| PRMT5 292-637 |
| ID: | 1516272175 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 346 (334) | ||
| Sequences: | 825 (555) | ||
| Seq/Len: | 2.470 | ||
| Nf(neff/√len): | 30.4 |
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: 2.470).
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 |
| 221_L | 255_T | 3.269 | 1.00 |
| 183_P | 222_S | 3.144 | 1.00 |
| 166_L | 170_G | 2.803 | 1.00 |
| 75_A | 101_E | 2.362 | 1.00 |
| 183_P | 249_F | 2.116 | 1.00 |
| 50_I | 84_S | 2.042 | 0.99 |
| 139_D | 167_K | 2.002 | 0.99 |
| 144_E | 288_W | 1.981 | 0.99 |
| 144_E | 153_E | 1.964 | 0.99 |
| 56_D | 269_Y | 1.925 | 0.99 |
| 182_A | 220_Q | 1.916 | 0.99 |
| 96_K | 123_T | 1.914 | 0.99 |
| 150_A | 177_Y | 1.901 | 0.99 |
| 161_G | 164_H | 1.896 | 0.99 |
| 82_N | 113_W | 1.873 | 0.99 |
| 215_L | 261_A | 1.864 | 0.99 |
| 181_L | 260_F | 1.861 | 0.99 |
| 147_G | 152_N | 1.826 | 0.99 |
| 275_S | 278_P | 1.806 | 0.98 |
| 34_E | 38_K | 1.775 | 0.98 |
| 259_G | 292_L | 1.743 | 0.98 |
| 143_S | 147_G | 1.708 | 0.98 |
| 254_N | 302_R | 1.705 | 0.98 |
| 153_E | 288_W | 1.681 | 0.97 |
| 70_L | 95_I | 1.678 | 0.97 |
| 266_T | 274_L | 1.635 | 0.97 |
| 326_V | 332_S | 1.630 | 0.97 |
| 98_Y | 136_E | 1.540 | 0.95 |
| 72_V | 77_R | 1.533 | 0.95 |
| 75_A | 99_A | 1.522 | 0.94 |
| 254_N | 303_E | 1.519 | 0.94 |
| 98_Y | 125_V | 1.504 | 0.94 |
| 9_F | 12_G | 1.504 | 0.94 |
| 221_L | 257_L | 1.500 | 0.94 |
| 162_A | 165_F | 1.482 | 0.93 |
| 262_G | 293_F | 1.459 | 0.93 |
| 264_F | 268_L | 1.446 | 0.92 |
| 186_S | 189_L | 1.440 | 0.92 |
| 129_M | 161_G | 1.424 | 0.91 |
| 151_D | 157_E | 1.415 | 0.91 |
| 260_F | 309_V | 1.409 | 0.91 |
| 337_P | 341_S | 1.405 | 0.91 |
| 106_A | 124_V | 1.402 | 0.90 |
| 98_Y | 138_A | 1.394 | 0.90 |
| 10_A | 14_E | 1.393 | 0.90 |
| 5_A | 10_A | 1.387 | 0.90 |
| 5_A | 8_L | 1.376 | 0.89 |
| 333_A | 341_S | 1.368 | 0.89 |
| 149_F | 152_N | 1.359 | 0.89 |
| 49_A | 173_I | 1.349 | 0.88 |
| 264_F | 288_W | 1.344 | 0.88 |
| 151_D | 156_P | 1.340 | 0.88 |
| 50_I | 54_L | 1.335 | 0.87 |
| 72_V | 287_S | 1.331 | 0.87 |
| 250_P | 306_T | 1.322 | 0.87 |
| 15_D | 18_Q | 1.319 | 0.87 |
| 11_K | 14_E | 1.315 | 0.86 |
| 150_A | 156_P | 1.295 | 0.85 |
| 36_F | 42_K | 1.294 | 0.85 |
| 73_L | 141_I | 1.290 | 0.85 |
| 140_I | 171_V | 1.284 | 0.84 |
| 248_E | 308_C | 1.281 | 0.84 |
| 149_F | 293_F | 1.274 | 0.84 |
| 183_P | 261_A | 1.273 | 0.84 |
| 11_K | 19_S | 1.272 | 0.84 |
| 33_Y | 36_F | 1.271 | 0.84 |
| 162_A | 166_L | 1.271 | 0.84 |
| 9_F | 16_Y | 1.270 | 0.84 |
| 72_V | 81_V | 1.270 | 0.84 |
| 107_V | 124_V | 1.266 | 0.83 |
| 248_E | 306_T | 1.261 | 0.83 |
| 56_D | 270_Q | 1.261 | 0.83 |
| 258_H | 298_P | 1.261 | 0.83 |
| 255_T | 301_V | 1.255 | 0.83 |
| 146_L | 155_S | 1.239 | 0.81 |
| 82_N | 100_V | 1.232 | 0.81 |
| 99_A | 124_V | 1.230 | 0.81 |
| 69_V | 98_Y | 1.224 | 0.80 |
| 13_Y | 16_Y | 1.219 | 0.80 |
| 88_A | 207_F | 1.215 | 0.80 |
| 225_Q | 249_F | 1.209 | 0.79 |
| 187_S | 191_N | 1.208 | 0.79 |
| 11_K | 16_Y | 1.207 | 0.79 |
| 13_Y | 19_S | 1.201 | 0.79 |
| 52_K | 271_D | 1.193 | 0.78 |
| 74_G | 144_E | 1.191 | 0.78 |
| 178_T | 265_E | 1.190 | 0.78 |
| 70_L | 94_R | 1.188 | 0.78 |
| 36_F | 144_E | 1.181 | 0.77 |
| 173_I | 268_L | 1.168 | 0.76 |
| 332_S | 335_H | 1.168 | 0.76 |
| 151_D | 230_F | 1.160 | 0.75 |
| 101_E | 106_A | 1.153 | 0.75 |
| 190_Y | 258_H | 1.144 | 0.74 |
| 29_E | 34_E | 1.141 | 0.73 |
| 71_M | 138_A | 1.140 | 0.73 |
| 177_Y | 232_H | 1.136 | 0.73 |
| 53_C | 171_V | 1.135 | 0.73 |
| 138_A | 165_F | 1.133 | 0.73 |
| 154_L | 157_E | 1.131 | 0.73 |
| 6_Y | 11_K | 1.127 | 0.72 |
| 57_R | 68_Q | 1.110 | 0.70 |
| 299_I | 326_V | 1.107 | 0.70 |
| 36_F | 43_Y | 1.105 | 0.70 |
| 36_F | 77_R | 1.102 | 0.70 |
| 298_P | 301_V | 1.098 | 0.69 |
| 137_K | 168_D | 1.096 | 0.69 |
| 155_S | 232_H | 1.094 | 0.69 |
| 333_A | 337_P | 1.091 | 0.69 |
| 149_F | 262_G | 1.091 | 0.69 |
| 301_V | 304_G | 1.091 | 0.69 |
| 12_G | 16_Y | 1.085 | 0.68 |
| 162_A | 170_G | 1.084 | 0.68 |
| 264_F | 278_P | 1.076 | 0.67 |
| 138_A | 170_G | 1.075 | 0.67 |
| 44_S | 48_Q | 1.074 | 0.67 |
| 7_E | 10_A | 1.074 | 0.67 |
| 125_V | 299_I | 1.066 | 0.66 |
| 6_Y | 10_A | 1.064 | 0.66 |
| 278_P | 290_P | 1.062 | 0.66 |
| 32_T | 147_G | 1.058 | 0.65 |
| 94_R | 97_L | 1.057 | 0.65 |
| 147_G | 266_T | 1.056 | 0.65 |
| 43_Y | 152_N | 1.054 | 0.65 |
| 51_Y | 90_Q | 1.053 | 0.65 |
| 255_T | 272_I | 1.051 | 0.64 |
| 79_P | 86_R | 1.049 | 0.64 |
| 178_T | 226_P | 1.049 | 0.64 |
| 14_E | 83_A | 1.049 | 0.64 |
| 10_A | 13_Y | 1.047 | 0.64 |
| 8_L | 11_K | 1.045 | 0.64 |
| 36_F | 72_V | 1.044 | 0.64 |
| 5_A | 9_F | 1.043 | 0.64 |
| 268_L | 294_P | 1.042 | 0.63 |
| 295_I | 299_I | 1.042 | 0.63 |
| 336_N | 341_S | 1.042 | 0.63 |
| 53_C | 140_I | 1.041 | 0.63 |
| 33_Y | 37_E | 1.038 | 0.63 |
| 42_K | 144_E | 1.036 | 0.63 |
| 75_A | 84_S | 1.034 | 0.63 |
| 106_A | 212_V | 1.032 | 0.62 |
| 275_S | 290_P | 1.031 | 0.62 |
| 123_T | 311_F | 1.029 | 0.62 |
| 114_Q | 120_S | 1.027 | 0.62 |
| 27_N | 105_N | 1.023 | 0.61 |
| 103_N | 145_L | 1.022 | 0.61 |
| 125_V | 132_W | 1.022 | 0.61 |
| 139_D | 143_S | 1.018 | 0.61 |
| 36_F | 129_M | 1.018 | 0.61 |
| 315_S | 332_S | 1.017 | 0.61 |
| 129_M | 145_L | 1.017 | 0.61 |
| 102_K | 157_E | 1.012 | 0.60 |
| 155_S | 212_V | 1.010 | 0.60 |
| 107_V | 110_L | 1.010 | 0.60 |
| 251_V | 307_I | 1.006 | 0.59 |
| 32_T | 152_N | 1.005 | 0.59 |
| 136_E | 167_K | 1.005 | 0.59 |
| 96_K | 125_V | 1.004 | 0.59 |
| 6_Y | 9_F | 1.003 | 0.59 |
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 | |
| 3ua3A | 2 | 0.9451 | 100 | 0.306 | Contact Map |
| 4gqbA | 1 | 0.9971 | 100 | 0.357 | Contact Map |
| 2fytA | 1 | 0.8555 | 100 | 0.495 | Contact Map |
| 4lwoB | 4 | 0.8266 | 100 | 0.503 | Contact Map |
| 3x0dA | 1 | 0.9017 | 100 | 0.51 | Contact Map |
| 4c4aA | 1 | 0.8642 | 100 | 0.511 | Contact Map |
| 1g6q1 | 6 | 0.8902 | 100 | 0.512 | Contact Map |
| 3q7eA | 1 | 0.8671 | 100 | 0.514 | Contact Map |
| 4m37A | 1 | 0.8815 | 100 | 0.516 | Contact Map |
| 4ikpA | 4 | 0.8873 | 100 | 0.524 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)