| dGOT |
| ID: | 1485982307 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 430 (417) | ||
| Sequences: | 71969 (43642.8) | ||
| Seq/Len: | 172.588 | ||
| Nf(neff/√len): | 2137.2 |
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: 172.588).
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 |
| 102_T | 106_S | 4.279 | 1.00 |
| 97_F | 110_L | 3.617 | 1.00 |
| 90_G | 117_F | 3.617 | 1.00 |
| 99_G | 174_I | 3.609 | 1.00 |
| 92_S | 180_G | 2.966 | 1.00 |
| 63_L | 112_A | 2.873 | 1.00 |
| 103_G | 106_S | 2.758 | 1.00 |
| 87_A | 120_P | 2.750 | 1.00 |
| 94_A | 110_L | 2.747 | 1.00 |
| 71_G | 120_P | 2.702 | 1.00 |
| 137_E | 140_S | 2.694 | 1.00 |
| 94_A | 113_I | 2.671 | 1.00 |
| 105_M | 109_G | 2.632 | 1.00 |
| 365_A | 373_T | 2.628 | 1.00 |
| 274_T | 277_K | 2.588 | 1.00 |
| 139_A | 301_D | 2.533 | 1.00 |
| 80_S | 131_S | 2.528 | 1.00 |
| 250_F | 384_G | 2.522 | 1.00 |
| 133_F | 141_A | 2.505 | 1.00 |
| 167_L | 171_W | 2.364 | 1.00 |
| 48_I | 104_L | 2.275 | 1.00 |
| 254_S | 388_V | 2.266 | 1.00 |
| 49_T | 52_E | 2.264 | 1.00 |
| 94_A | 117_F | 2.260 | 1.00 |
| 67_C | 116_I | 2.115 | 1.00 |
| 104_L | 108_I | 2.096 | 1.00 |
| 52_E | 104_L | 2.090 | 1.00 |
| 81_R | 85_F | 2.081 | 1.00 |
| 75_L | 124_T | 2.063 | 1.00 |
| 76_D | 371_G | 2.055 | 1.00 |
| 134_P | 137_E | 2.055 | 1.00 |
| 41_H | 44_E | 2.053 | 1.00 |
| 14_R | 137_E | 2.053 | 1.00 |
| 96_L | 177_G | 2.031 | 1.00 |
| 101_A | 106_S | 2.019 | 1.00 |
| 59_A | 112_A | 2.004 | 1.00 |
| 85_F | 188_F | 1.994 | 1.00 |
| 98_Q | 110_L | 1.993 | 1.00 |
| 185_L | 189_K | 1.984 | 1.00 |
| 89_F | 184_S | 1.968 | 1.00 |
| 258_F | 392_V | 1.964 | 1.00 |
| 366_P | 369_L | 1.917 | 1.00 |
| 106_S | 110_L | 1.909 | 1.00 |
| 288_A | 345_A | 1.892 | 1.00 |
| 85_F | 184_S | 1.869 | 1.00 |
| 22_F | 148_G | 1.845 | 1.00 |
| 74_F | 83_T | 1.842 | 1.00 |
| 59_A | 108_I | 1.795 | 1.00 |
| 406_V | 410_A | 1.794 | 1.00 |
| 79_G | 82_V | 1.786 | 1.00 |
| 98_Q | 107_L | 1.764 | 1.00 |
| 73_W | 77_R | 1.756 | 1.00 |
| 56_V | 107_L | 1.724 | 1.00 |
| 246_Y | 380_A | 1.713 | 1.00 |
| 48_I | 52_E | 1.682 | 1.00 |
| 292_G | 349_F | 1.670 | 1.00 |
| 82_V | 86_I | 1.653 | 1.00 |
| 298_W | 302_L | 1.641 | 1.00 |
| 129_V | 145_Y | 1.623 | 1.00 |
| 67_C | 119_A | 1.595 | 1.00 |
| 101_A | 110_L | 1.590 | 1.00 |
| 186_I | 190_V | 1.579 | 1.00 |
| 273_I | 277_K | 1.579 | 1.00 |
| 92_S | 184_S | 1.576 | 1.00 |
| 92_S | 177_G | 1.563 | 1.00 |
| 39_S | 53_M | 1.552 | 1.00 |
| 277_K | 280_F | 1.550 | 1.00 |
| 41_H | 45_E | 1.511 | 1.00 |
| 86_I | 90_G | 1.498 | 1.00 |
| 105_M | 108_I | 1.496 | 1.00 |
| 43_Q | 53_M | 1.485 | 1.00 |
| 78_V | 82_V | 1.481 | 1.00 |
| 94_A | 114_T | 1.472 | 1.00 |
| 295_L | 298_W | 1.467 | 1.00 |
| 255_T | 412_A | 1.461 | 1.00 |
| 240_R | 244_G | 1.452 | 1.00 |
| 62_W | 386_I | 1.434 | 1.00 |
| 26_V | 152_G | 1.421 | 1.00 |
| 361_V | 377_F | 1.420 | 1.00 |
| 140_S | 298_W | 1.417 | 1.00 |
| 74_F | 78_V | 1.412 | 1.00 |
| 135_E | 138_R | 1.407 | 0.99 |
| 96_L | 100_F | 1.403 | 0.99 |
| 38_A | 164_Q | 1.403 | 0.99 |
| 168_S | 171_W | 1.401 | 0.99 |
| 163_I | 171_W | 1.398 | 0.99 |
| 17_T | 132_W | 1.386 | 0.99 |
| 394_Y | 398_G | 1.383 | 0.99 |
| 174_I | 178_G | 1.381 | 0.99 |
| 90_G | 94_A | 1.368 | 0.99 |
| 299_V | 303_L | 1.364 | 0.99 |
| 15_Y | 19_V | 1.361 | 0.99 |
| 130_T | 138_R | 1.349 | 0.99 |
| 24_T | 121_A | 1.337 | 0.99 |
| 76_D | 372_L | 1.326 | 0.99 |
| 92_S | 181_I | 1.324 | 0.99 |
| 140_S | 301_D | 1.323 | 0.99 |
| 97_F | 100_F | 1.322 | 0.99 |
| 292_G | 295_L | 1.313 | 0.99 |
| 100_F | 174_I | 1.305 | 0.99 |
| 72_G | 76_D | 1.304 | 0.99 |
| 63_L | 67_C | 1.304 | 0.99 |
| 29_Y | 149_Q | 1.301 | 0.99 |
| 268_T | 278_A | 1.298 | 0.99 |
| 18_L | 133_F | 1.297 | 0.99 |
| 297_G | 301_D | 1.294 | 0.99 |
| 266_Y | 271_K | 1.292 | 0.99 |
| 55_Y | 59_A | 1.286 | 0.99 |
| 67_C | 70_P | 1.285 | 0.99 |
| 131_S | 370_I | 1.271 | 0.99 |
| 178_G | 182_I | 1.265 | 0.99 |
| 63_L | 115_G | 1.251 | 0.99 |
| 93_V | 97_F | 1.250 | 0.99 |
| 187_W | 191_Y | 1.250 | 0.99 |
| 243_I | 247_L | 1.243 | 0.98 |
| 43_Q | 50_K | 1.238 | 0.98 |
| 171_W | 174_I | 1.237 | 0.98 |
| 233_D | 369_L | 1.228 | 0.98 |
| 23_I | 183_W | 1.226 | 0.98 |
| 13_R | 16_L | 1.226 | 0.98 |
| 78_V | 83_T | 1.222 | 0.98 |
| 82_V | 85_F | 1.220 | 0.98 |
| 165_E | 276_L | 1.219 | 0.98 |
| 235_K | 369_L | 1.217 | 0.98 |
| 45_E | 170_H | 1.215 | 0.98 |
| 291_V | 294_L | 1.214 | 0.98 |
| 109_G | 113_I | 1.212 | 0.98 |
| 70_P | 73_W | 1.209 | 0.98 |
| 267_L | 273_I | 1.204 | 0.98 |
| 257_W | 385_G | 1.203 | 0.98 |
| 24_T | 84_Y | 1.196 | 0.98 |
| 95_T | 176_T | 1.193 | 0.98 |
| 150_F | 289_A | 1.188 | 0.98 |
| 51_A | 397_Q | 1.186 | 0.98 |
| 140_S | 144_F | 1.184 | 0.98 |
| 268_T | 275_A | 1.184 | 0.98 |
| 97_F | 106_S | 1.181 | 0.98 |
| 305_R | 363_S | 1.181 | 0.98 |
| 87_A | 117_F | 1.180 | 0.98 |
| 75_L | 80_S | 1.176 | 0.98 |
| 85_F | 89_F | 1.167 | 0.97 |
| 38_A | 172_V | 1.161 | 0.97 |
| 242_L | 246_Y | 1.159 | 0.97 |
| 276_L | 280_F | 1.156 | 0.97 |
| 288_A | 292_G | 1.156 | 0.97 |
| 126_N | 142_V | 1.152 | 0.97 |
| 79_G | 83_T | 1.142 | 0.97 |
| 65_T | 386_I | 1.141 | 0.97 |
| 280_F | 284_V | 1.136 | 0.97 |
| 241_K | 364_L | 1.129 | 0.97 |
| 253_A | 381_G | 1.125 | 0.97 |
| 60_F | 118_E | 1.123 | 0.97 |
| 68_Q | 378_N | 1.117 | 0.96 |
| 50_K | 397_Q | 1.116 | 0.96 |
| 162_W | 166_M | 1.116 | 0.96 |
| 11_G | 14_R | 1.114 | 0.96 |
| 177_G | 181_I | 1.113 | 0.96 |
| 45_E | 169_W | 1.112 | 0.96 |
| 369_L | 372_L | 1.110 | 0.96 |
| 251_A | 415_G | 1.105 | 0.96 |
| 88_I | 184_S | 1.104 | 0.96 |
| 132_W | 194_P | 1.103 | 0.96 |
| 57_F | 261_T | 1.101 | 0.96 |
| 265_N | 269_Q | 1.100 | 0.96 |
| 16_L | 190_V | 1.099 | 0.96 |
| 384_G | 388_V | 1.095 | 0.96 |
| 14_R | 133_F | 1.094 | 0.96 |
| 98_Q | 173_F | 1.092 | 0.96 |
| 125_N | 145_Y | 1.092 | 0.96 |
| 158_P | 162_W | 1.084 | 0.96 |
| 106_S | 109_G | 1.082 | 0.96 |
| 273_I | 281_M | 1.079 | 0.95 |
| 80_S | 127_R | 1.077 | 0.95 |
| 235_K | 238_F | 1.076 | 0.95 |
| 95_T | 177_G | 1.073 | 0.95 |
| 102_T | 105_M | 1.072 | 0.95 |
| 298_W | 301_D | 1.072 | 0.95 |
| 410_A | 414_I | 1.067 | 0.95 |
| 138_R | 363_S | 1.063 | 0.95 |
| 287_L | 291_V | 1.062 | 0.95 |
| 86_I | 89_F | 1.061 | 0.95 |
| 43_Q | 48_I | 1.057 | 0.95 |
| 185_L | 188_F | 1.057 | 0.95 |
| 96_L | 174_I | 1.049 | 0.94 |
| 277_K | 281_M | 1.049 | 0.94 |
| 159_L | 162_W | 1.046 | 0.94 |
| 266_Y | 270_E | 1.040 | 0.94 |
| 60_F | 115_G | 1.036 | 0.94 |
| 362_S | 374_G | 1.036 | 0.94 |
| 34_N | 160_L | 1.036 | 0.94 |
| 58_S | 386_I | 1.034 | 0.94 |
| 239_H | 243_I | 1.029 | 0.94 |
| 24_T | 88_I | 1.026 | 0.94 |
| 402_A | 406_V | 1.026 | 0.94 |
| 249_Q | 377_F | 1.025 | 0.93 |
| 338_M | 342_C | 1.025 | 0.93 |
| 21_I | 125_N | 1.022 | 0.93 |
| 136_H | 140_S | 1.021 | 0.93 |
| 55_Y | 390_L | 1.020 | 0.93 |
| 162_W | 276_L | 1.014 | 0.93 |
| 403_P | 406_V | 1.012 | 0.93 |
| 130_T | 370_I | 1.012 | 0.93 |
| 171_W | 175_V | 1.011 | 0.93 |
| 11_G | 15_Y | 1.011 | 0.93 |
| 83_T | 86_I | 1.011 | 0.93 |
| 99_G | 170_H | 1.009 | 0.93 |
| 26_V | 155_F | 1.007 | 0.93 |
| 262_W | 393_G | 1.004 | 0.93 |
| 246_Y | 376_V | 1.003 | 0.93 |
| 147_S | 294_L | 1.000 | 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 | |
| 1pw4A | 1 | 0.9395 | 100 | 0.17 | Contact Map |
| 4j05A | 2 | 0.8512 | 100 | 0.214 | Contact Map |
| 3wdoA | 1 | 0.9093 | 100 | 0.23 | Contact Map |
| 3o7qA | 1 | 0.8907 | 100 | 0.235 | Contact Map |
| 4pypA | 1 | 0.9349 | 100 | 0.243 | Contact Map |
| 2gfpA | 2 | 0.8628 | 100 | 0.256 | Contact Map |
| 4ldsA | 2 | 0.9512 | 100 | 0.271 | Contact Map |
| 4zw9A | 1 | 0 | 100 | 0.28 | Contact Map |
| 2cfqA | 1 | 0.9116 | 100 | 0.291 | Contact Map |
| 4gc0A | 1 | 0.9558 | 100 | 0.291 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)