| LolE_Ab_1_426 |
| ID: | 1496597829 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 426 (373) | ||
| Sequences: | 49962 (41634.5) | ||
| Seq/Len: | 133.946 | ||
| Nf(neff/√len): | 2155.8 |
Jackhmmer Results: (2016_04)
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: 133.946).
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 |
| 179_S | 200_R | 3.274 | 1.00 |
| 181_T | 200_R | 3.044 | 1.00 |
| 166_K | 208_S | 2.982 | 1.00 |
| 316_I | 333_F | 2.880 | 1.00 |
| 179_S | 202_K | 2.824 | 1.00 |
| 161_G | 204_V | 2.678 | 1.00 |
| 161_G | 202_K | 2.537 | 1.00 |
| 418_Q | 421_E | 2.442 | 1.00 |
| 166_K | 170_D | 2.428 | 1.00 |
| 252_A | 256_V | 2.375 | 1.00 |
| 162_I | 201_F | 2.334 | 1.00 |
| 312_K | 336_Q | 2.278 | 1.00 |
| 325_S | 328_M | 2.247 | 1.00 |
| 169_A | 206_I | 2.232 | 1.00 |
| 345_T | 396_V | 2.221 | 1.00 |
| 96_V | 100_E | 2.184 | 1.00 |
| 146_H | 208_S | 2.178 | 1.00 |
| 247_A | 250_Q | 2.158 | 1.00 |
| 162_I | 218_G | 2.105 | 1.00 |
| 408_I | 412_L | 2.071 | 1.00 |
| 320_R | 326_P | 2.022 | 1.00 |
| 163_V | 205_G | 1.961 | 1.00 |
| 412_L | 416_K | 1.946 | 1.00 |
| 337_G | 407_T | 1.898 | 1.00 |
| 250_Q | 254_D | 1.877 | 1.00 |
| 168_M | 172_L | 1.857 | 1.00 |
| 163_V | 207_F | 1.835 | 1.00 |
| 164_L | 169_A | 1.829 | 1.00 |
| 388_R | 391_D | 1.827 | 1.00 |
| 30_R | 33_R | 1.827 | 1.00 |
| 92_W | 95_L | 1.808 | 1.00 |
| 341_G | 403_S | 1.798 | 1.00 |
| 106_T | 243_D | 1.749 | 1.00 |
| 221_A | 224_D | 1.749 | 1.00 |
| 104_H | 243_D | 1.725 | 1.00 |
| 95_L | 98_R | 1.719 | 1.00 |
| 158_G | 161_G | 1.714 | 1.00 |
| 68_R | 72_N | 1.714 | 1.00 |
| 267_N | 270_Y | 1.705 | 1.00 |
| 46_M | 50_T | 1.695 | 1.00 |
| 57_I | 352_G | 1.682 | 1.00 |
| 97_K | 100_E | 1.680 | 1.00 |
| 330_T | 412_L | 1.678 | 1.00 |
| 249_P | 252_A | 1.673 | 1.00 |
| 223_Y | 226_S | 1.668 | 1.00 |
| 151_S | 204_V | 1.665 | 1.00 |
| 94_E | 98_R | 1.644 | 1.00 |
| 254_D | 258_N | 1.644 | 1.00 |
| 181_T | 198_F | 1.619 | 1.00 |
| 148_V | 166_K | 1.608 | 1.00 |
| 104_H | 254_D | 1.608 | 1.00 |
| 248_A | 252_A | 1.597 | 1.00 |
| 50_T | 347_A | 1.597 | 1.00 |
| 253_D | 256_V | 1.595 | 1.00 |
| 348_G | 352_G | 1.595 | 1.00 |
| 147_I | 152_L | 1.578 | 1.00 |
| 312_K | 315_D | 1.564 | 1.00 |
| 389_W | 393_T | 1.553 | 1.00 |
| 98_R | 101_N | 1.552 | 1.00 |
| 67_D | 71_K | 1.552 | 1.00 |
| 160_F | 224_D | 1.550 | 1.00 |
| 328_M | 331_K | 1.548 | 1.00 |
| 132_I | 136_Y | 1.537 | 1.00 |
| 254_D | 257_K | 1.530 | 1.00 |
| 80_Q | 83_V | 1.518 | 1.00 |
| 107_G | 241_K | 1.487 | 1.00 |
| 154_S | 157_K | 1.475 | 1.00 |
| 72_N | 75_L | 1.470 | 1.00 |
| 220_I | 224_D | 1.466 | 1.00 |
| 164_L | 203_V | 1.457 | 1.00 |
| 106_T | 241_K | 1.455 | 1.00 |
| 148_V | 208_S | 1.442 | 1.00 |
| 253_D | 257_K | 1.440 | 1.00 |
| 27_R | 30_R | 1.434 | 1.00 |
| 163_V | 204_V | 1.434 | 1.00 |
| 183_V | 198_F | 1.432 | 1.00 |
| 249_P | 253_D | 1.429 | 1.00 |
| 167_D | 170_D | 1.428 | 1.00 |
| 390_Q | 394_I | 1.426 | 1.00 |
| 162_I | 220_I | 1.426 | 1.00 |
| 175_R | 178_D | 1.422 | 1.00 |
| 220_I | 225_A | 1.422 | 1.00 |
| 201_F | 224_D | 1.417 | 1.00 |
| 97_K | 101_N | 1.411 | 1.00 |
| 327_S | 331_K | 1.408 | 1.00 |
| 54_A | 351_L | 1.398 | 0.99 |
| 326_P | 415_A | 1.389 | 0.99 |
| 25_G | 335_V | 1.388 | 0.99 |
| 64_N | 388_R | 1.384 | 0.99 |
| 164_L | 218_G | 1.381 | 0.99 |
| 411_A | 415_A | 1.378 | 0.99 |
| 64_N | 67_D | 1.378 | 0.99 |
| 73_R | 76_G | 1.377 | 0.99 |
| 165_G | 207_F | 1.375 | 0.99 |
| 50_T | 351_L | 1.371 | 0.99 |
| 162_I | 180_V | 1.369 | 0.99 |
| 68_R | 71_K | 1.368 | 0.99 |
| 354_I | 358_T | 1.353 | 0.99 |
| 317_A | 422_A | 1.347 | 0.99 |
| 251_V | 255_I | 1.338 | 0.99 |
| 50_T | 54_A | 1.337 | 0.99 |
| 151_S | 161_G | 1.333 | 0.99 |
| 160_F | 199_K | 1.332 | 0.99 |
| 133_D | 136_Y | 1.332 | 0.99 |
| 224_D | 227_T | 1.324 | 0.99 |
| 331_K | 335_V | 1.317 | 0.99 |
| 102_H | 254_D | 1.316 | 0.99 |
| 176_L | 206_I | 1.304 | 0.99 |
| 167_D | 209_V | 1.301 | 0.99 |
| 135_K | 138_K | 1.290 | 0.99 |
| 242_L | 251_V | 1.268 | 0.99 |
| 344_G | 348_G | 1.264 | 0.99 |
| 324_A | 328_M | 1.263 | 0.99 |
| 68_R | 386_Y | 1.263 | 0.99 |
| 46_M | 344_G | 1.259 | 0.99 |
| 222_L | 226_S | 1.254 | 0.99 |
| 164_L | 168_M | 1.247 | 0.99 |
| 273_G | 277_N | 1.242 | 0.98 |
| 341_G | 345_T | 1.240 | 0.98 |
| 102_H | 258_N | 1.238 | 0.98 |
| 350_V | 354_I | 1.236 | 0.98 |
| 94_E | 97_K | 1.233 | 0.98 |
| 284_T | 288_L | 1.233 | 0.98 |
| 54_A | 355_L | 1.232 | 0.98 |
| 174_L | 178_D | 1.220 | 0.98 |
| 287_G | 291_V | 1.215 | 0.98 |
| 354_I | 357_L | 1.213 | 0.98 |
| 61_S | 356_A | 1.213 | 0.98 |
| 313_K | 422_A | 1.201 | 0.98 |
| 167_D | 171_S | 1.198 | 0.98 |
| 244_D | 247_A | 1.191 | 0.98 |
| 319_L | 332_I | 1.181 | 0.98 |
| 386_Y | 389_W | 1.181 | 0.98 |
| 98_R | 258_N | 1.179 | 0.98 |
| 412_L | 415_A | 1.177 | 0.98 |
| 315_D | 319_L | 1.174 | 0.98 |
| 28_Y | 336_Q | 1.169 | 0.97 |
| 152_L | 163_V | 1.168 | 0.97 |
| 313_K | 417_V | 1.161 | 0.97 |
| 345_T | 399_S | 1.161 | 0.97 |
| 319_L | 324_A | 1.155 | 0.97 |
| 72_N | 76_G | 1.152 | 0.97 |
| 298_A | 402_L | 1.149 | 0.97 |
| 95_L | 99_V | 1.143 | 0.97 |
| 352_G | 356_A | 1.139 | 0.97 |
| 347_A | 350_V | 1.137 | 0.97 |
| 137_E | 152_L | 1.136 | 0.97 |
| 98_R | 102_H | 1.120 | 0.96 |
| 413_R | 416_K | 1.118 | 0.96 |
| 53_V | 348_G | 1.117 | 0.96 |
| 305_L | 337_G | 1.117 | 0.96 |
| 132_I | 137_E | 1.116 | 0.96 |
| 64_N | 68_R | 1.114 | 0.96 |
| 57_I | 395_I | 1.110 | 0.96 |
| 75_L | 79_P | 1.104 | 0.96 |
| 357_L | 361_D | 1.100 | 0.96 |
| 406_A | 410_P | 1.099 | 0.96 |
| 111_F | 237_G | 1.096 | 0.96 |
| 69_E | 73_R | 1.094 | 0.96 |
| 266_T | 271_T | 1.092 | 0.96 |
| 75_L | 78_V | 1.087 | 0.96 |
| 346_V | 350_V | 1.085 | 0.96 |
| 316_I | 329_I | 1.084 | 0.96 |
| 91_D | 95_L | 1.084 | 0.96 |
| 242_L | 245_I | 1.080 | 0.95 |
| 255_I | 259_L | 1.079 | 0.95 |
| 26_L | 30_R | 1.077 | 0.95 |
| 326_P | 330_T | 1.069 | 0.95 |
| 243_D | 247_A | 1.066 | 0.95 |
| 32_R | 311_D | 1.063 | 0.95 |
| 413_R | 417_V | 1.060 | 0.95 |
| 100_E | 108_V | 1.060 | 0.95 |
| 317_A | 321_T | 1.054 | 0.95 |
| 54_A | 348_G | 1.047 | 0.94 |
| 184_L | 187_A | 1.045 | 0.94 |
| 250_Q | 253_D | 1.043 | 0.94 |
| 238_V | 242_L | 1.043 | 0.94 |
| 324_A | 329_I | 1.043 | 0.94 |
| 280_Q | 284_T | 1.040 | 0.94 |
| 104_H | 251_V | 1.038 | 0.94 |
| 43_L | 47_V | 1.037 | 0.94 |
| 302_V | 306_V | 1.036 | 0.94 |
| 338_T | 404_F | 1.034 | 0.94 |
| 93_P | 97_K | 1.030 | 0.94 |
| 64_N | 391_D | 1.027 | 0.94 |
| 147_I | 205_G | 1.026 | 0.94 |
| 176_L | 204_V | 1.025 | 0.93 |
| 67_D | 283_K | 1.025 | 0.93 |
| 29_T | 42_A | 1.021 | 0.93 |
| 35_N | 311_D | 1.017 | 0.93 |
| 390_Q | 393_T | 1.011 | 0.93 |
| 298_A | 406_A | 1.009 | 0.93 |
| 272_H | 276_F | 1.008 | 0.93 |
| 42_A | 340_I | 1.008 | 0.93 |
| 164_L | 206_I | 1.006 | 0.93 |
| 165_G | 168_M | 1.006 | 0.93 |
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 | |
| 3ftjA | 1 | 0.4507 | 99.5 | 0.751 | Contact Map |
| 3is6A | 2 | 0.507 | 99 | 0.803 | Contact Map |
| 4k0jA | 6 | 0.784 | 25.6 | 0.948 | Contact Map |
| 3ne5A | 1 | 0.8075 | 13.9 | 0.954 | Contact Map |
| 2l66A | 2 | 0.1244 | 13.8 | 0.954 | Contact Map |
| 1yfbA | 2 | 0.1221 | 12.5 | 0.955 | Contact Map |
| 1rz2A | 1 | 0.4061 | 11.5 | 0.956 | Contact Map |
| 4av3A | 2 | 0.2535 | 11.1 | 0.956 | Contact Map |
| 3o27A | 2 | 0.1408 | 10.4 | 0.957 | Contact Map |
| 1hmjA | 1 | 0.1596 | 8.9 | 0.958 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)