| I67-69 |
| ID: | 1419806984 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 284 (279) | ||
| Sequences: | 9764 (7034.6) | ||
| Seq/Len: | 34.996 | ||
| Nf(neff/√len): | 421.2 |
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: 34.996).
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 |
| 27_C | 78_C | 3.666 | 1.00 |
| 214_C | 265_C | 3.598 | 1.00 |
| 218_G | 222_F | 3.403 | 1.00 |
| 31_G | 35_I | 2.904 | 1.00 |
| 121_C | 172_C | 2.855 | 1.00 |
| 17_L | 68_V | 2.828 | 1.00 |
| 227_H | 266_K | 2.791 | 1.00 |
| 125_G | 129_I | 2.745 | 1.00 |
| 117_T | 187_L | 2.661 | 1.00 |
| 134_Y | 173_E | 2.554 | 1.00 |
| 23_G | 93_L | 2.547 | 1.00 |
| 238_K | 259_D | 2.381 | 1.00 |
| 204_T | 255_V | 2.350 | 1.00 |
| 111_V | 162_L | 2.336 | 1.00 |
| 25_F | 93_L | 2.231 | 1.00 |
| 40_A | 79_Y | 2.102 | 1.00 |
| 119_Y | 187_L | 2.077 | 1.00 |
| 205_L | 208_A | 2.075 | 1.00 |
| 211_H | 251_H | 2.024 | 1.00 |
| 24_T | 64_T | 1.989 | 1.00 |
| 268_S | 273_S | 1.945 | 1.00 |
| 210_V | 280_I | 1.931 | 1.00 |
| 77_T | 90_S | 1.806 | 1.00 |
| 176_N | 179_G | 1.799 | 1.00 |
| 171_T | 184_S | 1.776 | 1.00 |
| 133_W | 157_L | 1.735 | 1.00 |
| 118_R | 158_E | 1.732 | 1.00 |
| 269_N | 272_G | 1.725 | 1.00 |
| 135_K | 170_Y | 1.698 | 1.00 |
| 173_E | 182_S | 1.674 | 1.00 |
| 212_L | 280_I | 1.673 | 1.00 |
| 39_W | 63_L | 1.666 | 1.00 |
| 41_K | 76_Y | 1.660 | 1.00 |
| 112_K | 115_E | 1.651 | 1.00 |
| 135_K | 166_D | 1.634 | 1.00 |
| 35_I | 80_A | 1.631 | 1.00 |
| 216_L | 267_A | 1.622 | 1.00 |
| 75_Q | 90_S | 1.617 | 1.00 |
| 228_K | 261_G | 1.600 | 1.00 |
| 40_A | 77_T | 1.593 | 1.00 |
| 191_E | 218_G | 1.593 | 1.00 |
| 120_E | 156_V | 1.592 | 1.00 |
| 75_Q | 92_Q | 1.578 | 1.00 |
| 227_H | 264_Q | 1.574 | 1.00 |
| 209_D | 253_L | 1.533 | 1.00 |
| 19_L | 70_K | 1.530 | 1.00 |
| 40_A | 45_E | 1.527 | 1.00 |
| 81_S | 86_K | 1.520 | 1.00 |
| 211_H | 249_S | 1.517 | 1.00 |
| 51_N | 72_D | 1.511 | 1.00 |
| 29_V | 80_A | 1.511 | 1.00 |
| 169_D | 184_S | 1.503 | 1.00 |
| 266_K | 275_T | 1.502 | 1.00 |
| 169_D | 186_S | 1.483 | 1.00 |
| 38_T | 79_Y | 1.455 | 1.00 |
| 22_S | 66_L | 1.455 | 1.00 |
| 175_H | 180_S | 1.442 | 1.00 |
| 145_K | 166_D | 1.432 | 1.00 |
| 29_V | 37_I | 1.421 | 1.00 |
| 118_R | 156_V | 1.412 | 1.00 |
| 134_Y | 139_E | 1.412 | 1.00 |
| 228_K | 263_Y | 1.401 | 0.99 |
| 136_D | 140_I | 1.394 | 0.99 |
| 225_S | 266_K | 1.383 | 0.99 |
| 228_K | 259_D | 1.380 | 0.99 |
| 82_N | 85_G | 1.367 | 0.99 |
| 213_E | 249_S | 1.363 | 0.99 |
| 195_F | 274_Y | 1.361 | 0.99 |
| 113_Q | 164_V | 1.358 | 0.99 |
| 121_C | 214_C | 1.354 | 0.99 |
| 26_K | 62_T | 1.341 | 0.99 |
| 17_L | 23_G | 1.339 | 0.99 |
| 111_V | 117_T | 1.337 | 0.99 |
| 132_L | 173_E | 1.337 | 0.99 |
| 18_A | 21_E | 1.315 | 0.99 |
| 193_P | 220_P | 1.314 | 0.99 |
| 101_F | 104_K | 1.309 | 0.99 |
| 171_T | 182_S | 1.306 | 0.99 |
| 22_S | 64_T | 1.305 | 0.99 |
| 209_D | 251_H | 1.303 | 0.99 |
| 77_T | 88_S | 1.299 | 0.99 |
| 210_V | 252_I | 1.281 | 0.99 |
| 24_T | 62_T | 1.278 | 0.99 |
| 193_P | 272_G | 1.276 | 0.99 |
| 23_G | 68_V | 1.269 | 0.99 |
| 68_V | 95_V | 1.266 | 0.99 |
| 14_S | 92_Q | 1.264 | 0.99 |
| 41_K | 72_D | 1.260 | 0.99 |
| 227_H | 232_E | 1.259 | 0.99 |
| 245_N | 248_T | 1.259 | 0.99 |
| 210_V | 255_V | 1.259 | 0.99 |
| 116_H | 160_Y | 1.258 | 0.99 |
| 264_Q | 275_T | 1.252 | 0.99 |
| 116_H | 161_N | 1.249 | 0.99 |
| 31_G | 82_N | 1.248 | 0.99 |
| 25_F | 91_A | 1.248 | 0.99 |
| 216_L | 224_V | 1.241 | 0.98 |
| 27_C | 121_C | 1.240 | 0.98 |
| 193_P | 269_N | 1.232 | 0.98 |
| 212_L | 226_W | 1.231 | 0.98 |
| 73_A | 76_Y | 1.223 | 0.98 |
| 218_G | 269_N | 1.220 | 0.98 |
| 135_K | 168_G | 1.208 | 0.98 |
| 172_C | 265_C | 1.197 | 0.98 |
| 204_T | 210_V | 1.196 | 0.98 |
| 134_Y | 171_T | 1.195 | 0.98 |
| 123_I | 131_V | 1.195 | 0.98 |
| 209_D | 254_N | 1.194 | 0.98 |
| 22_S | 67_K | 1.185 | 0.98 |
| 206_K | 257_S | 1.180 | 0.98 |
| 167_S | 189_V | 1.179 | 0.98 |
| 136_D | 171_T | 1.174 | 0.98 |
| 38_T | 45_E | 1.174 | 0.98 |
| 225_S | 268_S | 1.159 | 0.97 |
| 264_Q | 277_V | 1.154 | 0.97 |
| 164_V | 191_E | 1.151 | 0.97 |
| 37_I | 61_A | 1.151 | 0.97 |
| 188_K | 219_T | 1.147 | 0.97 |
| 8_F | 11_K | 1.147 | 0.97 |
| 133_W | 226_W | 1.144 | 0.97 |
| 252_I | 255_V | 1.143 | 0.97 |
| 132_L | 139_E | 1.142 | 0.97 |
| 119_Y | 170_Y | 1.141 | 0.97 |
| 132_L | 175_H | 1.141 | 0.97 |
| 229_D | 233_L | 1.139 | 0.97 |
| 119_Y | 133_W | 1.132 | 0.97 |
| 105_L | 183_S | 1.126 | 0.97 |
| 218_G | 221_P | 1.110 | 0.96 |
| 123_I | 174_A | 1.110 | 0.96 |
| 79_Y | 88_S | 1.108 | 0.96 |
| 111_V | 187_L | 1.108 | 0.96 |
| 39_W | 226_W | 1.099 | 0.96 |
| 27_C | 214_C | 1.091 | 0.96 |
| 14_S | 91_A | 1.091 | 0.96 |
| 230_K | 264_Q | 1.086 | 0.96 |
| 25_F | 39_W | 1.082 | 0.96 |
| 257_S | 260_I | 1.080 | 0.95 |
| 212_L | 263_Y | 1.078 | 0.95 |
| 116_H | 158_E | 1.078 | 0.95 |
| 117_T | 162_L | 1.073 | 0.95 |
| 97_E | 126_S | 1.072 | 0.95 |
| 252_I | 259_D | 1.072 | 0.95 |
| 37_I | 80_A | 1.069 | 0.95 |
| 214_C | 226_W | 1.064 | 0.95 |
| 78_C | 265_C | 1.060 | 0.95 |
| 70_K | 97_E | 1.059 | 0.95 |
| 12_P | 89_C | 1.058 | 0.95 |
| 97_E | 125_G | 1.053 | 0.95 |
| 38_T | 81_S | 1.050 | 0.94 |
| 73_A | 95_V | 1.040 | 0.94 |
| 101_F | 181_A | 1.034 | 0.94 |
| 101_F | 105_L | 1.029 | 0.94 |
| 31_G | 34_P | 1.027 | 0.94 |
| 225_S | 232_E | 1.022 | 0.93 |
| 159_M | 166_D | 1.015 | 0.93 |
| 35_I | 82_N | 1.006 | 0.93 |
| 259_D | 263_Y | 1.002 | 0.92 |
| 250_I | 253_L | 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 | |
| 2rikA | 1 | 0.9965 | 100 | 0.07 | Contact Map |
| 3b43A | 1 | 1 | 100 | 0.095 | Contact Map |
| 3lafA | 1 | 0.9683 | 100 | 0.191 | Contact Map |
| 2yd9A | 1 | 0.9331 | 100 | 0.197 | Contact Map |
| 2wimA | 2 | 0.9507 | 100 | 0.204 | Contact Map |
| 1qz1A | 1 | 0.9718 | 100 | 0.214 | Contact Map |
| 2y25A | 4 | 0.9859 | 100 | 0.22 | Contact Map |
| 2ec8A | 1 | 0.9296 | 100 | 0.23 | Contact Map |
| 3dmkA | 3 | 0.9718 | 100 | 0.236 | Contact Map |
| 1cs6A | 1 | 0.9577 | 100 | 0.243 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)