| mep50 |
| ID: | 1516281329 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 342 (318) | ||
| Sequences: | 28915 (18969.2) | ||
| Seq/Len: | 90.928 | ||
| Nf(neff/√len): | 1063.7 |
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: 90.928).
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 |
| 166_H | 185_S | 2.987 | 1.00 |
| 130_T | 143_G | 2.959 | 1.00 |
| 172_C | 186_C | 2.859 | 1.00 |
| 124_H | 142_S | 2.853 | 1.00 |
| 217_S | 231_G | 2.669 | 1.00 |
| 254_H | 273_S | 2.663 | 1.00 |
| 149_I | 185_S | 2.659 | 1.00 |
| 85_D | 97_A | 2.641 | 1.00 |
| 211_P | 230_F | 2.557 | 1.00 |
| 260_G | 274_L | 2.502 | 1.00 |
| 192_I | 230_F | 2.349 | 1.00 |
| 237_V | 273_S | 2.332 | 1.00 |
| 184_L | 220_W | 2.294 | 1.00 |
| 103_V | 142_S | 2.290 | 1.00 |
| 33_A | 46_A | 2.273 | 1.00 |
| 141_V | 175_A | 2.251 | 1.00 |
| 132_S | 174_A | 2.235 | 1.00 |
| 272_A | 305_W | 2.214 | 1.00 |
| 142_S | 152_W | 2.211 | 1.00 |
| 273_S | 283_L | 2.114 | 1.00 |
| 150_K | 162_S | 2.057 | 1.00 |
| 141_V | 183_F | 2.050 | 1.00 |
| 302_D | 316_V | 2.039 | 1.00 |
| 174_A | 219_A | 2.035 | 1.00 |
| 272_A | 282_V | 2.030 | 1.00 |
| 35_R | 87_T | 1.980 | 1.00 |
| 193_L | 205_Q | 1.975 | 1.00 |
| 171_T | 188_E | 1.971 | 1.00 |
| 238_S | 250_S | 1.970 | 1.00 |
| 141_V | 151_V | 1.962 | 1.00 |
| 185_S | 195_W | 1.954 | 1.00 |
| 193_L | 202_P | 1.934 | 1.00 |
| 87_T | 132_S | 1.931 | 1.00 |
| 44_L | 88_W | 1.881 | 1.00 |
| 184_L | 194_L | 1.877 | 1.00 |
| 129_S | 145_K | 1.876 | 1.00 |
| 219_A | 262_V | 1.874 | 1.00 |
| 89_V | 133_V | 1.873 | 1.00 |
| 229_V | 263_F | 1.863 | 1.00 |
| 230_F | 240_V | 1.829 | 1.00 |
| 238_S | 247_C | 1.818 | 1.00 |
| 229_V | 271_L | 1.817 | 1.00 |
| 150_K | 159_V | 1.807 | 1.00 |
| 296_H | 315_T | 1.785 | 1.00 |
| 196_D | 199_C | 1.774 | 1.00 |
| 79_T | 96_V | 1.749 | 1.00 |
| 143_G | 170_V | 1.745 | 1.00 |
| 184_L | 218_L | 1.720 | 1.00 |
| 134_L | 175_A | 1.717 | 1.00 |
| 141_V | 173_V | 1.703 | 1.00 |
| 60_L | 63_D | 1.682 | 1.00 |
| 178_H | 181_S | 1.667 | 1.00 |
| 45_G | 59_W | 1.638 | 1.00 |
| 186_C | 215_P | 1.620 | 1.00 |
| 262_V | 304_T | 1.599 | 1.00 |
| 176_S | 220_W | 1.586 | 1.00 |
| 184_L | 228_F | 1.585 | 1.00 |
| 259_T | 276_E | 1.585 | 1.00 |
| 44_L | 86_L | 1.578 | 1.00 |
| 153_D | 156_Q | 1.578 | 1.00 |
| 229_V | 239_L | 1.561 | 1.00 |
| 284_D | 287_L | 1.556 | 1.00 |
| 231_G | 258_V | 1.549 | 1.00 |
| 44_L | 58_L | 1.540 | 1.00 |
| 96_V | 106_W | 1.536 | 1.00 |
| 107_E | 110_E | 1.534 | 1.00 |
| 274_L | 300_V | 1.520 | 1.00 |
| 221_H | 263_F | 1.507 | 1.00 |
| 50_S | 55_A | 1.495 | 1.00 |
| 264_S | 305_W | 1.483 | 1.00 |
| 104_E | 113_T | 1.482 | 1.00 |
| 296_H | 314_T | 1.476 | 1.00 |
| 56_G | 96_V | 1.475 | 1.00 |
| 84_A | 99_D | 1.437 | 1.00 |
| 241_D | 244_S | 1.422 | 1.00 |
| 79_T | 98_S | 1.415 | 1.00 |
| 219_A | 261_L | 1.396 | 0.99 |
| 97_A | 128_V | 1.366 | 0.99 |
| 240_V | 247_C | 1.352 | 0.99 |
| 90_G | 137_G | 1.345 | 0.99 |
| 231_G | 261_L | 1.343 | 0.99 |
| 97_A | 131_V | 1.343 | 0.99 |
| 272_A | 303_A | 1.335 | 0.99 |
| 187_S | 191_R | 1.328 | 0.99 |
| 79_T | 83_V | 1.326 | 0.99 |
| 37_R | 88_W | 1.321 | 0.99 |
| 216_T | 233_E | 1.287 | 0.99 |
| 135_S | 179_K | 1.285 | 0.99 |
| 281_A | 292_R | 1.279 | 0.99 |
| 229_V | 261_L | 1.272 | 0.99 |
| 46_A | 83_V | 1.259 | 0.99 |
| 296_H | 300_V | 1.257 | 0.99 |
| 266_H | 269_P | 1.256 | 0.99 |
| 35_R | 86_L | 1.252 | 0.99 |
| 98_S | 102_A | 1.247 | 0.99 |
| 144_S | 148_C | 1.244 | 0.98 |
| 254_H | 275_S | 1.236 | 0.98 |
| 166_H | 170_V | 1.234 | 0.98 |
| 262_V | 303_A | 1.230 | 0.98 |
| 175_A | 197_T | 1.222 | 0.98 |
| 47_S | 50_S | 1.220 | 0.98 |
| 124_H | 144_S | 1.219 | 0.98 |
| 14_A | 45_G | 1.219 | 0.98 |
| 90_G | 133_V | 1.219 | 0.98 |
| 221_H | 225_S | 1.212 | 0.98 |
| 134_L | 138_T | 1.207 | 0.98 |
| 135_S | 175_A | 1.207 | 0.98 |
| 131_V | 142_S | 1.205 | 0.98 |
| 275_S | 279_S | 1.203 | 0.98 |
| 134_L | 139_Q | 1.191 | 0.98 |
| 87_T | 131_V | 1.190 | 0.98 |
| 166_H | 187_S | 1.190 | 0.98 |
| 202_P | 205_Q | 1.185 | 0.98 |
| 211_P | 232_D | 1.175 | 0.98 |
| 186_C | 218_L | 1.173 | 0.98 |
| 222_P | 263_F | 1.159 | 0.97 |
| 133_V | 154_L | 1.150 | 0.97 |
| 133_V | 140_A | 1.149 | 0.97 |
| 27_M | 45_G | 1.141 | 0.97 |
| 317_G | 321_Q | 1.132 | 0.97 |
| 138_T | 155_A | 1.131 | 0.97 |
| 280_L | 314_T | 1.126 | 0.97 |
| 313_L | 324_H | 1.122 | 0.97 |
| 159_V | 162_S | 1.121 | 0.97 |
| 37_R | 41_A | 1.112 | 0.96 |
| 234_N | 238_S | 1.112 | 0.96 |
| 273_S | 281_A | 1.111 | 0.96 |
| 274_L | 303_A | 1.110 | 0.96 |
| 38_S | 92_R | 1.110 | 0.96 |
| 18_N | 21_P | 1.110 | 0.96 |
| 211_P | 234_N | 1.106 | 0.96 |
| 132_S | 173_V | 1.100 | 0.96 |
| 161_S | 200_P | 1.090 | 0.96 |
| 230_F | 238_S | 1.089 | 0.96 |
| 296_H | 317_G | 1.087 | 0.96 |
| 38_S | 88_W | 1.068 | 0.95 |
| 142_S | 150_K | 1.060 | 0.95 |
| 46_A | 86_L | 1.059 | 0.95 |
| 186_C | 230_F | 1.057 | 0.95 |
| 130_T | 173_V | 1.055 | 0.95 |
| 95_L | 105_L | 1.054 | 0.95 |
| 253_V | 283_L | 1.052 | 0.95 |
| 79_T | 104_E | 1.048 | 0.94 |
| 183_F | 197_T | 1.045 | 0.94 |
| 177_P | 220_W | 1.044 | 0.94 |
| 35_R | 304_T | 1.043 | 0.94 |
| 185_S | 193_L | 1.041 | 0.94 |
| 34_A | 45_G | 1.033 | 0.94 |
| 104_E | 116_V | 1.029 | 0.94 |
| 232_D | 236_T | 1.028 | 0.94 |
| 306_S | 310_H | 1.027 | 0.94 |
| 95_L | 140_A | 1.026 | 0.94 |
| 296_H | 319_D | 1.022 | 0.93 |
| 280_L | 315_T | 1.017 | 0.93 |
| 295_A | 323_V | 1.015 | 0.93 |
| 204_S | 245_T | 1.015 | 0.93 |
| 143_G | 173_V | 1.012 | 0.93 |
| 174_A | 218_L | 1.009 | 0.93 |
| 33_A | 86_L | 1.003 | 0.93 |
| 124_H | 128_V | 1.001 | 0.92 |
| 182_V | 203_A | 1.001 | 0.92 |
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 | |
| 4gqbB | 1 | 0.8713 | 100 | 0.114 | Contact Map |
| 1vyhC | 10 | 0.8538 | 100 | 0.154 | Contact Map |
| 4g56B | 2 | 0.8655 | 100 | 0.174 | Contact Map |
| 4wjuA | 2 | 0.8947 | 100 | 0.188 | Contact Map |
| 4ci8A | 2 | 0.9532 | 100 | 0.198 | Contact Map |
| 3sfzA | 1 | 0.9474 | 100 | 0.202 | Contact Map |
| 4wjsA | 1 | 0.8947 | 100 | 0.203 | Contact Map |
| 3ow8A | 4 | 0.8596 | 100 | 0.207 | Contact Map |
| 1gotB | 1 | 0.8977 | 100 | 0.207 | Contact Map |
| 4nsxA | 1 | 0.9327 | 100 | 0.215 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)