| 445 |
| ID: | 1393518065 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 324 (324) | ||
| Sequences: | 410 (305.5) | ||
| Seq/Len: | 1.265 | ||
| Nf(neff/√len): | 17.0 |
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: 1.265).
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 |
| 309_P | 312_P | 3.787 | 1.00 |
| 308_T | 311_R | 3.013 | 1.00 |
| 308_T | 312_P | 2.828 | 1.00 |
| 64_R | 126_D | 2.355 | 0.99 |
| 217_A | 227_F | 2.342 | 0.99 |
| 306_E | 312_P | 2.183 | 0.99 |
| 70_L | 197_T | 2.139 | 0.98 |
| 149_V | 164_I | 2.094 | 0.98 |
| 16_F | 183_F | 2.089 | 0.98 |
| 172_P | 186_V | 1.944 | 0.96 |
| 34_Y | 54_V | 1.943 | 0.96 |
| 35_L | 55_S | 1.938 | 0.96 |
| 131_V | 207_I | 1.930 | 0.96 |
| 143_S | 167_Q | 1.900 | 0.96 |
| 34_Y | 300_R | 1.867 | 0.95 |
| 265_H | 279_L | 1.840 | 0.95 |
| 135_I | 229_I | 1.798 | 0.94 |
| 303_E | 323_Y | 1.771 | 0.93 |
| 69_L | 290_D | 1.756 | 0.93 |
| 121_I | 231_L | 1.754 | 0.93 |
| 239_I | 267_A | 1.737 | 0.92 |
| 89_F | 160_L | 1.731 | 0.92 |
| 307_D | 311_R | 1.723 | 0.92 |
| 111_I | 151_V | 1.716 | 0.92 |
| 31_V | 55_S | 1.672 | 0.90 |
| 220_E | 223_E | 1.661 | 0.90 |
| 165_S | 226_T | 1.612 | 0.88 |
| 258_R | 297_T | 1.581 | 0.87 |
| 306_E | 309_P | 1.572 | 0.86 |
| 75_I | 206_E | 1.565 | 0.86 |
| 17_V | 182_R | 1.560 | 0.86 |
| 208_V | 229_I | 1.536 | 0.85 |
| 246_A | 253_V | 1.534 | 0.84 |
| 143_S | 147_G | 1.530 | 0.84 |
| 132_I | 164_I | 1.519 | 0.84 |
| 171_I | 179_I | 1.515 | 0.83 |
| 180_F | 215_I | 1.475 | 0.81 |
| 69_L | 211_H | 1.460 | 0.80 |
| 142_Y | 185_R | 1.441 | 0.79 |
| 61_R | 191_S | 1.435 | 0.79 |
| 277_E | 281_E | 1.434 | 0.78 |
| 269_H | 272_Q | 1.393 | 0.76 |
| 96_I | 176_L | 1.382 | 0.75 |
| 33_S | 62_M | 1.381 | 0.75 |
| 33_S | 54_V | 1.379 | 0.75 |
| 236_D | 249_R | 1.373 | 0.74 |
| 290_D | 300_R | 1.326 | 0.70 |
| 96_I | 136_L | 1.326 | 0.70 |
| 303_E | 317_R | 1.325 | 0.70 |
| 18_S | 145_D | 1.317 | 0.70 |
| 298_V | 305_I | 1.313 | 0.69 |
| 239_I | 246_A | 1.304 | 0.69 |
| 69_L | 202_A | 1.299 | 0.68 |
| 162_L | 229_I | 1.299 | 0.68 |
| 273_V | 300_R | 1.294 | 0.68 |
| 245_V | 252_E | 1.291 | 0.67 |
| 41_G | 48_A | 1.288 | 0.67 |
| 19_N | 29_T | 1.284 | 0.67 |
| 208_V | 237_L | 1.270 | 0.66 |
| 39_D | 324_M | 1.269 | 0.65 |
| 307_D | 312_P | 1.267 | 0.65 |
| 30_S | 66_I | 1.259 | 0.65 |
| 306_E | 310_S | 1.255 | 0.64 |
| 213_G | 231_L | 1.248 | 0.64 |
| 255_L | 301_L | 1.248 | 0.64 |
| 292_R | 295_D | 1.248 | 0.64 |
| 317_R | 323_Y | 1.239 | 0.63 |
| 276_R | 295_D | 1.233 | 0.62 |
| 283_V | 303_E | 1.224 | 0.61 |
| 172_P | 188_K | 1.218 | 0.61 |
| 205_K | 209_K | 1.217 | 0.61 |
| 3_A | 7_E | 1.211 | 0.60 |
| 270_T | 274_M | 1.206 | 0.60 |
| 257_H | 261_E | 1.200 | 0.59 |
| 276_R | 292_R | 1.197 | 0.59 |
| 257_H | 300_R | 1.190 | 0.58 |
| 62_M | 206_E | 1.188 | 0.58 |
| 66_I | 227_F | 1.186 | 0.58 |
| 176_L | 217_A | 1.180 | 0.57 |
| 58_E | 72_L | 1.176 | 0.57 |
| 54_V | 318_R | 1.170 | 0.56 |
| 18_S | 181_D | 1.155 | 0.55 |
| 236_D | 313_Y | 1.154 | 0.55 |
| 258_R | 283_V | 1.154 | 0.55 |
| 163_S | 226_T | 1.145 | 0.54 |
| 34_Y | 318_R | 1.141 | 0.53 |
| 30_S | 227_F | 1.137 | 0.53 |
| 258_R | 284_W | 1.136 | 0.53 |
| 235_G | 298_V | 1.131 | 0.52 |
| 135_I | 164_I | 1.127 | 0.52 |
| 177_P | 191_S | 1.126 | 0.52 |
| 204_A | 215_I | 1.125 | 0.52 |
| 160_L | 233_Y | 1.120 | 0.51 |
| 58_E | 185_R | 1.116 | 0.51 |
| 123_I | 128_M | 1.109 | 0.50 |
| 219_S | 223_E | 1.107 | 0.50 |
| 62_M | 297_T | 1.104 | 0.50 |
| 284_W | 288_Y | 1.104 | 0.50 |
| 283_V | 300_R | 1.099 | 0.49 |
| 188_K | 192_R | 1.094 | 0.49 |
| 12_E | 37_A | 1.093 | 0.49 |
| 173_K | 219_S | 1.091 | 0.48 |
| 237_L | 267_A | 1.086 | 0.48 |
| 132_I | 136_L | 1.086 | 0.48 |
| 17_V | 72_L | 1.084 | 0.48 |
| 62_M | 76_D | 1.080 | 0.47 |
| 24_L | 318_R | 1.079 | 0.47 |
| 34_Y | 37_A | 1.074 | 0.47 |
| 59_T | 123_I | 1.074 | 0.47 |
| 192_R | 195_G | 1.069 | 0.46 |
| 178_L | 181_D | 1.068 | 0.46 |
| 185_R | 190_R | 1.067 | 0.46 |
| 24_L | 58_E | 1.060 | 0.45 |
| 76_D | 303_E | 1.060 | 0.45 |
| 258_R | 300_R | 1.056 | 0.45 |
| 274_M | 324_M | 1.054 | 0.45 |
| 288_Y | 300_R | 1.053 | 0.45 |
| 171_I | 225_S | 1.045 | 0.44 |
| 124_D | 127_K | 1.043 | 0.44 |
| 297_T | 300_R | 1.043 | 0.44 |
| 13_R | 182_R | 1.042 | 0.44 |
| 96_I | 129_T | 1.041 | 0.44 |
| 126_D | 183_F | 1.038 | 0.43 |
| 261_E | 300_R | 1.037 | 0.43 |
| 37_A | 54_V | 1.036 | 0.43 |
| 132_I | 153_M | 1.036 | 0.43 |
| 315_L | 323_Y | 1.036 | 0.43 |
| 277_E | 316_T | 1.030 | 0.42 |
| 33_S | 303_E | 1.029 | 0.42 |
| 238_Q | 247_K | 1.029 | 0.42 |
| 297_T | 317_R | 1.028 | 0.42 |
| 16_F | 171_I | 1.026 | 0.42 |
| 103_I | 141_K | 1.026 | 0.42 |
| 38_L | 170_G | 1.024 | 0.42 |
| 150_T | 165_S | 1.023 | 0.42 |
| 128_M | 202_A | 1.021 | 0.42 |
| 37_A | 318_R | 1.021 | 0.42 |
| 219_S | 222_G | 1.021 | 0.42 |
| 34_Y | 315_L | 1.018 | 0.41 |
| 258_R | 290_D | 1.014 | 0.41 |
| 18_S | 130_Q | 1.012 | 0.41 |
| 139_A | 168_G | 1.011 | 0.41 |
| 76_D | 206_E | 1.010 | 0.41 |
| 97_L | 162_L | 1.009 | 0.40 |
| 199_L | 213_G | 1.007 | 0.40 |
| 172_P | 175_D | 1.006 | 0.40 |
| 171_I | 219_S | 1.005 | 0.40 |
| 184_Y | 190_R | 1.004 | 0.40 |
| 290_D | 303_E | 1.003 | 0.40 |
| 298_V | 323_Y | 1.002 | 0.40 |
| 93_M | 97_L | 1.000 | 0.40 |
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 | |
| 4i5sA | 2 | 0.6914 | 100 | 0.583 | Contact Map |
| 2c2aA | 1 | 0.6975 | 100 | 0.596 | Contact Map |
| 2e0aA | 2 | 0.7623 | 100 | 0.611 | Contact Map |
| 4mpcA | 1 | 0.7531 | 100 | 0.621 | Contact Map |
| 1y8oA | 1 | 0.8117 | 100 | 0.622 | Contact Map |
| 4e01A | 1 | 0.7037 | 100 | 0.632 | Contact Map |
| 4ew8A | 2 | 0.7068 | 100 | 0.635 | Contact Map |
| 2q8gA | 1 | 0.7778 | 100 | 0.636 | Contact Map |
| 3a0rA | 1 | 0.6821 | 100 | 0.638 | Contact Map |
| 3jz3A | 2 | 0.4969 | 100 | 0.643 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)