| AAC2 |
| ID: | 1486561027 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 318 (295) | ||
| Sequences: | 11614 (6661.9) | ||
| Seq/Len: | 39.369 | ||
| Nf(neff/√len): | 387.9 |
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: 39.369).
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 |
| 276_V | 284_L | 3.745 | 1.00 |
| 181_L | 189_L | 3.457 | 1.00 |
| 270_D | 274_K | 3.032 | 1.00 |
| 78_A | 86_F | 3.019 | 1.00 |
| 178_K | 182_K | 2.807 | 1.00 |
| 275_I | 283_S | 2.806 | 1.00 |
| 175_D | 179_K | 2.800 | 1.00 |
| 75_K | 79_T | 2.791 | 1.00 |
| 273_R | 277_A | 2.776 | 1.00 |
| 274_K | 278_A | 2.590 | 1.00 |
| 180_T | 188_G | 2.586 | 1.00 |
| 272_L | 284_L | 2.547 | 1.00 |
| 72_D | 76_R | 2.503 | 1.00 |
| 179_K | 183_S | 2.410 | 1.00 |
| 111_I | 136_A | 2.327 | 1.00 |
| 171_N | 175_D | 2.303 | 1.00 |
| 254_R | 279_E | 2.241 | 1.00 |
| 279_E | 283_S | 2.127 | 1.00 |
| 76_R | 80_Q | 2.123 | 1.00 |
| 251_V | 272_L | 2.088 | 1.00 |
| 77_T | 85_S | 2.032 | 1.00 |
| 267_G | 270_D | 2.021 | 1.00 |
| 177_Y | 189_L | 2.018 | 1.00 |
| 135_G | 201_V | 1.988 | 1.00 |
| 243_T | 288_C | 1.965 | 1.00 |
| 48_K | 52_Q | 1.859 | 1.00 |
| 170_F | 176_V | 1.848 | 1.00 |
| 170_F | 175_D | 1.839 | 1.00 |
| 276_V | 281_V | 1.836 | 1.00 |
| 50_L | 81_E | 1.832 | 1.00 |
| 111_I | 140_L | 1.795 | 1.00 |
| 154_R | 184_D | 1.771 | 1.00 |
| 184_D | 188_G | 1.748 | 1.00 |
| 265_Y | 270_D | 1.736 | 1.00 |
| 81_E | 88_R | 1.728 | 1.00 |
| 265_Y | 271_C | 1.713 | 1.00 |
| 307_Q | 310_M | 1.709 | 1.00 |
| 45_E | 48_K | 1.692 | 1.00 |
| 131_L | 205_G | 1.682 | 1.00 |
| 42_S | 46_R | 1.676 | 1.00 |
| 107_F | 111_I | 1.668 | 1.00 |
| 266_D | 270_D | 1.662 | 1.00 |
| 53_N | 157_A | 1.656 | 1.00 |
| 218_L | 233_L | 1.655 | 1.00 |
| 74_F | 86_F | 1.654 | 1.00 |
| 172_G | 175_D | 1.645 | 1.00 |
| 115_F | 133_S | 1.637 | 1.00 |
| 210_M | 240_G | 1.619 | 1.00 |
| 304_M | 308_L | 1.608 | 1.00 |
| 67_Y | 73_C | 1.598 | 1.00 |
| 32_V | 308_L | 1.576 | 1.00 |
| 211_Y | 306_D | 1.538 | 1.00 |
| 72_D | 75_K | 1.532 | 1.00 |
| 47_V | 74_F | 1.524 | 1.00 |
| 214_L | 233_L | 1.505 | 1.00 |
| 279_E | 286_K | 1.495 | 1.00 |
| 181_L | 186_V | 1.495 | 1.00 |
| 67_Y | 72_D | 1.473 | 1.00 |
| 109_D | 112_K | 1.471 | 1.00 |
| 184_D | 191_R | 1.465 | 1.00 |
| 225_G | 229_A | 1.463 | 1.00 |
| 213_S | 217_L | 1.462 | 1.00 |
| 103_L | 107_F | 1.451 | 1.00 |
| 111_I | 133_S | 1.447 | 1.00 |
| 46_R | 50_L | 1.440 | 1.00 |
| 269_F | 273_R | 1.434 | 1.00 |
| 213_S | 216_P | 1.433 | 1.00 |
| 252_R | 256_M | 1.424 | 1.00 |
| 269_F | 272_L | 1.400 | 0.99 |
| 68_A | 72_D | 1.397 | 0.99 |
| 115_F | 136_A | 1.392 | 0.99 |
| 30_G | 34_A | 1.387 | 0.99 |
| 150_Y | 154_R | 1.382 | 0.99 |
| 110_K | 114_M | 1.377 | 0.99 |
| 186_V | 190_Y | 1.376 | 0.99 |
| 176_V | 180_T | 1.348 | 0.99 |
| 175_D | 178_K | 1.342 | 0.99 |
| 214_L | 236_V | 1.335 | 0.99 |
| 53_N | 253_R | 1.328 | 0.99 |
| 235_W | 296_V | 1.307 | 0.99 |
| 36_V | 304_M | 1.304 | 0.99 |
| 146_Y | 150_Y | 1.302 | 0.99 |
| 193_F | 197_V | 1.301 | 0.99 |
| 32_V | 36_V | 1.283 | 0.99 |
| 174_I | 178_K | 1.273 | 0.99 |
| 203_Y | 241_A | 1.260 | 0.99 |
| 206_L | 210_M | 1.259 | 0.99 |
| 77_T | 81_E | 1.259 | 0.99 |
| 81_E | 85_S | 1.258 | 0.99 |
| 112_K | 212_D | 1.252 | 0.99 |
| 195_P | 268_A | 1.252 | 0.99 |
| 151_A | 177_Y | 1.247 | 0.99 |
| 135_G | 205_G | 1.246 | 0.98 |
| 226_S | 229_A | 1.230 | 0.98 |
| 35_A | 94_V | 1.222 | 0.98 |
| 206_L | 244_C | 1.212 | 0.98 |
| 185_G | 188_G | 1.208 | 0.98 |
| 39_T | 90_N | 1.206 | 0.98 |
| 110_K | 113_A | 1.204 | 0.98 |
| 132_A | 136_A | 1.202 | 0.98 |
| 265_Y | 274_K | 1.197 | 0.98 |
| 128_A | 132_A | 1.194 | 0.98 |
| 232_L | 236_V | 1.192 | 0.98 |
| 71_L | 75_K | 1.181 | 0.98 |
| 210_M | 214_L | 1.179 | 0.98 |
| 136_A | 140_L | 1.178 | 0.98 |
| 281_V | 285_F | 1.175 | 0.98 |
| 24_L | 28_L | 1.172 | 0.98 |
| 139_A | 197_V | 1.172 | 0.98 |
| 179_K | 182_K | 1.164 | 0.97 |
| 246_Y | 291_N | 1.162 | 0.97 |
| 90_N | 94_V | 1.157 | 0.97 |
| 29_M | 308_L | 1.144 | 0.97 |
| 107_F | 140_L | 1.141 | 0.97 |
| 100_T | 104_N | 1.134 | 0.97 |
| 306_D | 309_Q | 1.134 | 0.97 |
| 276_V | 279_E | 1.133 | 0.97 |
| 152_R | 156_A | 1.131 | 0.97 |
| 42_S | 87_W | 1.125 | 0.97 |
| 28_L | 31_G | 1.121 | 0.97 |
| 285_F | 288_C | 1.116 | 0.96 |
| 134_G | 205_G | 1.109 | 0.96 |
| 217_L | 220_T | 1.109 | 0.96 |
| 270_D | 273_R | 1.108 | 0.96 |
| 54_Q | 67_Y | 1.106 | 0.96 |
| 78_A | 83_V | 1.105 | 0.96 |
| 143_L | 193_F | 1.101 | 0.96 |
| 99_P | 102_A | 1.096 | 0.96 |
| 153_T | 257_M | 1.081 | 0.95 |
| 280_G | 283_S | 1.079 | 0.95 |
| 69_G | 72_D | 1.079 | 0.95 |
| 111_I | 115_F | 1.068 | 0.95 |
| 232_L | 235_W | 1.057 | 0.95 |
| 134_G | 138_G | 1.056 | 0.95 |
| 300_G | 304_M | 1.044 | 0.94 |
| 150_Y | 180_T | 1.044 | 0.94 |
| 274_K | 277_A | 1.039 | 0.94 |
| 236_V | 240_G | 1.037 | 0.94 |
| 238_T | 249_D | 1.033 | 0.94 |
| 246_Y | 250_T | 1.029 | 0.94 |
| 288_C | 292_I | 1.029 | 0.94 |
| 249_D | 252_R | 1.021 | 0.93 |
| 234_G | 238_T | 1.008 | 0.93 |
| 271_C | 274_K | 1.008 | 0.93 |
| 42_S | 90_N | 1.005 | 0.93 |
| 243_T | 292_I | 1.004 | 0.93 |
| 254_R | 283_S | 1.003 | 0.93 |
| 308_L | 312_L | 1.002 | 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 | |
| 4c9gA | 1 | 0.8333 | 100 | 0.097 | Contact Map |
| 1okcA | 1 | 0.9025 | 100 | 0.186 | Contact Map |
| 2lckA | 1 | 0.9057 | 100 | 0.204 | Contact Map |
| 3j9xA | 58 | 0 | 4.9 | 0.966 | Contact Map |
| 4i5lB | 2 | 0.2421 | 4.3 | 0.966 | Contact Map |
| 3lo3A | 28 | 0.2233 | 3.1 | 0.969 | Contact Map |
| 1fa2A | 1 | 0.2673 | 3 | 0.969 | Contact Map |
| 2kygA | 2 | 0.1572 | 2.7 | 0.97 | Contact Map |
| 2jvwA | 1 | 0.2107 | 2.5 | 0.97 | Contact Map |
| 2izyA | 8 | 0.1384 | 2.3 | 0.971 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)