| PRMT5 1-300 |
| ID: | 1515484907 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 300 (290) | ||
| Sequences: | 435 (350.1) | ||
| Seq/Len: | 1.500 | ||
| Nf(neff/√len): | 20.6 |
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: 1.500).
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 |
| 84_G | 119_L | 4.062 | 1.00 |
| 226_I | 257_L | 3.189 | 1.00 |
| 286_Y | 290_N | 2.221 | 0.99 |
| 239_N | 283_Y | 2.105 | 0.99 |
| 142_I | 202_I | 2.017 | 0.98 |
| 253_L | 257_L | 1.964 | 0.98 |
| 208_I | 253_L | 1.933 | 0.97 |
| 239_N | 251_Q | 1.782 | 0.95 |
| 248_K | 251_Q | 1.756 | 0.95 |
| 213_P | 250_H | 1.755 | 0.95 |
| 245_V | 251_Q | 1.701 | 0.93 |
| 78_W | 82_I | 1.690 | 0.93 |
| 218_I | 253_L | 1.689 | 0.93 |
| 229_A | 257_L | 1.594 | 0.90 |
| 125_P | 154_R | 1.573 | 0.89 |
| 189_W | 225_P | 1.571 | 0.89 |
| 127_N | 134_L | 1.558 | 0.89 |
| 212_L | 250_H | 1.549 | 0.88 |
| 70_D | 73_L | 1.535 | 0.88 |
| 92_P | 123_L | 1.524 | 0.87 |
| 151_F | 265_I | 1.485 | 0.85 |
| 152_W | 263_Q | 1.466 | 0.84 |
| 84_G | 122_F | 1.459 | 0.84 |
| 33_V | 41_L | 1.448 | 0.83 |
| 125_P | 134_L | 1.440 | 0.83 |
| 47_H | 52_R | 1.420 | 0.82 |
| 237_L | 247_S | 1.399 | 0.80 |
| 73_L | 80_T | 1.389 | 0.80 |
| 89_W | 106_A | 1.389 | 0.80 |
| 89_W | 103_S | 1.377 | 0.79 |
| 170_N | 173_T | 1.369 | 0.78 |
| 190_H | 193_R | 1.365 | 0.78 |
| 272_H | 282_Q | 1.357 | 0.78 |
| 243_F | 287_L | 1.348 | 0.77 |
| 239_N | 244_P | 1.346 | 0.77 |
| 83_V | 121_A | 1.329 | 0.75 |
| 295_N | 298_E | 1.329 | 0.75 |
| 90_I | 103_S | 1.329 | 0.75 |
| 276_E | 279_S | 1.324 | 0.75 |
| 266_I | 284_L | 1.321 | 0.75 |
| 155_V | 203_A | 1.315 | 0.74 |
| 121_A | 152_W | 1.293 | 0.73 |
| 38_F | 147_H | 1.292 | 0.72 |
| 239_N | 245_V | 1.288 | 0.72 |
| 212_L | 249_M | 1.282 | 0.72 |
| 205_A | 230_I | 1.280 | 0.71 |
| 87_S | 90_I | 1.276 | 0.71 |
| 82_I | 184_K | 1.274 | 0.71 |
| 37_G | 204_V | 1.273 | 0.71 |
| 221_W | 224_E | 1.271 | 0.71 |
| 82_I | 296_A | 1.259 | 0.70 |
| 66_Q | 109_Q | 1.250 | 0.69 |
| 45_V | 113_F | 1.248 | 0.69 |
| 251_Q | 283_Y | 1.244 | 0.68 |
| 142_I | 196_C | 1.240 | 0.68 |
| 107_M | 210_A | 1.239 | 0.68 |
| 109_Q | 117_L | 1.232 | 0.67 |
| 126_L | 134_L | 1.229 | 0.67 |
| 203_A | 227_K | 1.228 | 0.67 |
| 104_E | 136_R | 1.219 | 0.66 |
| 38_F | 245_V | 1.215 | 0.66 |
| 196_C | 202_I | 1.210 | 0.65 |
| 265_I | 284_L | 1.206 | 0.65 |
| 76_R | 298_E | 1.203 | 0.65 |
| 244_P | 283_Y | 1.202 | 0.64 |
| 226_I | 240_K | 1.201 | 0.64 |
| 95_K | 266_I | 1.201 | 0.64 |
| 246_L | 251_Q | 1.191 | 0.63 |
| 185_T | 188_W | 1.188 | 0.63 |
| 74_S | 113_F | 1.182 | 0.63 |
| 111_L | 151_F | 1.180 | 0.62 |
| 99_I | 284_L | 1.170 | 0.61 |
| 50_F | 54_F | 1.169 | 0.61 |
| 100_R | 104_E | 1.156 | 0.60 |
| 241_K | 245_V | 1.154 | 0.60 |
| 18_R | 22_C | 1.151 | 0.60 |
| 245_V | 283_Y | 1.150 | 0.59 |
| 155_V | 206_L | 1.146 | 0.59 |
| 187_M | 222_L | 1.143 | 0.59 |
| 264_F | 284_L | 1.140 | 0.58 |
| 67_T | 70_D | 1.140 | 0.58 |
| 93_D | 267_T | 1.137 | 0.58 |
| 19_D | 85_K | 1.133 | 0.58 |
| 67_T | 157_L | 1.132 | 0.58 |
| 125_P | 212_L | 1.130 | 0.57 |
| 94_S | 103_S | 1.129 | 0.57 |
| 133_N | 223_G | 1.128 | 0.57 |
| 186_W | 189_W | 1.125 | 0.57 |
| 70_D | 250_H | 1.114 | 0.56 |
| 47_H | 68_R | 1.106 | 0.55 |
| 239_N | 243_F | 1.106 | 0.55 |
| 297_Y | 300_F | 1.104 | 0.55 |
| 57_E | 61_N | 1.100 | 0.54 |
| 233_T | 268_G | 1.093 | 0.54 |
| 232_P | 280_Y | 1.093 | 0.54 |
| 18_R | 157_L | 1.088 | 0.53 |
| 222_L | 293_P | 1.082 | 0.53 |
| 87_S | 186_W | 1.081 | 0.52 |
| 208_I | 229_A | 1.076 | 0.52 |
| 63_P | 138_L | 1.076 | 0.52 |
| 246_L | 283_Y | 1.073 | 0.52 |
| 247_S | 250_H | 1.070 | 0.51 |
| 76_R | 79_N | 1.069 | 0.51 |
| 50_F | 97_E | 1.068 | 0.51 |
| 184_K | 220_R | 1.067 | 0.51 |
| 272_H | 275_K | 1.067 | 0.51 |
| 136_R | 201_R | 1.064 | 0.51 |
| 193_R | 198_Y | 1.063 | 0.51 |
| 40_F | 250_H | 1.062 | 0.50 |
| 93_D | 104_E | 1.058 | 0.50 |
| 149_S | 155_V | 1.056 | 0.50 |
| 242_G | 282_Q | 1.054 | 0.50 |
| 38_F | 234_S | 1.052 | 0.49 |
| 82_I | 93_D | 1.048 | 0.49 |
| 43_M | 86_L | 1.041 | 0.48 |
| 107_M | 111_L | 1.041 | 0.48 |
| 119_L | 166_D | 1.041 | 0.48 |
| 189_W | 193_R | 1.038 | 0.48 |
| 131_N | 229_A | 1.033 | 0.47 |
| 187_M | 290_N | 1.026 | 0.47 |
| 247_S | 277_F | 1.022 | 0.46 |
| 106_A | 138_L | 1.022 | 0.46 |
| 94_S | 146_H | 1.019 | 0.46 |
| 110_E | 113_F | 1.019 | 0.46 |
| 160_P | 209_G | 1.019 | 0.46 |
| 124_L | 134_L | 1.018 | 0.46 |
| 147_H | 150_M | 1.018 | 0.46 |
| 208_I | 284_L | 1.017 | 0.46 |
| 58_P | 61_N | 1.015 | 0.46 |
| 94_S | 99_I | 1.009 | 0.45 |
| 94_S | 156_P | 1.008 | 0.45 |
| 97_E | 104_E | 1.007 | 0.45 |
| 13_R | 21_N | 1.006 | 0.45 |
| 167_I | 170_N | 1.005 | 0.45 |
| 170_N | 174_T | 1.004 | 0.44 |
| 73_L | 78_W | 1.004 | 0.44 |
| 78_W | 93_D | 1.004 | 0.44 |
| 175_H | 178_E | 1.002 | 0.44 |
| 233_T | 297_Y | 1.002 | 0.44 |
| 214_S | 290_N | 1.000 | 0.44 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 4gqbA | 1 | 0.96 | 100 | 0.211 | Contact Map |
| 3ua3A | 2 | 0.9 | 100 | 0.255 | Contact Map |
| 4hnoA | 1 | 0.84 | 96.4 | 0.931 | Contact Map |
| 1qtwA | 1 | 0.8433 | 95.4 | 0.936 | Contact Map |
| 3tc3A | 2 | 0.8267 | 92.2 | 0.945 | Contact Map |
| 3aalA | 1 | 0.86 | 91.9 | 0.945 | Contact Map |
| 3obeA | 2 | 0.9067 | 89.8 | 0.948 | Contact Map |
| 3kwsA | 2 | 0.8067 | 88.7 | 0.949 | Contact Map |
| 2j6vA | 2 | 0.7767 | 88.4 | 0.949 | Contact Map |
| 3ktcA | 2 | 0.8733 | 88.4 | 0.949 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)