| 6_1_333 |
| ID: | 1432243692 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 333 (314) | ||
| Sequences: | 714 (581) | ||
| Seq/Len: | 2.274 | ||
| Nf(neff/√len): | 32.8 |
Jackhmmer Results: (2015_01_07)
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: 2.274).
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 |
| 217_A | 223_I | 6.397 | 1.00 |
| 100_P | 325_I | 3.813 | 1.00 |
| 108_T | 313_A | 3.203 | 1.00 |
| 43_F | 53_L | 3.134 | 1.00 |
| 146_V | 172_I | 2.839 | 1.00 |
| 278_A | 318_D | 2.820 | 1.00 |
| 320_E | 328_L | 2.698 | 1.00 |
| 281_N | 316_G | 2.636 | 1.00 |
| 30_K | 57_C | 2.622 | 1.00 |
| 108_T | 167_L | 2.595 | 1.00 |
| 206_W | 209_W | 2.285 | 1.00 |
| 218_G | 221_S | 2.085 | 0.99 |
| 24_G | 29_I | 2.036 | 0.99 |
| 247_A | 268_I | 1.990 | 0.99 |
| 112_L | 131_F | 1.968 | 0.99 |
| 241_G | 244_S | 1.880 | 0.99 |
| 89_V | 325_I | 1.878 | 0.99 |
| 25_T | 28_E | 1.864 | 0.99 |
| 167_L | 313_A | 1.741 | 0.98 |
| 240_E | 244_S | 1.741 | 0.98 |
| 103_K | 319_P | 1.687 | 0.97 |
| 110_I | 167_L | 1.684 | 0.97 |
| 89_V | 322_I | 1.665 | 0.97 |
| 110_I | 131_F | 1.662 | 0.96 |
| 179_Y | 185_I | 1.637 | 0.96 |
| 110_I | 307_D | 1.623 | 0.96 |
| 226_M | 234_T | 1.616 | 0.96 |
| 101_T | 317_G | 1.606 | 0.95 |
| 111_M | 164_R | 1.569 | 0.95 |
| 171_R | 189_D | 1.551 | 0.94 |
| 125_I | 153_A | 1.512 | 0.93 |
| 187_I | 190_K | 1.508 | 0.93 |
| 34_I | 54_N | 1.477 | 0.92 |
| 168_A | 273_I | 1.469 | 0.92 |
| 131_F | 147_S | 1.461 | 0.92 |
| 217_A | 221_S | 1.460 | 0.91 |
| 22_V | 72_N | 1.460 | 0.91 |
| 112_L | 147_S | 1.445 | 0.91 |
| 133_A | 289_A | 1.444 | 0.91 |
| 148_R | 168_A | 1.434 | 0.91 |
| 93_A | 325_I | 1.402 | 0.89 |
| 13_T | 16_A | 1.394 | 0.89 |
| 37_L | 54_N | 1.393 | 0.89 |
| 98_Y | 329_G | 1.377 | 0.88 |
| 131_F | 289_A | 1.366 | 0.87 |
| 184_P | 235_E | 1.364 | 0.87 |
| 125_I | 296_T | 1.347 | 0.86 |
| 172_I | 271_E | 1.344 | 0.86 |
| 64_T | 67_I | 1.336 | 0.86 |
| 150_D | 236_F | 1.331 | 0.86 |
| 176_E | 188_Y | 1.330 | 0.85 |
| 43_F | 58_D | 1.327 | 0.85 |
| 112_L | 125_I | 1.324 | 0.85 |
| 112_L | 165_L | 1.306 | 0.84 |
| 117_A | 321_D | 1.295 | 0.83 |
| 282_G | 309_D | 1.289 | 0.83 |
| 179_Y | 183_T | 1.279 | 0.82 |
| 213_S | 226_M | 1.277 | 0.82 |
| 281_N | 313_A | 1.272 | 0.82 |
| 49_E | 58_D | 1.271 | 0.82 |
| 167_L | 289_A | 1.268 | 0.82 |
| 26_F | 30_K | 1.248 | 0.80 |
| 33_L | 64_T | 1.248 | 0.80 |
| 43_F | 325_I | 1.241 | 0.80 |
| 196_Q | 201_V | 1.232 | 0.79 |
| 34_I | 57_C | 1.221 | 0.78 |
| 282_G | 313_A | 1.219 | 0.78 |
| 174_R | 271_E | 1.216 | 0.78 |
| 238_F | 268_I | 1.214 | 0.78 |
| 244_S | 258_G | 1.214 | 0.78 |
| 201_V | 268_I | 1.212 | 0.77 |
| 91_Q | 94_Q | 1.205 | 0.77 |
| 88_S | 103_K | 1.200 | 0.76 |
| 36_W | 40_Q | 1.200 | 0.76 |
| 173_V | 282_G | 1.198 | 0.76 |
| 147_S | 165_L | 1.196 | 0.76 |
| 146_V | 273_I | 1.187 | 0.75 |
| 145_F | 313_A | 1.182 | 0.75 |
| 44_L | 52_R | 1.182 | 0.75 |
| 95_D | 304_P | 1.181 | 0.75 |
| 58_D | 69_Q | 1.179 | 0.75 |
| 56_L | 191_N | 1.175 | 0.74 |
| 27_A | 31_Q | 1.174 | 0.74 |
| 244_S | 259_G | 1.173 | 0.74 |
| 202_D | 205_E | 1.164 | 0.73 |
| 72_N | 77_E | 1.162 | 0.73 |
| 326_R | 329_G | 1.161 | 0.73 |
| 199_L | 293_T | 1.152 | 0.72 |
| 30_K | 34_I | 1.152 | 0.72 |
| 145_F | 281_N | 1.148 | 0.72 |
| 130_R | 146_V | 1.143 | 0.71 |
| 47_D | 50_G | 1.141 | 0.71 |
| 127_R | 150_D | 1.132 | 0.70 |
| 37_L | 43_F | 1.113 | 0.68 |
| 77_E | 98_Y | 1.101 | 0.67 |
| 200_Y | 269_V | 1.100 | 0.67 |
| 38_N | 47_D | 1.099 | 0.67 |
| 107_Q | 166_K | 1.097 | 0.67 |
| 55_V | 58_D | 1.096 | 0.67 |
| 289_A | 309_D | 1.096 | 0.67 |
| 54_N | 58_D | 1.093 | 0.66 |
| 106_A | 289_A | 1.091 | 0.66 |
| 240_E | 243_I | 1.087 | 0.66 |
| 136_K | 139_S | 1.083 | 0.65 |
| 26_F | 64_T | 1.081 | 0.65 |
| 213_S | 237_Y | 1.081 | 0.65 |
| 224_Y | 266_S | 1.073 | 0.64 |
| 58_D | 65_L | 1.073 | 0.64 |
| 225_Y | 236_F | 1.073 | 0.64 |
| 124_T | 150_D | 1.069 | 0.64 |
| 41_N | 61_A | 1.063 | 0.63 |
| 206_W | 222_T | 1.062 | 0.63 |
| 283_A | 288_Y | 1.060 | 0.63 |
| 65_L | 69_Q | 1.060 | 0.63 |
| 37_L | 58_D | 1.057 | 0.63 |
| 44_L | 54_N | 1.055 | 0.62 |
| 187_I | 270_I | 1.053 | 0.62 |
| 167_L | 181_K | 1.051 | 0.62 |
| 147_S | 167_L | 1.050 | 0.62 |
| 163_P | 310_F | 1.050 | 0.62 |
| 72_N | 75_V | 1.045 | 0.61 |
| 70_F | 130_R | 1.044 | 0.61 |
| 98_Y | 320_E | 1.044 | 0.61 |
| 207_I | 222_T | 1.034 | 0.60 |
| 149_E | 166_K | 1.030 | 0.60 |
| 105_A | 168_A | 1.029 | 0.59 |
| 75_V | 83_A | 1.027 | 0.59 |
| 62_Y | 66_Y | 1.027 | 0.59 |
| 86_R | 320_E | 1.027 | 0.59 |
| 78_S | 103_K | 1.025 | 0.59 |
| 112_L | 129_T | 1.025 | 0.59 |
| 25_T | 30_K | 1.023 | 0.59 |
| 197_V | 226_M | 1.023 | 0.59 |
| 12_R | 15_N | 1.021 | 0.59 |
| 285_G | 308_P | 1.019 | 0.58 |
| 37_L | 62_Y | 1.018 | 0.58 |
| 53_L | 58_D | 1.015 | 0.58 |
| 60_L | 72_N | 1.015 | 0.58 |
| 112_L | 292_L | 1.013 | 0.58 |
| 29_I | 65_L | 1.008 | 0.57 |
| 273_I | 330_T | 1.001 | 0.56 |
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 | |
| 3bhwA | 2 | 0.2943 | 11.8 | 0.968 | Contact Map |
| 2qqrA | 2 | 0.3514 | 10.8 | 0.969 | Contact Map |
| 2p64A | 2 | 0.1562 | 5 | 0.973 | Contact Map |
| 1jliA | 1 | 0.1411 | 3.6 | 0.975 | Contact Map |
| 3u02A | 4 | 0.5946 | 2.9 | 0.976 | Contact Map |
| 4lvpA | 1 | 0.2733 | 2.6 | 0.977 | Contact Map |
| 4ps6A | 1 | 0.1321 | 2.5 | 0.977 | Contact Map |
| 1uxcA | 1 | 0.1381 | 2.2 | 0.978 | Contact Map |
| 2konA | 1 | 0.2432 | 2 | 0.978 | Contact Map |
| 2lpdA | 1 | 0.1982 | 2 | 0.978 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)