| Gustav |
| ID: | 1494585324 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 376 (355) | ||
| Sequences: | 9597 (5147.6) | ||
| Seq/Len: | 27.034 | ||
| Nf(neff/√len): | 273.2 |
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: 27.034).
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 |
| 159_T | 208_K | 4.261 | 1.00 |
| 225_E | 268_Y | 3.476 | 1.00 |
| 72_S | 168_E | 3.454 | 1.00 |
| 108_F | 183_G | 3.279 | 1.00 |
| 212_S | 215_N | 3.181 | 1.00 |
| 170_R | 226_A | 3.176 | 1.00 |
| 157_L | 165_I | 2.984 | 1.00 |
| 100_V | 107_F | 2.973 | 1.00 |
| 32_V | 326_L | 2.947 | 1.00 |
| 155_R | 161_E | 2.899 | 1.00 |
| 87_K | 175_N | 2.876 | 1.00 |
| 174_R | 230_E | 2.846 | 1.00 |
| 20_C | 326_L | 2.720 | 1.00 |
| 157_L | 161_E | 2.616 | 1.00 |
| 237_G | 272_Y | 2.550 | 1.00 |
| 21_K | 26_E | 2.543 | 1.00 |
| 194_I | 219_F | 2.443 | 1.00 |
| 48_P | 95_P | 2.411 | 1.00 |
| 167_N | 171_V | 2.363 | 1.00 |
| 17_M | 344_E | 2.347 | 1.00 |
| 101_H | 182_D | 2.307 | 1.00 |
| 174_R | 178_E | 2.245 | 1.00 |
| 194_I | 220_A | 2.243 | 1.00 |
| 215_N | 218_R | 2.221 | 1.00 |
| 94_K | 98_D | 2.212 | 1.00 |
| 55_S | 103_K | 2.193 | 1.00 |
| 220_A | 238_I | 2.192 | 1.00 |
| 159_T | 209_Y | 2.181 | 1.00 |
| 305_I | 328_A | 2.147 | 1.00 |
| 158_T | 161_E | 2.139 | 1.00 |
| 164_Q | 168_E | 2.114 | 1.00 |
| 171_V | 175_N | 2.091 | 1.00 |
| 55_S | 99_A | 2.088 | 1.00 |
| 217_C | 264_S | 2.064 | 1.00 |
| 159_T | 162_I | 2.036 | 1.00 |
| 317_R | 321_E | 2.012 | 1.00 |
| 90_V | 178_E | 1.986 | 1.00 |
| 209_Y | 222_E | 1.962 | 1.00 |
| 93_W | 181_F | 1.956 | 1.00 |
| 188_G | 238_I | 1.947 | 1.00 |
| 163_P | 222_E | 1.939 | 1.00 |
| 15_P | 18_S | 1.916 | 1.00 |
| 69_T | 109_C | 1.906 | 1.00 |
| 177_I | 231_I | 1.896 | 1.00 |
| 170_R | 230_E | 1.893 | 1.00 |
| 159_T | 163_P | 1.882 | 1.00 |
| 351_K | 372_L | 1.876 | 1.00 |
| 260_Y | 264_S | 1.874 | 1.00 |
| 51_I | 95_P | 1.870 | 1.00 |
| 194_I | 223_I | 1.867 | 1.00 |
| 33_L | 57_R | 1.835 | 1.00 |
| 111_I | 172_A | 1.827 | 1.00 |
| 56_Q | 338_D | 1.824 | 1.00 |
| 97_V | 181_F | 1.823 | 1.00 |
| 130_I | 157_L | 1.820 | 1.00 |
| 98_D | 102_A | 1.810 | 1.00 |
| 36_L | 330_G | 1.777 | 1.00 |
| 52_L | 55_S | 1.771 | 1.00 |
| 163_P | 208_K | 1.771 | 1.00 |
| 134_D | 156_R | 1.736 | 1.00 |
| 167_N | 226_A | 1.736 | 1.00 |
| 220_A | 261_M | 1.708 | 1.00 |
| 87_K | 178_E | 1.701 | 1.00 |
| 264_S | 267_K | 1.679 | 1.00 |
| 31_V | 340_P | 1.676 | 1.00 |
| 51_I | 99_A | 1.656 | 1.00 |
| 297_R | 325_D | 1.647 | 1.00 |
| 307_A | 328_A | 1.630 | 1.00 |
| 177_I | 232_G | 1.616 | 1.00 |
| 336_N | 342_R | 1.609 | 1.00 |
| 218_R | 222_E | 1.559 | 1.00 |
| 84_I | 172_A | 1.538 | 1.00 |
| 61_G | 333_F | 1.524 | 1.00 |
| 341_K | 345_L | 1.516 | 1.00 |
| 33_L | 64_L | 1.506 | 1.00 |
| 32_V | 305_I | 1.498 | 1.00 |
| 163_P | 209_Y | 1.496 | 1.00 |
| 109_C | 176_A | 1.493 | 1.00 |
| 28_C | 106_I | 1.485 | 1.00 |
| 316_N | 320_I | 1.482 | 1.00 |
| 226_A | 229_N | 1.473 | 1.00 |
| 156_R | 206_S | 1.471 | 1.00 |
| 217_C | 260_Y | 1.465 | 1.00 |
| 90_V | 175_N | 1.462 | 1.00 |
| 188_G | 194_I | 1.454 | 1.00 |
| 173_A | 227_V | 1.454 | 1.00 |
| 341_K | 344_E | 1.449 | 1.00 |
| 352_Y | 357_F | 1.442 | 1.00 |
| 97_V | 107_F | 1.437 | 1.00 |
| 161_E | 164_Q | 1.431 | 1.00 |
| 224_V | 265_L | 1.429 | 1.00 |
| 171_V | 174_R | 1.427 | 1.00 |
| 221_L | 268_Y | 1.420 | 1.00 |
| 51_I | 96_I | 1.409 | 1.00 |
| 27_L | 63_L | 1.395 | 0.99 |
| 226_A | 230_E | 1.393 | 0.99 |
| 221_L | 264_S | 1.388 | 0.99 |
| 82_P | 93_W | 1.388 | 0.99 |
| 66_G | 107_F | 1.386 | 0.99 |
| 221_L | 225_E | 1.381 | 0.99 |
| 177_I | 234_D | 1.376 | 0.99 |
| 48_P | 52_L | 1.375 | 0.99 |
| 25_F | 106_I | 1.370 | 0.99 |
| 213_L | 217_C | 1.369 | 0.99 |
| 318_A | 324_A | 1.368 | 0.99 |
| 46_P | 93_W | 1.348 | 0.99 |
| 84_I | 109_C | 1.340 | 0.99 |
| 170_R | 174_R | 1.340 | 0.99 |
| 90_V | 179_A | 1.336 | 0.99 |
| 98_D | 101_H | 1.332 | 0.99 |
| 27_L | 326_L | 1.321 | 0.99 |
| 170_R | 229_N | 1.319 | 0.99 |
| 217_C | 221_L | 1.318 | 0.99 |
| 225_E | 229_N | 1.314 | 0.99 |
| 33_L | 333_F | 1.313 | 0.99 |
| 333_F | 340_P | 1.312 | 0.99 |
| 231_I | 236_V | 1.309 | 0.99 |
| 167_N | 170_R | 1.305 | 0.99 |
| 116_R | 202_V | 1.297 | 0.99 |
| 166_V | 226_A | 1.296 | 0.99 |
| 101_H | 107_F | 1.293 | 0.99 |
| 305_I | 326_L | 1.292 | 0.99 |
| 263_E | 299_A | 1.290 | 0.99 |
| 195_D | 199_K | 1.287 | 0.99 |
| 106_I | 182_D | 1.281 | 0.99 |
| 190_H | 276_V | 1.263 | 0.99 |
| 188_G | 220_A | 1.262 | 0.99 |
| 92_A | 95_P | 1.258 | 0.99 |
| 213_L | 260_Y | 1.258 | 0.99 |
| 183_G | 237_G | 1.257 | 0.99 |
| 252_T | 255_T | 1.255 | 0.99 |
| 208_K | 218_R | 1.246 | 0.98 |
| 240_I | 258_G | 1.241 | 0.98 |
| 27_L | 62_G | 1.237 | 0.98 |
| 51_I | 55_S | 1.230 | 0.98 |
| 55_S | 102_A | 1.229 | 0.98 |
| 260_Y | 263_E | 1.226 | 0.98 |
| 262_V | 273_C | 1.226 | 0.98 |
| 166_V | 222_E | 1.211 | 0.98 |
| 66_G | 181_F | 1.200 | 0.98 |
| 86_T | 89_Q | 1.191 | 0.98 |
| 107_F | 182_D | 1.190 | 0.98 |
| 166_V | 170_R | 1.171 | 0.98 |
| 166_V | 223_I | 1.170 | 0.97 |
| 87_K | 91_E | 1.169 | 0.97 |
| 168_E | 171_V | 1.169 | 0.97 |
| 185_E | 274_H | 1.154 | 0.97 |
| 94_K | 178_E | 1.151 | 0.97 |
| 162_I | 166_V | 1.148 | 0.97 |
| 27_L | 32_V | 1.146 | 0.97 |
| 209_Y | 225_E | 1.146 | 0.97 |
| 38_R | 49_H | 1.144 | 0.97 |
| 238_I | 270_L | 1.124 | 0.97 |
| 129_P | 132_C | 1.123 | 0.97 |
| 238_I | 265_L | 1.118 | 0.96 |
| 217_C | 261_M | 1.117 | 0.96 |
| 324_A | 327_V | 1.117 | 0.96 |
| 163_P | 166_V | 1.116 | 0.96 |
| 70_V | 81_V | 1.114 | 0.96 |
| 31_V | 339_L | 1.091 | 0.96 |
| 55_S | 59_T | 1.090 | 0.96 |
| 187_H | 190_H | 1.089 | 0.96 |
| 166_V | 209_Y | 1.084 | 0.96 |
| 208_K | 215_N | 1.070 | 0.95 |
| 193_L | 219_F | 1.069 | 0.95 |
| 292_S | 323_R | 1.069 | 0.95 |
| 264_S | 268_Y | 1.059 | 0.95 |
| 59_T | 103_K | 1.058 | 0.95 |
| 272_Y | 305_I | 1.056 | 0.95 |
| 224_V | 270_L | 1.055 | 0.95 |
| 34_A | 330_G | 1.053 | 0.95 |
| 97_V | 179_A | 1.052 | 0.95 |
| 316_N | 319_L | 1.052 | 0.95 |
| 107_F | 181_F | 1.048 | 0.94 |
| 32_V | 63_L | 1.038 | 0.94 |
| 68_A | 112_W | 1.031 | 0.94 |
| 339_L | 343_F | 1.028 | 0.94 |
| 83_G | 89_Q | 1.026 | 0.94 |
| 163_P | 226_A | 1.025 | 0.93 |
| 60_N | 341_K | 1.024 | 0.93 |
| 310_Y | 318_A | 1.020 | 0.93 |
| 34_A | 328_A | 1.019 | 0.93 |
| 186_I | 223_I | 1.019 | 0.93 |
| 329_Y | 332_L | 1.013 | 0.93 |
| 228_A | 271_A | 1.008 | 0.93 |
| 166_V | 219_F | 1.006 | 0.93 |
| 239_R | 274_H | 1.004 | 0.93 |
| 217_C | 220_A | 1.003 | 0.93 |
| 74_T | 164_Q | 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 | |
| 2hsaB | 2 | 0.9574 | 100 | 0.208 | Contact Map |
| 4qnwA | 1 | 0.9309 | 100 | 0.223 | Contact Map |
| 1icpA | 2 | 0.9548 | 100 | 0.224 | Contact Map |
| 4e2bA | 1 | 0.9468 | 100 | 0.239 | Contact Map |
| 4jicA | 3 | 0.9495 | 100 | 0.24 | Contact Map |
| 4tmbA | 4 | 0.984 | 100 | 0.244 | Contact Map |
| 3tjlA | 1 | 0.9787 | 100 | 0.248 | Contact Map |
| 4gbuA | 1 | 0.9867 | 100 | 0.254 | Contact Map |
| 4a3uA | 2 | 0.9362 | 100 | 0.256 | Contact Map |
| 4awtA | 1 | 0.9388 | 100 | 0.268 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)