| AclwA19027a |
| ID: | 1516321242 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 336 (331) | ||
| Sequences: | 4119 (2946.2) | ||
| Seq/Len: | 12.444 | ||
| Nf(neff/√len): | 161.9 |
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: 12.444).
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 |
| 165_S | 191_T | 4.590 | 1.00 |
| 93_G | 201_D | 3.928 | 1.00 |
| 318_F | 329_Y | 3.547 | 1.00 |
| 90_K | 94_D | 3.476 | 1.00 |
| 252_N | 262_P | 3.447 | 1.00 |
| 91_T | 94_D | 3.362 | 1.00 |
| 285_R | 322_T | 3.247 | 1.00 |
| 281_D | 320_K | 3.159 | 1.00 |
| 264_T | 268_R | 2.975 | 1.00 |
| 285_R | 289_I | 2.970 | 1.00 |
| 233_T | 272_E | 2.914 | 1.00 |
| 287_A | 291_L | 2.836 | 1.00 |
| 185_Q | 188_M | 2.804 | 1.00 |
| 291_L | 305_Q | 2.717 | 1.00 |
| 317_A | 321_W | 2.565 | 1.00 |
| 163_H | 192_E | 2.529 | 1.00 |
| 167_P | 187_D | 2.516 | 1.00 |
| 139_E | 166_Y | 2.427 | 1.00 |
| 31_H | 57_M | 2.414 | 1.00 |
| 237_R | 282_A | 2.411 | 1.00 |
| 236_I | 254_V | 2.377 | 1.00 |
| 280_K | 284_R | 2.346 | 1.00 |
| 251_L | 262_P | 2.328 | 1.00 |
| 32_V | 57_M | 2.288 | 1.00 |
| 196_A | 199_Y | 2.275 | 1.00 |
| 285_R | 321_W | 2.272 | 1.00 |
| 324_V | 332_L | 2.258 | 1.00 |
| 251_L | 266_R | 2.216 | 1.00 |
| 268_R | 271_A | 2.211 | 1.00 |
| 161_R | 185_Q | 2.068 | 1.00 |
| 64_D | 70_D | 2.056 | 1.00 |
| 314_F | 318_F | 2.052 | 1.00 |
| 24_D | 27_T | 2.051 | 1.00 |
| 175_Y | 186_F | 1.930 | 1.00 |
| 85_L | 98_L | 1.921 | 1.00 |
| 295_P | 330_R | 1.891 | 1.00 |
| 274_K | 278_G | 1.848 | 1.00 |
| 146_H | 150_S | 1.844 | 1.00 |
| 277_Q | 281_D | 1.825 | 1.00 |
| 31_H | 61_V | 1.768 | 1.00 |
| 292_L | 299_L | 1.762 | 1.00 |
| 169_P | 186_F | 1.737 | 1.00 |
| 254_V | 276_Y | 1.736 | 1.00 |
| 80_A | 83_C | 1.714 | 1.00 |
| 239_V | 257_M | 1.710 | 1.00 |
| 35_E | 38_L | 1.696 | 1.00 |
| 297_L | 305_Q | 1.693 | 1.00 |
| 69_F | 175_Y | 1.688 | 1.00 |
| 216_K | 220_A | 1.668 | 1.00 |
| 47_S | 50_Q | 1.647 | 1.00 |
| 102_F | 220_A | 1.646 | 1.00 |
| 93_G | 97_E | 1.636 | 1.00 |
| 289_I | 322_T | 1.611 | 1.00 |
| 239_V | 254_V | 1.611 | 1.00 |
| 237_R | 286_D | 1.610 | 1.00 |
| 17_G | 71_K | 1.606 | 1.00 |
| 5_T | 45_R | 1.603 | 1.00 |
| 288_A | 314_F | 1.597 | 1.00 |
| 309_S | 313_T | 1.583 | 1.00 |
| 300_E | 311_T | 1.575 | 1.00 |
| 121_A | 200_L | 1.573 | 1.00 |
| 301_D | 304_Q | 1.566 | 1.00 |
| 315_H | 327_G | 1.543 | 1.00 |
| 314_F | 326_P | 1.538 | 1.00 |
| 295_P | 302_V | 1.538 | 1.00 |
| 174_E | 177_A | 1.537 | 1.00 |
| 264_T | 267_R | 1.532 | 1.00 |
| 120_E | 194_T | 1.528 | 1.00 |
| 211_L | 215_L | 1.517 | 1.00 |
| 163_H | 185_Q | 1.516 | 1.00 |
| 217_A | 221_Q | 1.508 | 1.00 |
| 231_S | 272_E | 1.503 | 1.00 |
| 274_K | 279_V | 1.491 | 1.00 |
| 92_L | 149_A | 1.487 | 1.00 |
| 299_L | 311_T | 1.478 | 1.00 |
| 263_Q | 266_R | 1.475 | 1.00 |
| 121_A | 197_A | 1.467 | 1.00 |
| 311_T | 315_H | 1.455 | 1.00 |
| 291_L | 302_V | 1.454 | 1.00 |
| 297_L | 302_V | 1.431 | 1.00 |
| 289_I | 318_F | 1.418 | 1.00 |
| 318_F | 322_T | 1.412 | 1.00 |
| 232_L | 236_I | 1.366 | 0.99 |
| 287_A | 290_H | 1.355 | 0.99 |
| 119_H | 197_A | 1.352 | 0.99 |
| 168_R | 186_F | 1.341 | 0.99 |
| 329_Y | 333_H | 1.335 | 0.99 |
| 290_H | 294_N | 1.332 | 0.99 |
| 57_M | 61_V | 1.331 | 0.99 |
| 163_H | 188_M | 1.327 | 0.99 |
| 236_I | 279_V | 1.326 | 0.99 |
| 327_G | 331_Q | 1.324 | 0.99 |
| 93_G | 116_R | 1.318 | 0.99 |
| 232_L | 272_E | 1.307 | 0.99 |
| 324_V | 328_L | 1.293 | 0.99 |
| 81_I | 219_P | 1.286 | 0.99 |
| 139_E | 164_F | 1.284 | 0.99 |
| 315_H | 325_T | 1.275 | 0.99 |
| 281_D | 308_F | 1.274 | 0.99 |
| 70_D | 174_E | 1.266 | 0.99 |
| 152_L | 204_I | 1.262 | 0.99 |
| 160_E | 196_A | 1.259 | 0.99 |
| 175_Y | 180_F | 1.247 | 0.99 |
| 138_T | 191_T | 1.246 | 0.98 |
| 250_T | 253_D | 1.245 | 0.98 |
| 237_R | 279_V | 1.240 | 0.98 |
| 258_L | 265_L | 1.235 | 0.98 |
| 249_P | 276_Y | 1.232 | 0.98 |
| 239_V | 258_L | 1.210 | 0.98 |
| 281_D | 321_W | 1.199 | 0.98 |
| 168_R | 172_A | 1.198 | 0.98 |
| 122_R | 192_E | 1.197 | 0.98 |
| 88_H | 212_E | 1.194 | 0.98 |
| 261_S | 264_T | 1.190 | 0.98 |
| 240_L | 280_K | 1.187 | 0.98 |
| 281_D | 285_R | 1.181 | 0.98 |
| 26_D | 36_A | 1.180 | 0.98 |
| 289_I | 293_L | 1.174 | 0.98 |
| 98_L | 216_K | 1.171 | 0.98 |
| 250_T | 276_Y | 1.163 | 0.97 |
| 212_E | 216_K | 1.162 | 0.97 |
| 241_K | 287_A | 1.160 | 0.97 |
| 171_H | 174_E | 1.147 | 0.97 |
| 232_L | 260_L | 1.143 | 0.97 |
| 116_R | 197_A | 1.143 | 0.97 |
| 121_A | 195_F | 1.131 | 0.97 |
| 101_Q | 220_A | 1.128 | 0.97 |
| 89_A | 212_E | 1.122 | 0.97 |
| 169_P | 175_Y | 1.117 | 0.96 |
| 53_R | 57_M | 1.106 | 0.96 |
| 287_A | 305_Q | 1.104 | 0.96 |
| 161_R | 194_T | 1.104 | 0.96 |
| 281_D | 284_R | 1.100 | 0.96 |
| 89_A | 98_L | 1.093 | 0.96 |
| 308_F | 317_A | 1.093 | 0.96 |
| 69_F | 143_M | 1.092 | 0.96 |
| 260_L | 268_R | 1.084 | 0.96 |
| 122_R | 194_T | 1.084 | 0.96 |
| 302_V | 330_R | 1.079 | 0.95 |
| 147_G | 150_S | 1.079 | 0.95 |
| 301_D | 305_Q | 1.075 | 0.95 |
| 82_M | 86_I | 1.075 | 0.95 |
| 98_L | 212_E | 1.075 | 0.95 |
| 310_E | 315_H | 1.057 | 0.95 |
| 172_A | 184_M | 1.056 | 0.95 |
| 91_T | 201_D | 1.049 | 0.94 |
| 86_I | 95_A | 1.046 | 0.94 |
| 86_I | 99_S | 1.045 | 0.94 |
| 199_Y | 202_L | 1.044 | 0.94 |
| 146_H | 193_I | 1.034 | 0.94 |
| 291_L | 297_L | 1.030 | 0.94 |
| 29_L | 34_I | 1.030 | 0.94 |
| 276_Y | 280_K | 1.027 | 0.94 |
| 298_T | 301_D | 1.007 | 0.93 |
| 79_F | 106_F | 1.004 | 0.93 |
| 84_Q | 88_H | 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 | |
| 3mklA | 2 | 0.3304 | 99.9 | 0.654 | Contact Map |
| 1bl0A | 1 | 0.3185 | 99.9 | 0.656 | Contact Map |
| 3oouA | 1 | 0.3095 | 99.9 | 0.657 | Contact Map |
| 3lsgA | 5 | 0.3036 | 99.9 | 0.661 | Contact Map |
| 3oioA | 1 | 0.3274 | 99.9 | 0.661 | Contact Map |
| 3mn2A | 2 | 0.3125 | 99.9 | 0.662 | Contact Map |
| 2k9sA | 1 | 0.3155 | 99.9 | 0.664 | Contact Map |
| 1d5yA | 4 | 0.3185 | 99.9 | 0.671 | Contact Map |
| 3w6vA | 1 | 0.3155 | 99.9 | 0.671 | Contact Map |
| 3gbgA | 1 | 0.6815 | 99.9 | 0.687 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)