| TRPV1_control 100-370 |
| ID: | 1706052684 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 271 (244) | ||
| Sequences: | 10678 (8500) | ||
| Seq/Len: | 43.762 | ||
| Nf(neff/√len): | 544.2 |
HHblits Results: (2016_02)
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 |
| 151_E | 183_D | 3.357 | 1.00 |
| 31_L | 74_T | 3.152 | 1.00 |
| 187_N | 232_N | 2.916 | 1.00 |
| 155_S | 189_V | 2.652 | 1.00 |
| 16_R | 52_D | 2.534 | 1.00 |
| 183_D | 187_N | 2.397 | 1.00 |
| 104_Q | 133_A | 2.344 | 1.00 |
| 35_L | 77_L | 2.205 | 1.00 |
| 20_F | 59_C | 2.116 | 1.00 |
| 19_I | 31_L | 2.090 | 1.00 |
| 26_N | 71_Q | 2.090 | 1.00 |
| 60_L | 75_I | 2.079 | 1.00 |
| 107_L | 119_V | 2.056 | 1.00 |
| 75_I | 118_L | 2.041 | 1.00 |
| 154_L | 166_V | 2.034 | 1.00 |
| 236_M | 266_H | 2.010 | 1.00 |
| 111_I | 114_R | 1.906 | 1.00 |
| 232_N | 236_M | 1.886 | 1.00 |
| 27_N | 30_D | 1.856 | 1.00 |
| 191_H | 238_P | 1.811 | 1.00 |
| 211_Y | 250_V | 1.787 | 1.00 |
| 173_S | 177_A | 1.772 | 1.00 |
| 215_L | 253_Y | 1.709 | 1.00 |
| 243_A | 251_L | 1.657 | 1.00 |
| 52_D | 57_K | 1.655 | 1.00 |
| 61_L | 106_A | 1.645 | 1.00 |
| 12_R | 16_R | 1.645 | 1.00 |
| 215_L | 221_L | 1.643 | 1.00 |
| 23_V | 26_N | 1.607 | 1.00 |
| 123_V | 129_V | 1.599 | 1.00 |
| 158_A | 161_N | 1.593 | 1.00 |
| 33_S | 37_F | 1.585 | 1.00 |
| 168_F | 172_N | 1.558 | 1.00 |
| 32_E | 77_L | 1.551 | 1.00 |
| 77_L | 81_I | 1.549 | 1.00 |
| 23_V | 74_T | 1.546 | 1.00 |
| 104_Q | 112_E | 1.544 | 1.00 |
| 57_K | 98_D | 1.542 | 1.00 |
| 28_C | 73_T | 1.536 | 1.00 |
| 52_D | 62_K | 1.536 | 1.00 |
| 236_M | 244_G | 1.518 | 1.00 |
| 36_L | 81_I | 1.516 | 1.00 |
| 253_Y | 257_R | 1.498 | 1.00 |
| 79_L | 85_T | 1.495 | 1.00 |
| 28_C | 77_L | 1.488 | 1.00 |
| 239_L | 251_L | 1.477 | 1.00 |
| 243_A | 246_G | 1.472 | 1.00 |
| 119_V | 165_I | 1.458 | 1.00 |
| 42_K | 46_T | 1.457 | 1.00 |
| 64_M | 70_G | 1.455 | 1.00 |
| 115_N | 118_L | 1.453 | 1.00 |
| 213_E | 217_L | 1.453 | 1.00 |
| 121_L | 125_N | 1.438 | 1.00 |
| 255_L | 262_P | 1.437 | 1.00 |
| 187_N | 195_E | 1.406 | 0.99 |
| 38_L | 42_K | 1.397 | 0.99 |
| 76_P | 80_E | 1.397 | 0.99 |
| 57_K | 65_L | 1.396 | 0.99 |
| 64_M | 75_I | 1.395 | 0.99 |
| 215_L | 257_R | 1.373 | 0.99 |
| 194_V | 197_A | 1.367 | 0.99 |
| 120_T | 124_E | 1.362 | 0.99 |
| 167_K | 171_Q | 1.358 | 0.99 |
| 70_G | 115_N | 1.354 | 0.99 |
| 240_A | 243_A | 1.341 | 0.99 |
| 32_E | 36_L | 1.337 | 0.99 |
| 16_R | 24_A | 1.326 | 0.99 |
| 108_H | 191_H | 1.310 | 0.99 |
| 183_D | 192_A | 1.304 | 0.99 |
| 147_F | 151_E | 1.300 | 0.99 |
| 116_M | 120_T | 1.299 | 0.99 |
| 61_L | 155_S | 1.294 | 0.99 |
| 23_V | 31_L | 1.292 | 0.99 |
| 28_C | 74_T | 1.284 | 0.99 |
| 170_L | 179_I | 1.275 | 0.99 |
| 49_E | 83_R | 1.274 | 0.99 |
| 248_I | 252_A | 1.269 | 0.99 |
| 63_A | 75_I | 1.265 | 0.99 |
| 155_S | 191_H | 1.264 | 0.99 |
| 108_H | 240_A | 1.255 | 0.99 |
| 22_A | 31_L | 1.243 | 0.98 |
| 247_K | 250_V | 1.240 | 0.98 |
| 191_H | 240_A | 1.228 | 0.98 |
| 216_M | 257_R | 1.220 | 0.98 |
| 162_Q | 165_I | 1.216 | 0.98 |
| 194_V | 250_V | 1.215 | 0.98 |
| 197_A | 247_K | 1.211 | 0.98 |
| 137_F | 147_F | 1.210 | 0.98 |
| 158_A | 166_V | 1.206 | 0.98 |
| 23_V | 71_Q | 1.188 | 0.98 |
| 35_L | 48_N | 1.187 | 0.98 |
| 157_A | 166_V | 1.179 | 0.98 |
| 163_L | 167_K | 1.177 | 0.98 |
| 155_S | 240_A | 1.172 | 0.98 |
| 78_L | 83_R | 1.168 | 0.97 |
| 72_N | 76_P | 1.167 | 0.97 |
| 71_Q | 74_T | 1.162 | 0.97 |
| 58_T | 83_R | 1.157 | 0.97 |
| 169_L | 177_A | 1.157 | 0.97 |
| 122_L | 127_A | 1.151 | 0.97 |
| 35_L | 81_I | 1.141 | 0.97 |
| 166_V | 206_F | 1.139 | 0.97 |
| 166_V | 210_M | 1.127 | 0.97 |
| 61_L | 191_H | 1.127 | 0.97 |
| 155_S | 192_A | 1.126 | 0.97 |
| 111_I | 119_V | 1.122 | 0.97 |
| 72_N | 121_L | 1.120 | 0.96 |
| 76_P | 121_L | 1.084 | 0.96 |
| 64_M | 118_L | 1.078 | 0.95 |
| 178_D | 181_A | 1.072 | 0.95 |
| 28_C | 32_E | 1.070 | 0.95 |
| 239_L | 255_L | 1.067 | 0.95 |
| 212_N | 216_M | 1.063 | 0.95 |
| 254_I | 259_I | 1.063 | 0.95 |
| 20_F | 108_H | 1.060 | 0.95 |
| 23_V | 69_D | 1.059 | 0.95 |
| 79_L | 121_L | 1.059 | 0.95 |
| 125_N | 172_N | 1.054 | 0.95 |
| 58_T | 61_L | 1.054 | 0.95 |
| 151_E | 159_C | 1.050 | 0.94 |
| 20_F | 62_K | 1.048 | 0.94 |
| 252_A | 256_Q | 1.046 | 0.94 |
| 161_N | 198_D | 1.043 | 0.94 |
| 72_N | 117_A | 1.039 | 0.94 |
| 232_N | 241_L | 1.037 | 0.94 |
| 172_N | 257_R | 1.018 | 0.93 |
| 62_K | 109_I | 1.017 | 0.93 |
| 30_D | 33_S | 1.011 | 0.93 |
| 190_L | 211_Y | 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 | |
| 4rlvA | 1 | 0.7934 | 100 | 0.169 | Contact Map |
| 4oavB | 2 | 0.845 | 100 | 0.178 | Contact Map |
| 3j5pB | 4 | 0.9151 | 100 | 0.18 | Contact Map |
| 2pnnA | 1 | 0.8745 | 100 | 0.182 | Contact Map |
| 1oy3D | 1 | 0.786 | 100 | 0.192 | Contact Map |
| 4rlyA | 1 | 0.8007 | 100 | 0.196 | Contact Map |
| 3utmA | 2 | 0.845 | 100 | 0.203 | Contact Map |
| 3w9fA | 4 | 0.9262 | 100 | 0.207 | Contact Map |
| 3j9pD | 4 | 0 | 100 | 0.211 | Contact Map |
| 4ot9A | 1 | 0.8266 | 100 | 0.212 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)