| PRMT5 1-300 |
| ID: | 1515426618 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 300 (291) | ||
| Sequences: | 316 (222.7) | ||
| Seq/Len: | 1.086 | ||
| Nf(neff/√len): | 13.1 |
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: 1.086).
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 | 4.096 | 1.00 |
| 226_I | 257_L | 3.145 | 1.00 |
| 253_L | 257_L | 2.113 | 0.97 |
| 89_W | 103_S | 1.971 | 0.96 |
| 73_L | 78_W | 1.884 | 0.94 |
| 239_N | 251_Q | 1.861 | 0.94 |
| 212_L | 250_H | 1.860 | 0.94 |
| 229_A | 257_L | 1.800 | 0.92 |
| 90_I | 103_S | 1.713 | 0.89 |
| 89_W | 110_E | 1.670 | 0.88 |
| 103_S | 110_E | 1.622 | 0.86 |
| 196_C | 202_I | 1.613 | 0.85 |
| 47_H | 52_R | 1.608 | 0.85 |
| 127_N | 134_L | 1.566 | 0.83 |
| 90_I | 110_E | 1.566 | 0.83 |
| 78_W | 82_I | 1.558 | 0.82 |
| 83_V | 121_A | 1.503 | 0.79 |
| 221_W | 224_E | 1.502 | 0.79 |
| 121_A | 152_W | 1.478 | 0.77 |
| 142_I | 202_I | 1.471 | 0.77 |
| 117_L | 228_A | 1.461 | 0.76 |
| 103_S | 107_M | 1.454 | 0.76 |
| 186_W | 189_W | 1.451 | 0.76 |
| 286_Y | 290_N | 1.427 | 0.74 |
| 265_I | 284_L | 1.423 | 0.74 |
| 213_P | 250_H | 1.403 | 0.72 |
| 237_L | 247_S | 1.395 | 0.71 |
| 73_L | 80_T | 1.392 | 0.71 |
| 107_M | 111_L | 1.380 | 0.70 |
| 89_W | 106_A | 1.379 | 0.70 |
| 125_P | 212_L | 1.371 | 0.70 |
| 208_I | 295_N | 1.359 | 0.69 |
| 70_D | 157_L | 1.338 | 0.67 |
| 272_H | 280_Y | 1.317 | 0.65 |
| 103_S | 298_E | 1.310 | 0.64 |
| 126_L | 134_L | 1.307 | 0.64 |
| 125_P | 154_R | 1.307 | 0.64 |
| 103_S | 106_A | 1.303 | 0.64 |
| 90_I | 298_E | 1.300 | 0.64 |
| 193_R | 198_Y | 1.300 | 0.64 |
| 152_W | 263_Q | 1.300 | 0.64 |
| 189_W | 193_R | 1.297 | 0.63 |
| 186_W | 193_R | 1.289 | 0.63 |
| 65_P | 68_R | 1.285 | 0.62 |
| 239_N | 244_P | 1.284 | 0.62 |
| 19_D | 113_F | 1.282 | 0.62 |
| 248_K | 251_Q | 1.281 | 0.62 |
| 190_H | 193_R | 1.268 | 0.61 |
| 173_T | 176_T | 1.255 | 0.60 |
| 82_I | 296_A | 1.246 | 0.59 |
| 99_I | 198_Y | 1.244 | 0.59 |
| 133_N | 136_R | 1.233 | 0.58 |
| 184_K | 220_R | 1.230 | 0.57 |
| 95_K | 266_I | 1.226 | 0.57 |
| 92_P | 123_L | 1.225 | 0.57 |
| 70_D | 73_L | 1.224 | 0.57 |
| 118_G | 258_L | 1.219 | 0.56 |
| 19_D | 42_C | 1.214 | 0.56 |
| 203_A | 227_K | 1.211 | 0.55 |
| 173_T | 177_E | 1.202 | 0.55 |
| 153_M | 185_T | 1.194 | 0.54 |
| 91_R | 106_A | 1.191 | 0.54 |
| 113_F | 198_Y | 1.188 | 0.53 |
| 48_P | 70_D | 1.186 | 0.53 |
| 189_W | 225_P | 1.184 | 0.53 |
| 239_N | 283_Y | 1.180 | 0.53 |
| 114_G | 239_N | 1.178 | 0.52 |
| 194_T | 198_Y | 1.175 | 0.52 |
| 127_N | 202_I | 1.169 | 0.52 |
| 233_T | 268_G | 1.160 | 0.51 |
| 42_C | 126_L | 1.159 | 0.51 |
| 83_V | 120_P | 1.156 | 0.50 |
| 10_G | 13_R | 1.153 | 0.50 |
| 42_C | 268_G | 1.148 | 0.50 |
| 45_V | 264_F | 1.145 | 0.49 |
| 221_W | 225_P | 1.137 | 0.48 |
| 239_N | 245_V | 1.137 | 0.48 |
| 45_V | 235_I | 1.134 | 0.48 |
| 251_Q | 283_Y | 1.130 | 0.48 |
| 39_D | 281_L | 1.125 | 0.47 |
| 44_P | 136_R | 1.124 | 0.47 |
| 185_T | 217_V | 1.124 | 0.47 |
| 41_L | 276_E | 1.122 | 0.47 |
| 107_M | 153_M | 1.116 | 0.46 |
| 266_I | 284_L | 1.115 | 0.46 |
| 118_G | 209_G | 1.111 | 0.46 |
| 244_P | 251_Q | 1.111 | 0.46 |
| 21_N | 268_G | 1.107 | 0.46 |
| 247_S | 251_Q | 1.103 | 0.45 |
| 239_N | 242_G | 1.101 | 0.45 |
| 207_E | 232_P | 1.093 | 0.44 |
| 193_R | 287_L | 1.092 | 0.44 |
| 95_K | 204_V | 1.089 | 0.44 |
| 150_M | 300_F | 1.088 | 0.44 |
| 184_K | 241_K | 1.088 | 0.44 |
| 173_T | 178_E | 1.081 | 0.43 |
| 125_P | 250_H | 1.080 | 0.43 |
| 49_R | 268_G | 1.079 | 0.43 |
| 118_G | 157_L | 1.079 | 0.43 |
| 241_K | 245_V | 1.073 | 0.42 |
| 66_Q | 133_N | 1.072 | 0.42 |
| 190_H | 194_T | 1.067 | 0.42 |
| 287_L | 300_F | 1.067 | 0.42 |
| 20_L | 105_A | 1.063 | 0.42 |
| 276_E | 279_S | 1.056 | 0.41 |
| 25_E | 31_G | 1.055 | 0.41 |
| 244_P | 248_K | 1.055 | 0.41 |
| 128_Q | 253_L | 1.051 | 0.40 |
| 175_H | 178_E | 1.051 | 0.40 |
| 26_I | 68_R | 1.049 | 0.40 |
| 59_A | 173_T | 1.047 | 0.40 |
| 37_G | 194_T | 1.046 | 0.40 |
| 26_I | 65_P | 1.044 | 0.40 |
| 245_V | 251_Q | 1.041 | 0.40 |
| 63_P | 187_M | 1.040 | 0.39 |
| 33_V | 38_F | 1.040 | 0.39 |
| 50_F | 70_D | 1.037 | 0.39 |
| 239_N | 248_K | 1.036 | 0.39 |
| 48_P | 287_L | 1.036 | 0.39 |
| 193_R | 196_C | 1.033 | 0.39 |
| 235_I | 289_Q | 1.032 | 0.39 |
| 151_F | 265_I | 1.030 | 0.39 |
| 64_G | 67_T | 1.029 | 0.38 |
| 203_A | 243_F | 1.028 | 0.38 |
| 71_L | 133_N | 1.028 | 0.38 |
| 73_L | 94_S | 1.026 | 0.38 |
| 257_L | 289_Q | 1.026 | 0.38 |
| 166_D | 175_H | 1.026 | 0.38 |
| 197_D | 252_R | 1.024 | 0.38 |
| 75_G | 209_G | 1.023 | 0.38 |
| 113_F | 154_R | 1.023 | 0.38 |
| 260_L | 291_R | 1.022 | 0.38 |
| 283_Y | 287_L | 1.020 | 0.38 |
| 69_S | 178_E | 1.018 | 0.37 |
| 70_D | 91_R | 1.016 | 0.37 |
| 89_W | 259_K | 1.012 | 0.37 |
| 146_H | 196_C | 1.012 | 0.37 |
| 245_V | 292_P | 1.008 | 0.37 |
| 24_P | 174_T | 1.008 | 0.37 |
| 127_N | 204_V | 1.007 | 0.36 |
| 131_N | 223_G | 1.006 | 0.36 |
| 187_M | 222_L | 1.004 | 0.36 |
| 16_S | 284_L | 1.002 | 0.36 |
| 97_E | 122_F | 1.001 | 0.36 |
| 186_W | 205_A | 1.001 | 0.36 |
| 72_L | 243_F | 1.000 | 0.36 |
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 | |
| 4gqbA | 1 | 0.96 | 100 | 0.223 | Contact Map |
| 3ua3A | 2 | 0.8967 | 100 | 0.262 | Contact Map |
| 4hnoA | 1 | 0.8467 | 72.7 | 0.957 | Contact Map |
| 1qtwA | 1 | 0.8433 | 41.5 | 0.964 | Contact Map |
| 3tc3A | 2 | 0.7967 | 32.6 | 0.966 | Contact Map |
| 3aalA | 1 | 0.7867 | 31.6 | 0.966 | Contact Map |
| 2qw5A | 2 | 0.7733 | 23.8 | 0.968 | Contact Map |
| 3aamA | 1 | 0.8133 | 21.5 | 0.969 | Contact Map |
| 3wqoA | 2 | 0.81 | 18.7 | 0.97 | Contact Map |
| 3kwsA | 2 | 0.7967 | 17.3 | 0.97 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)