| MSHR_HUMAN |
| ID: | 1494753250 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 317 (276) | ||
| Sequences: | 15243 (9219.5) | ||
| Seq/Len: | 55.228 | ||
| Nf(neff/√len): | 554.9 |
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: 55.228).
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 |
| 52_S | 88_S | 5.736 | 1.00 |
| 79_C | 169_W | 4.234 | 1.00 |
| 205_V | 209_H | 3.760 | 1.00 |
| 114_Q | 117_D | 3.477 | 1.00 |
| 79_C | 134_F | 3.071 | 1.00 |
| 159_P | 163_R | 2.663 | 1.00 |
| 208_V | 212_A | 2.525 | 1.00 |
| 143_Y | 209_H | 2.455 | 1.00 |
| 137_A | 168_I | 2.446 | 1.00 |
| 202_L | 206_L | 2.344 | 1.00 |
| 143_Y | 148_Y | 2.257 | 1.00 |
| 60_V | 78_C | 2.139 | 1.00 |
| 242_T | 301_H | 2.035 | 1.00 |
| 83_S | 130_S | 2.024 | 1.00 |
| 122_V | 126_S | 2.016 | 1.00 |
| 137_A | 164_A | 1.997 | 1.00 |
| 63_I | 78_C | 1.964 | 1.00 |
| 75_C | 165_V | 1.933 | 1.00 |
| 209_H | 212_A | 1.922 | 1.00 |
| 249_I | 297_I | 1.915 | 1.00 |
| 143_Y | 147_F | 1.915 | 1.00 |
| 163_R | 167_A | 1.892 | 1.00 |
| 79_C | 165_V | 1.884 | 1.00 |
| 136_G | 206_L | 1.869 | 1.00 |
| 254_W | 287_I | 1.861 | 1.00 |
| 57_A | 61_A | 1.860 | 1.00 |
| 130_S | 172_S | 1.853 | 1.00 |
| 76_F | 161_A | 1.835 | 1.00 |
| 134_F | 165_V | 1.825 | 1.00 |
| 157_T | 160_R | 1.761 | 1.00 |
| 148_Y | 151_R | 1.753 | 1.00 |
| 69_L | 74_Y | 1.737 | 1.00 |
| 162_R | 166_A | 1.731 | 1.00 |
| 66_N | 308_T | 1.693 | 1.00 |
| 75_C | 162_R | 1.662 | 1.00 |
| 209_H | 213_R | 1.648 | 1.00 |
| 55_E | 292_I | 1.648 | 1.00 |
| 147_F | 213_R | 1.644 | 1.00 |
| 213_R | 216_Q | 1.633 | 1.00 |
| 143_Y | 206_L | 1.629 | 1.00 |
| 53_L | 85_L | 1.628 | 1.00 |
| 259_L | 263_L | 1.610 | 1.00 |
| 211_L | 215_C | 1.605 | 1.00 |
| 110_A | 113_L | 1.584 | 1.00 |
| 195_F | 198_A | 1.567 | 1.00 |
| 212_A | 216_Q | 1.567 | 1.00 |
| 53_L | 88_S | 1.559 | 1.00 |
| 52_S | 292_I | 1.557 | 1.00 |
| 84_D | 294_D | 1.526 | 1.00 |
| 164_A | 168_I | 1.517 | 1.00 |
| 134_F | 169_W | 1.511 | 1.00 |
| 204_A | 208_V | 1.510 | 1.00 |
| 308_T | 311_E | 1.506 | 1.00 |
| 141_D | 145_S | 1.480 | 1.00 |
| 110_A | 114_Q | 1.471 | 1.00 |
| 86_L | 127_S | 1.436 | 1.00 |
| 245_I | 301_H | 1.431 | 1.00 |
| 136_G | 202_L | 1.430 | 1.00 |
| 144_I | 155_I | 1.422 | 1.00 |
| 139_A | 207_Y | 1.422 | 1.00 |
| 84_D | 131_S | 1.386 | 0.99 |
| 294_D | 298_Y | 1.384 | 0.99 |
| 87_V | 291_A | 1.384 | 0.99 |
| 145_S | 149_A | 1.383 | 0.99 |
| 126_S | 173_V | 1.380 | 0.99 |
| 200_L | 251_F | 1.379 | 0.99 |
| 60_V | 85_L | 1.364 | 0.99 |
| 60_V | 82_L | 1.361 | 0.99 |
| 61_A | 65_K | 1.354 | 0.99 |
| 140_V | 206_L | 1.354 | 0.99 |
| 172_S | 176_S | 1.354 | 0.99 |
| 81_A | 84_D | 1.344 | 0.99 |
| 115_Q | 119_V | 1.340 | 0.99 |
| 78_C | 82_L | 1.329 | 0.99 |
| 76_F | 138_I | 1.321 | 0.99 |
| 159_P | 162_R | 1.321 | 0.99 |
| 177_T | 181_A | 1.315 | 0.99 |
| 64_A | 78_C | 1.303 | 0.99 |
| 151_R | 155_I | 1.302 | 0.99 |
| 61_A | 312_V | 1.289 | 0.99 |
| 289_C | 293_I | 1.284 | 0.99 |
| 57_A | 85_L | 1.273 | 0.99 |
| 133_C | 171_A | 1.267 | 0.99 |
| 71_S | 74_Y | 1.264 | 0.99 |
| 190_L | 194_V | 1.263 | 0.99 |
| 80_L | 134_F | 1.252 | 0.99 |
| 144_I | 148_Y | 1.245 | 0.98 |
| 194_V | 199_M | 1.241 | 0.98 |
| 143_Y | 205_V | 1.239 | 0.98 |
| 158_L | 162_R | 1.238 | 0.98 |
| 63_I | 69_L | 1.236 | 0.98 |
| 135_L | 203_M | 1.234 | 0.98 |
| 54_V | 57_A | 1.231 | 0.98 |
| 249_I | 293_I | 1.226 | 0.98 |
| 93_L | 96_A | 1.225 | 0.98 |
| 59_V | 81_A | 1.211 | 0.98 |
| 49_G | 88_S | 1.205 | 0.98 |
| 90_S | 93_L | 1.200 | 0.98 |
| 255_G | 259_L | 1.199 | 0.98 |
| 83_S | 131_S | 1.198 | 0.98 |
| 217_H | 221_I | 1.178 | 0.98 |
| 141_D | 156_V | 1.174 | 0.98 |
| 130_S | 169_W | 1.174 | 0.98 |
| 211_L | 240_A | 1.160 | 0.97 |
| 151_R | 154_S | 1.159 | 0.97 |
| 59_V | 63_I | 1.157 | 0.97 |
| 140_V | 144_I | 1.155 | 0.97 |
| 139_A | 206_L | 1.136 | 0.97 |
| 156_V | 164_A | 1.135 | 0.97 |
| 55_E | 296_L | 1.132 | 0.97 |
| 59_V | 294_D | 1.122 | 0.97 |
| 145_S | 152_Y | 1.121 | 0.97 |
| 136_G | 203_M | 1.100 | 0.96 |
| 83_S | 169_W | 1.099 | 0.96 |
| 168_I | 172_S | 1.093 | 0.96 |
| 194_V | 198_A | 1.093 | 0.96 |
| 132_L | 250_F | 1.087 | 0.96 |
| 106_L | 110_A | 1.079 | 0.95 |
| 76_F | 134_F | 1.078 | 0.95 |
| 60_V | 81_A | 1.076 | 0.95 |
| 106_L | 109_R | 1.068 | 0.95 |
| 133_C | 172_S | 1.065 | 0.95 |
| 72_P | 161_A | 1.063 | 0.95 |
| 76_F | 141_D | 1.062 | 0.95 |
| 141_D | 152_Y | 1.061 | 0.95 |
| 195_F | 199_M | 1.061 | 0.95 |
| 147_F | 209_H | 1.054 | 0.95 |
| 85_L | 88_S | 1.047 | 0.94 |
| 66_N | 69_L | 1.045 | 0.94 |
| 75_C | 158_L | 1.036 | 0.94 |
| 203_M | 206_L | 1.033 | 0.94 |
| 51_V | 54_V | 1.029 | 0.94 |
| 236_G | 239_G | 1.027 | 0.94 |
| 76_F | 137_A | 1.026 | 0.94 |
| 134_F | 168_I | 1.026 | 0.94 |
| 105_A | 108_A | 1.017 | 0.93 |
| 178_L | 181_A | 1.014 | 0.93 |
| 132_L | 136_G | 1.013 | 0.93 |
| 310_K | 314_T | 1.002 | 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
- 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 | |
| 4iarA | 1 | 0.8738 | 100 | 0.237 | Contact Map |
| 4pxzA | 1 | 0.8391 | 100 | 0.242 | Contact Map |
| 2rh1A | 1 | 0.8549 | 100 | 0.253 | Contact Map |
| 3oduA | 2 | 0.8833 | 100 | 0.254 | Contact Map |
| 4grvA | 1 | 0.8738 | 100 | 0.255 | Contact Map |
| 3uonA | 1 | 0.8517 | 100 | 0.257 | Contact Map |
| 3pblA | 2 | 0.8423 | 100 | 0.257 | Contact Map |
| 3vw7A | 1 | 0.8454 | 100 | 0.259 | Contact Map |
| 4mqsA | 1 | 0.8107 | 100 | 0.26 | Contact Map |
| 4xesA | 1 | 0 | 100 | 0.261 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)