |
| 150_A | 277_Y | 1.920 | 1.00 |
| 147_P | 151_T | 1.916 | 1.00 |
| 71_F | 93_G | 1.911 | 1.00 |
| 135_K | 139_L | 1.910 | 1.00 |
| 55_L | 97_L | 1.900 | 1.00 |
| 150_A | 154_G | 1.890 | 1.00 |
| 56_A | 94_V | 1.884 | 1.00 |
| 102_L | 132_K | 1.883 | 1.00 |
| 35_K | 74_S | 1.881 | 1.00 |
| 326_T | 329_K | 1.854 | 1.00 |
| 62_A | 69_I | 1.849 | 1.00 |
| 273_E | 277_Y | 1.830 | 1.00 |
| 63_T | 87_Q | 1.824 | 1.00 |
| 71_F | 85_D | 1.818 | 1.00 |
| 330_A | 334_I | 1.817 | 1.00 |
| 95_L | 99_D | 1.806 | 1.00 |
| 291_N | 295_K | 1.792 | 1.00 |
| 268_E | 338_Q | 1.789 | 1.00 |
| 335_H | 358_T | 1.776 | 1.00 |
| 68_D | 85_D | 1.766 | 1.00 |
| 336_M | 340_I | 1.759 | 1.00 |
| 68_D | 87_Q | 1.748 | 1.00 |
| 69_I | 90_V | 1.735 | 1.00 |
| 47_A | 104_I | 1.733 | 1.00 |
| 338_Q | 342_L | 1.729 | 1.00 |
| 207_P | 340_I | 1.706 | 1.00 |
| 153_I | 272_L | 1.680 | 1.00 |
| 171_V | 260_P | 1.655 | 1.00 |
| 93_G | 96_S | 1.650 | 1.00 |
| 35_K | 75_W | 1.645 | 1.00 |
| 135_K | 152_A | 1.638 | 1.00 |
| 62_A | 66_W | 1.630 | 1.00 |
| 288_S | 292_E | 1.621 | 1.00 |
| 53_I | 131_A | 1.620 | 1.00 |
| 71_F | 90_V | 1.617 | 1.00 |
| 270_L | 297_G | 1.612 | 1.00 |
| 95_L | 138_T | 1.583 | 1.00 |
| 33_A | 49_A | 1.579 | 1.00 |
| 102_L | 152_A | 1.576 | 1.00 |
| 157_L | 273_E | 1.567 | 1.00 |
| 95_L | 139_L | 1.547 | 1.00 |
| 207_P | 336_M | 1.547 | 1.00 |
| 151_T | 155_T | 1.543 | 1.00 |
| 105_M | 131_A | 1.535 | 1.00 |
| 273_E | 293_L | 1.531 | 1.00 |
| 64_M | 351_V | 1.526 | 1.00 |
| 277_Y | 286_N | 1.522 | 1.00 |
| 150_A | 273_E | 1.506 | 1.00 |
| 349_E | 353_W | 1.501 | 1.00 |
| 165_S | 168_D | 1.495 | 1.00 |
| 277_Y | 280_G | 1.484 | 1.00 |
| 61_E | 64_M | 1.482 | 1.00 |
| 98_L | 134_L | 1.479 | 1.00 |
| 271_L | 338_Q | 1.478 | 1.00 |
| 67_G | 380_R | 1.472 | 1.00 |
| 53_I | 130_L | 1.471 | 1.00 |
| 207_P | 339_W | 1.459 | 1.00 |
| 99_D | 147_P | 1.450 | 1.00 |
| 33_A | 45_H | 1.437 | 1.00 |
| 266_C | 297_G | 1.429 | 1.00 |
| 95_L | 142_M | 1.418 | 1.00 |
| 126_K | 132_K | 1.409 | 1.00 |
| 64_M | 141_V | 1.405 | 0.99 |
| 57_E | 61_E | 1.403 | 0.99 |
| 289_K | 292_E | 1.377 | 0.99 |
| 99_D | 103_Q | 1.341 | 0.99 |
| 205_L | 216_I | 1.337 | 0.99 |
| 99_D | 102_L | 1.335 | 0.99 |
| 63_T | 90_V | 1.335 | 0.99 |
| 331_L | 335_H | 1.332 | 0.99 |
| 350_F | 354_R | 1.330 | 0.99 |
| 148_S | 153_I | 1.328 | 0.99 |
| 244_N | 344_D | 1.325 | 0.99 |
| 269_Q | 272_L | 1.322 | 0.99 |
| 63_T | 91_L | 1.321 | 0.99 |
| 203_Y | 339_W | 1.320 | 0.99 |
| 280_G | 286_N | 1.305 | 0.99 |
| 19_W | 383_Y | 1.300 | 0.99 |
| 31_M | 55_L | 1.290 | 0.99 |
| 60_Y | 64_M | 1.271 | 0.99 |
| 68_D | 90_V | 1.270 | 0.99 |
| 91_L | 138_T | 1.267 | 0.99 |
| 85_D | 90_V | 1.266 | 0.99 |
| 47_A | 52_K | 1.251 | 0.99 |
| 98_L | 138_T | 1.251 | 0.99 |
| 278_A | 330_A | 1.250 | 0.99 |
| 148_S | 272_L | 1.239 | 0.98 |
| 102_L | 155_T | 1.236 | 0.98 |
| 209_Q | 212_N | 1.235 | 0.98 |
| 52_K | 93_G | 1.218 | 0.98 |
| 332_Y | 336_M | 1.217 | 0.98 |
| 204_M | 343_M | 1.204 | 0.98 |
| 279_R | 335_H | 1.200 | 0.98 |
| 48_I | 123_D | 1.195 | 0.98 |
| 37_A | 46_N | 1.192 | 0.98 |
| 296_K | 299_R | 1.191 | 0.98 |
| 270_L | 293_L | 1.177 | 0.98 |
| 332_Y | 358_T | 1.174 | 0.98 |
| 154_G | 289_K | 1.166 | 0.97 |
| 163_V | 166_A | 1.165 | 0.97 |
| 56_A | 134_L | 1.164 | 0.97 |
| 97_L | 100_E | 1.163 | 0.97 |
| 166_A | 169_N | 1.158 | 0.97 |
| 97_L | 101_A | 1.157 | 0.97 |
| 30_L | 49_A | 1.154 | 0.97 |
| 95_L | 144_D | 1.152 | 0.97 |
| 102_L | 135_K | 1.146 | 0.97 |
| 302_C | 305_Y | 1.135 | 0.97 |
| 36_N | 39_E | 1.133 | 0.97 |
| 264_Y | 269_Q | 1.122 | 0.97 |
| 107_L | 126_K | 1.122 | 0.97 |
| 265_S | 345_R | 1.119 | 0.96 |
| 137_R | 264_Y | 1.119 | 0.96 |
| 278_A | 327_Q | 1.102 | 0.96 |
| 141_V | 351_V | 1.092 | 0.96 |
| 327_Q | 331_L | 1.091 | 0.96 |
| 34_I | 49_A | 1.088 | 0.96 |
| 129_T | 168_D | 1.087 | 0.96 |
| 46_N | 100_E | 1.079 | 0.95 |
| 279_R | 356_S | 1.078 | 0.95 |
| 63_T | 406_W | 1.072 | 0.95 |
| 59_M | 69_I | 1.069 | 0.95 |
| 153_I | 156_L | 1.068 | 0.95 |
| 209_Q | 340_I | 1.067 | 0.95 |
| 200_A | 205_L | 1.061 | 0.95 |
| 86_S | 90_V | 1.060 | 0.95 |
| 60_Y | 141_V | 1.053 | 0.95 |
| 65_L | 351_V | 1.051 | 0.94 |
| 54_L | 58_H | 1.045 | 0.94 |
| 34_I | 52_K | 1.037 | 0.94 |
| 63_T | 94_V | 1.033 | 0.94 |
| 301_A | 305_Y | 1.024 | 0.93 |
| 99_D | 139_L | 1.020 | 0.93 |
| 27_G | 30_L | 1.018 | 0.93 |
| 204_M | 339_W | 1.016 | 0.93 |
| 278_A | 287_L | 1.016 | 0.93 |
| 291_N | 330_A | 1.016 | 0.93 |
| 296_K | 300_E | 1.013 | 0.93 |
| 57_E | 134_L | 1.009 | 0.93 |
| 204_M | 207_P | 1.003 | 0.93 |
| 33_A | 37_A | 1.003 | 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 | |
| 3mx3A | 2 | 0.9389 | 100 | 0.22 | Contact Map |
| 3gzsA | 2 | 0.9389 | 100 | 0.222 | Contact Map |
| 3p1uA | 2 | 0.9535 | 100 | 0.228 | Contact Map |
| 3cghA | 1 | 0.9511 | 100 | 0.229 | Contact Map |
| 4lerA | 1 | 0.9315 | 100 | 0.231 | Contact Map |
| 3sghA | 2 | 0.9389 | 100 | 0.233 | Contact Map |
| 4f7aA | 1 | 0.9413 | 100 | 0.236 | Contact Map |
| 3ehmA | 2 | 0.9511 | 100 | 0.237 | Contact Map |
| 4f53A | 2 | 0.9315 | 100 | 0.238 | Contact Map |
| 4mruA | 2 | 0.9169 | 100 | 0.24 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)