| EG11222 |
| ID: | 1412346178 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 282 (275) | ||
| Sequences: | 792 (581.8) | ||
| Seq/Len: | 2.880 | ||
| Nf(neff/√len): | 35.1 |
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: 2.880).
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 |
| 79_S | 85_Q | 3.004 | 1.00 |
| 258_E | 261_K | 2.867 | 1.00 |
| 240_L | 244_R | 2.567 | 1.00 |
| 124_Q | 218_W | 2.330 | 1.00 |
| 133_K | 137_R | 2.226 | 1.00 |
| 157_T | 160_R | 2.205 | 1.00 |
| 122_L | 135_T | 2.199 | 1.00 |
| 117_G | 185_L | 2.131 | 1.00 |
| 177_K | 180_E | 2.096 | 1.00 |
| 232_D | 264_R | 1.959 | 0.99 |
| 233_V | 265_S | 1.888 | 0.99 |
| 144_E | 160_R | 1.874 | 0.99 |
| 210_Q | 220_A | 1.815 | 0.99 |
| 11_D | 14_W | 1.781 | 0.99 |
| 125_L | 130_M | 1.758 | 0.99 |
| 206_M | 221_N | 1.723 | 0.98 |
| 122_L | 134_L | 1.658 | 0.98 |
| 218_W | 238_D | 1.657 | 0.98 |
| 36_A | 49_T | 1.645 | 0.98 |
| 37_R | 115_E | 1.622 | 0.97 |
| 40_A | 144_E | 1.620 | 0.97 |
| 121_I | 185_L | 1.608 | 0.97 |
| 16_L | 30_V | 1.586 | 0.97 |
| 120_A | 222_Y | 1.579 | 0.97 |
| 83_D | 266_Y | 1.579 | 0.97 |
| 124_Q | 219_T | 1.569 | 0.97 |
| 124_Q | 238_D | 1.561 | 0.96 |
| 39_L | 74_C | 1.559 | 0.96 |
| 125_L | 218_W | 1.553 | 0.96 |
| 260_W | 267_A | 1.517 | 0.96 |
| 138_V | 161_L | 1.512 | 0.96 |
| 235_L | 265_S | 1.511 | 0.96 |
| 131_A | 218_W | 1.504 | 0.95 |
| 225_L | 265_S | 1.503 | 0.95 |
| 117_G | 223_F | 1.486 | 0.95 |
| 175_P | 178_R | 1.477 | 0.95 |
| 184_H | 212_F | 1.470 | 0.95 |
| 22_R | 120_A | 1.465 | 0.94 |
| 235_L | 268_L | 1.462 | 0.94 |
| 31_A | 34_Y | 1.423 | 0.93 |
| 114_F | 186_A | 1.419 | 0.93 |
| 86_C | 91_V | 1.407 | 0.93 |
| 125_L | 239_Y | 1.406 | 0.93 |
| 180_E | 184_H | 1.404 | 0.93 |
| 41_V | 44_Y | 1.397 | 0.92 |
| 87_N | 90_I | 1.394 | 0.92 |
| 142_Y | 171_A | 1.393 | 0.92 |
| 114_F | 158_P | 1.392 | 0.92 |
| 210_Q | 217_R | 1.380 | 0.92 |
| 53_D | 158_P | 1.377 | 0.92 |
| 50_A | 82_F | 1.372 | 0.92 |
| 188_A | 212_F | 1.362 | 0.91 |
| 124_Q | 216_G | 1.353 | 0.91 |
| 123_G | 222_Y | 1.323 | 0.89 |
| 121_I | 215_I | 1.309 | 0.89 |
| 193_T | 196_M | 1.307 | 0.89 |
| 124_Q | 131_A | 1.306 | 0.89 |
| 177_K | 181_A | 1.296 | 0.88 |
| 126_V | 218_W | 1.292 | 0.88 |
| 61_I | 78_M | 1.292 | 0.88 |
| 174_M | 179_A | 1.283 | 0.87 |
| 37_R | 109_G | 1.281 | 0.87 |
| 178_R | 216_G | 1.268 | 0.87 |
| 188_A | 211_T | 1.264 | 0.86 |
| 59_L | 82_F | 1.256 | 0.86 |
| 129_A | 132_A | 1.250 | 0.86 |
| 224_A | 230_A | 1.249 | 0.86 |
| 130_M | 178_R | 1.228 | 0.84 |
| 22_R | 35_Y | 1.223 | 0.84 |
| 23_A | 28_E | 1.221 | 0.84 |
| 126_V | 178_R | 1.221 | 0.84 |
| 83_D | 123_G | 1.211 | 0.83 |
| 115_E | 155_F | 1.209 | 0.83 |
| 34_Y | 49_T | 1.206 | 0.83 |
| 206_M | 210_Q | 1.200 | 0.82 |
| 83_D | 86_C | 1.199 | 0.82 |
| 39_L | 111_V | 1.193 | 0.82 |
| 127_S | 130_M | 1.184 | 0.81 |
| 10_Y | 15_M | 1.180 | 0.81 |
| 240_L | 243_Q | 1.179 | 0.81 |
| 121_I | 181_A | 1.169 | 0.80 |
| 96_G | 100_A | 1.162 | 0.79 |
| 102_R | 121_I | 1.145 | 0.78 |
| 125_L | 219_T | 1.144 | 0.78 |
| 236_P | 254_R | 1.138 | 0.77 |
| 206_M | 220_A | 1.136 | 0.77 |
| 114_F | 118_V | 1.125 | 0.76 |
| 204_Q | 208_T | 1.113 | 0.75 |
| 125_L | 175_P | 1.109 | 0.75 |
| 110_C | 116_Q | 1.100 | 0.74 |
| 74_C | 82_F | 1.098 | 0.74 |
| 208_T | 211_T | 1.090 | 0.73 |
| 26_S | 139_A | 1.087 | 0.73 |
| 136_A | 140_Q | 1.086 | 0.73 |
| 126_V | 219_T | 1.085 | 0.72 |
| 127_S | 239_Y | 1.084 | 0.72 |
| 219_T | 238_D | 1.082 | 0.72 |
| 117_G | 121_I | 1.078 | 0.72 |
| 126_V | 174_M | 1.070 | 0.71 |
| 2_Y | 71_A | 1.069 | 0.71 |
| 265_S | 268_L | 1.066 | 0.71 |
| 125_L | 238_D | 1.065 | 0.70 |
| 188_A | 193_T | 1.064 | 0.70 |
| 80_R | 85_Q | 1.062 | 0.70 |
| 169_L | 173_G | 1.060 | 0.70 |
| 123_G | 131_A | 1.059 | 0.70 |
| 49_T | 62_N | 1.049 | 0.69 |
| 22_R | 128_V | 1.045 | 0.68 |
| 95_L | 115_E | 1.043 | 0.68 |
| 106_R | 178_R | 1.043 | 0.68 |
| 265_S | 272_W | 1.038 | 0.68 |
| 221_N | 235_L | 1.035 | 0.67 |
| 123_G | 272_W | 1.035 | 0.67 |
| 22_R | 222_Y | 1.035 | 0.67 |
| 216_G | 219_T | 1.034 | 0.67 |
| 187_N | 191_E | 1.033 | 0.67 |
| 165_D | 170_K | 1.032 | 0.67 |
| 83_D | 119_R | 1.028 | 0.67 |
| 64_S | 67_L | 1.025 | 0.66 |
| 114_F | 189_A | 1.025 | 0.66 |
| 125_L | 133_K | 1.025 | 0.66 |
| 38_S | 154_C | 1.020 | 0.66 |
| 235_L | 241_I | 1.016 | 0.65 |
| 266_Y | 272_W | 1.016 | 0.65 |
| 128_V | 178_R | 1.016 | 0.65 |
| 126_V | 131_A | 1.011 | 0.65 |
| 128_V | 222_Y | 1.009 | 0.64 |
| 27_V | 139_A | 1.006 | 0.64 |
| 5_N | 138_V | 1.004 | 0.64 |
| 2_Y | 86_C | 1.003 | 0.64 |
| 84_L | 104_G | 1.002 | 0.64 |
| 122_L | 126_V | 1.002 | 0.64 |
| 29_T | 36_A | 1.000 | 0.63 |
| 261_K | 264_R | 1.000 | 0.63 |
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 | |
| 1mpgA | 2 | 1 | 100 | 0.149 | Contact Map |
| 2jhnA | 2 | 0.9574 | 100 | 0.268 | Contact Map |
| 4ejyA | 2 | 0.9326 | 100 | 0.342 | Contact Map |
| 3i0wA | 1 | 0.9326 | 100 | 0.366 | Contact Map |
| 2xhiA | 1 | 0.9397 | 100 | 0.381 | Contact Map |
| 4b21A | 1 | 0.6667 | 100 | 0.456 | Contact Map |
| 2yg9A | 2 | 0.7092 | 100 | 0.501 | Contact Map |
| 3s6iA | 2 | 0.6844 | 100 | 0.501 | Contact Map |
| 2h56A | 3 | 0.7021 | 100 | 0.509 | Contact Map |
| 3fhfA | 1 | 0.6844 | 100 | 0.601 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)