| BA |
| ID: | 1410786224 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 384 (355) | ||
| Sequences: | 2861 (2123.3) | ||
| Seq/Len: | 8.059 | ||
| Nf(neff/√len): | 112.7 |
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: 8.059).
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 |
| 64_F | 84_G | 4.139 | 1.00 |
| 361_Y | 374_E | 3.392 | 1.00 |
| 313_W | 342_M | 3.326 | 1.00 |
| 234_V | 242_I | 3.096 | 1.00 |
| 60_G | 88_T | 3.060 | 1.00 |
| 57_V | 91_F | 2.994 | 1.00 |
| 28_Y | 47_V | 2.952 | 1.00 |
| 65_Y | 83_Y | 2.570 | 1.00 |
| 210_G | 226_F | 2.565 | 1.00 |
| 152_Y | 165_S | 2.541 | 1.00 |
| 5_G | 13_S | 2.521 | 1.00 |
| 294_T | 309_T | 2.496 | 1.00 |
| 102_G | 147_N | 2.487 | 1.00 |
| 282_G | 318_V | 2.443 | 1.00 |
| 28_Y | 49_N | 2.399 | 1.00 |
| 310_S | 349_Q | 2.392 | 1.00 |
| 3_G | 15_Q | 2.336 | 1.00 |
| 17_G | 33_N | 2.298 | 1.00 |
| 352_S | 355_G | 2.228 | 1.00 |
| 156_D | 162_T | 2.204 | 1.00 |
| 103_L | 144_F | 2.202 | 1.00 |
| 315_M | 342_M | 2.164 | 1.00 |
| 310_S | 347_A | 2.131 | 1.00 |
| 359_F | 376_F | 2.131 | 1.00 |
| 312_F | 345_G | 2.090 | 1.00 |
| 235_R | 314_D | 2.078 | 1.00 |
| 186_T | 226_F | 2.056 | 1.00 |
| 105_Y | 142_D | 2.052 | 1.00 |
| 211_Y | 284_A | 2.041 | 1.00 |
| 349_Q | 360_S | 1.945 | 1.00 |
| 188_D | 208_R | 1.878 | 1.00 |
| 62_R | 88_T | 1.861 | 1.00 |
| 344_A | 365_F | 1.843 | 1.00 |
| 293_I | 308_R | 1.835 | 1.00 |
| 62_R | 86_D | 1.826 | 1.00 |
| 154_K | 165_S | 1.817 | 1.00 |
| 31_G | 46_S | 1.808 | 1.00 |
| 212_G | 220_M | 1.808 | 1.00 |
| 289_S | 314_D | 1.804 | 1.00 |
| 22_N | 25_G | 1.799 | 1.00 |
| 205_G | 290_L | 1.786 | 1.00 |
| 59_L | 89_L | 1.767 | 1.00 |
| 342_M | 366_K | 1.767 | 1.00 |
| 210_G | 285_M | 1.767 | 1.00 |
| 167_V | 189_T | 1.702 | 1.00 |
| 311_F | 346_I | 1.698 | 1.00 |
| 97_N | 150_W | 1.686 | 1.00 |
| 107_H | 142_D | 1.679 | 1.00 |
| 30_V | 45_L | 1.671 | 1.00 |
| 97_N | 152_Y | 1.670 | 1.00 |
| 343_S | 377_Q | 1.664 | 1.00 |
| 228_A | 287_V | 1.663 | 1.00 |
| 199_H | 292_F | 1.655 | 1.00 |
| 310_S | 360_S | 1.642 | 1.00 |
| 86_D | 104_G | 1.632 | 1.00 |
| 233_T | 287_V | 1.631 | 1.00 |
| 165_S | 191_T | 1.605 | 1.00 |
| 19_Q | 31_G | 1.600 | 1.00 |
| 100_R | 149_G | 1.577 | 1.00 |
| 18_V | 32_I | 1.571 | 1.00 |
| 203_V | 290_L | 1.569 | 1.00 |
| 230_G | 233_T | 1.569 | 1.00 |
| 104_G | 145_T | 1.534 | 1.00 |
| 93_I | 99_L | 1.531 | 1.00 |
| 49_N | 52_F | 1.529 | 1.00 |
| 360_S | 377_Q | 1.517 | 1.00 |
| 234_V | 343_S | 1.513 | 1.00 |
| 235_R | 291_E | 1.506 | 1.00 |
| 347_A | 360_S | 1.479 | 0.99 |
| 227_Y | 281_G | 1.459 | 0.99 |
| 29_A | 48_T | 1.454 | 0.99 |
| 41_T | 67_D | 1.417 | 0.99 |
| 58_S | 90_G | 1.417 | 0.99 |
| 32_I | 45_L | 1.416 | 0.99 |
| 291_E | 314_D | 1.394 | 0.99 |
| 296_T | 309_T | 1.387 | 0.99 |
| 1_N | 17_G | 1.380 | 0.99 |
| 228_A | 316_G | 1.379 | 0.99 |
| 186_T | 208_R | 1.365 | 0.99 |
| 172_K | 184_K | 1.361 | 0.99 |
| 182_Y | 224_E | 1.359 | 0.99 |
| 153_N | 166_R | 1.359 | 0.99 |
| 208_R | 287_V | 1.343 | 0.99 |
| 381_G | 384_W | 1.336 | 0.99 |
| 282_G | 316_G | 1.334 | 0.99 |
| 61_G | 87_V | 1.332 | 0.99 |
| 48_T | 58_S | 1.330 | 0.99 |
| 206_R | 289_S | 1.313 | 0.98 |
| 161_P | 164_G | 1.301 | 0.98 |
| 294_T | 311_F | 1.290 | 0.98 |
| 235_R | 312_F | 1.286 | 0.98 |
| 204_L | 293_I | 1.282 | 0.98 |
| 229_G | 233_T | 1.280 | 0.98 |
| 243_G | 279_A | 1.277 | 0.98 |
| 18_V | 30_V | 1.270 | 0.98 |
| 57_V | 89_L | 1.261 | 0.98 |
| 171_G | 185_V | 1.260 | 0.98 |
| 149_G | 170_T | 1.253 | 0.98 |
| 191_T | 205_G | 1.252 | 0.98 |
| 64_F | 106_V | 1.248 | 0.98 |
| 291_E | 312_F | 1.241 | 0.98 |
| 237_F | 341_R | 1.234 | 0.97 |
| 43_A | 65_Y | 1.217 | 0.97 |
| 17_G | 31_G | 1.216 | 0.97 |
| 228_A | 233_T | 1.214 | 0.97 |
| 52_F | 59_L | 1.210 | 0.97 |
| 44_E | 62_R | 1.208 | 0.97 |
| 352_S | 356_P | 1.196 | 0.97 |
| 47_V | 61_G | 1.194 | 0.97 |
| 237_F | 366_K | 1.188 | 0.97 |
| 188_D | 206_R | 1.179 | 0.96 |
| 99_L | 148_Y | 1.173 | 0.96 |
| 356_P | 381_G | 1.163 | 0.96 |
| 231_S | 377_Q | 1.158 | 0.96 |
| 184_K | 212_G | 1.148 | 0.96 |
| 207_T | 290_L | 1.142 | 0.95 |
| 171_G | 183_Y | 1.141 | 0.95 |
| 228_A | 285_M | 1.138 | 0.95 |
| 45_L | 63_L | 1.137 | 0.95 |
| 7_G | 10_S | 1.136 | 0.95 |
| 310_S | 358_V | 1.134 | 0.95 |
| 101_A | 148_Y | 1.132 | 0.95 |
| 291_E | 347_A | 1.127 | 0.95 |
| 16_A | 34_G | 1.126 | 0.95 |
| 228_A | 318_V | 1.125 | 0.95 |
| 30_V | 47_V | 1.117 | 0.95 |
| 315_M | 340_I | 1.114 | 0.95 |
| 46_S | 60_G | 1.113 | 0.94 |
| 25_G | 312_F | 1.112 | 0.94 |
| 23_W | 30_V | 1.112 | 0.94 |
| 167_V | 187_L | 1.108 | 0.94 |
| 33_N | 44_E | 1.108 | 0.94 |
| 145_T | 172_K | 1.105 | 0.94 |
| 306_S | 350_W | 1.104 | 0.94 |
| 317_T | 340_I | 1.103 | 0.94 |
| 175_I | 178_S | 1.099 | 0.94 |
| 313_W | 344_A | 1.086 | 0.93 |
| 63_L | 85_T | 1.081 | 0.93 |
| 326_S | 329_S | 1.080 | 0.93 |
| 59_L | 87_V | 1.070 | 0.93 |
| 151_T | 166_R | 1.069 | 0.93 |
| 190_A | 206_R | 1.066 | 0.93 |
| 168_N | 188_D | 1.065 | 0.93 |
| 81_K | 109_S | 1.061 | 0.92 |
| 364_P | 377_Q | 1.054 | 0.92 |
| 242_I | 317_T | 1.052 | 0.92 |
| 288_A | 315_M | 1.051 | 0.92 |
| 155_L | 166_R | 1.043 | 0.92 |
| 290_L | 313_W | 1.043 | 0.92 |
| 173_V | 183_Y | 1.041 | 0.91 |
| 307_V | 348_L | 1.038 | 0.91 |
| 144_F | 175_I | 1.035 | 0.91 |
| 82_S | 108_N | 1.032 | 0.91 |
| 225_N | 281_G | 1.030 | 0.91 |
| 295_P | 308_R | 1.025 | 0.91 |
| 236_G | 312_F | 1.021 | 0.90 |
| 24_L | 28_Y | 1.016 | 0.90 |
| 15_Q | 355_G | 1.015 | 0.90 |
| 187_L | 209_W | 1.012 | 0.90 |
| 226_F | 285_M | 1.009 | 0.90 |
| 104_G | 172_K | 1.009 | 0.90 |
| 195_I | 292_F | 1.007 | 0.90 |
| 65_Y | 81_K | 1.004 | 0.89 |
| 80_N | 223_Y | 1.001 | 0.89 |
| 207_T | 286_A | 1.000 | 0.89 |
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 | |
| 4n75A | 2 | 1 | 100 | 0.235 | Contact Map |
| 4c4vA | 1 | 0.9479 | 100 | 0.291 | Contact Map |
| 4k3bA | 1 | 0.901 | 100 | 0.301 | Contact Map |
| 4k3cA | 1 | 0.9349 | 100 | 0.323 | Contact Map |
| 4c00A | 1 | 0.7969 | 100 | 0.357 | Contact Map |
| 2qdzA | 1 | 0.7708 | 100 | 0.463 | Contact Map |
| 3bs0A | 2 | 0.224 | 17.8 | 0.957 | Contact Map |
| 2wjrA | 1 | 0.3229 | 15.8 | 0.958 | Contact Map |
| 3pguA | 1 | 0.237 | 15.8 | 0.958 | Contact Map |
| 3bryA | 2 | 0.2109 | 15.8 | 0.958 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)