| fullS7 170-500 |
| ID: | 1406485127 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 331 (283) | ||
| Sequences: | 30364 (19939.7) | ||
| Seq/Len: | 107.293 | ||
| Nf(neff/√len): | 1185.3 |
HHblits Results: (2013_03)
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: 107.293).
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 |
| 169_L | 179_C | 3.604 | 1.00 |
| 279_I | 284_E | 3.574 | 1.00 |
| 142_A | 225_I | 3.444 | 1.00 |
| 218_V | 277_C | 3.227 | 1.00 |
| 135_E | 267_S | 3.035 | 1.00 |
| 26_G | 38_K | 3.011 | 1.00 |
| 163_I | 224_M | 2.978 | 1.00 |
| 103_E | 177_K | 2.869 | 1.00 |
| 38_K | 47_I | 2.770 | 1.00 |
| 39_A | 50_K | 2.690 | 1.00 |
| 39_A | 48_V | 2.688 | 1.00 |
| 272_D | 294_H | 2.601 | 1.00 |
| 281_N | 284_E | 2.496 | 1.00 |
| 171_N | 175_Q | 2.449 | 1.00 |
| 27_K | 35_T | 2.409 | 1.00 |
| 276_R | 286_S | 2.321 | 1.00 |
| 41_H | 44_D | 2.301 | 1.00 |
| 149_L | 221_L | 2.291 | 1.00 |
| 77_K | 84_T | 2.241 | 1.00 |
| 23_V | 40_L | 2.229 | 1.00 |
| 27_K | 30_A | 2.174 | 1.00 |
| 150_D | 289_H | 2.154 | 1.00 |
| 148_G | 178_L | 2.149 | 1.00 |
| 149_L | 163_I | 2.128 | 1.00 |
| 86_Y | 103_E | 2.116 | 1.00 |
| 150_D | 154_R | 2.093 | 1.00 |
| 165_P | 201_Y | 2.052 | 1.00 |
| 144_G | 175_Q | 2.045 | 1.00 |
| 146_L | 291_L | 2.031 | 1.00 |
| 218_V | 288_I | 2.030 | 1.00 |
| 38_K | 104_Y | 1.997 | 1.00 |
| 106_D | 172_S | 1.971 | 1.00 |
| 164_K | 198_T | 1.958 | 1.00 |
| 144_G | 176_I | 1.936 | 1.00 |
| 168_V | 176_I | 1.919 | 1.00 |
| 229_V | 270_M | 1.906 | 1.00 |
| 203_S | 216_G | 1.889 | 1.00 |
| 134_N | 137_T | 1.847 | 1.00 |
| 141_I | 176_I | 1.808 | 1.00 |
| 78_P | 81_N | 1.804 | 1.00 |
| 109_S | 112_K | 1.794 | 1.00 |
| 146_L | 221_L | 1.786 | 1.00 |
| 272_D | 276_R | 1.748 | 1.00 |
| 50_K | 101_L | 1.745 | 1.00 |
| 225_I | 273_F | 1.713 | 1.00 |
| 23_V | 42_V | 1.707 | 1.00 |
| 277_C | 291_L | 1.660 | 1.00 |
| 197_G | 202_M | 1.651 | 1.00 |
| 150_D | 292_L | 1.621 | 1.00 |
| 286_S | 291_L | 1.617 | 1.00 |
| 27_K | 37_V | 1.613 | 1.00 |
| 161_R | 212_Y | 1.612 | 1.00 |
| 168_V | 224_M | 1.577 | 1.00 |
| 273_F | 277_C | 1.577 | 1.00 |
| 83_I | 105_S | 1.569 | 1.00 |
| 40_L | 47_I | 1.567 | 1.00 |
| 48_V | 101_L | 1.551 | 1.00 |
| 21_D | 41_H | 1.534 | 1.00 |
| 142_A | 221_L | 1.516 | 1.00 |
| 149_L | 288_I | 1.511 | 1.00 |
| 111_D | 166_S | 1.503 | 1.00 |
| 46_K | 86_Y | 1.485 | 1.00 |
| 201_Y | 227_E | 1.484 | 1.00 |
| 36_V | 49_A | 1.481 | 1.00 |
| 81_N | 147_N | 1.478 | 1.00 |
| 25_L | 38_K | 1.462 | 1.00 |
| 273_F | 291_L | 1.459 | 1.00 |
| 85_F | 100_I | 1.450 | 1.00 |
| 203_S | 206_R | 1.444 | 1.00 |
| 287_S | 290_E | 1.427 | 1.00 |
| 83_I | 102_M | 1.421 | 1.00 |
| 145_V | 168_V | 1.409 | 1.00 |
| 84_T | 103_E | 1.396 | 0.99 |
| 162_D | 167_N | 1.373 | 0.99 |
| 215_K | 287_S | 1.371 | 0.99 |
| 140_K | 144_G | 1.368 | 0.99 |
| 158_I | 184_S | 1.361 | 0.99 |
| 142_A | 228_L | 1.353 | 0.99 |
| 79_H | 151_H | 1.353 | 0.99 |
| 29_G | 36_V | 1.348 | 0.99 |
| 138_I | 229_V | 1.332 | 0.99 |
| 165_P | 224_M | 1.322 | 0.99 |
| 143_Y | 147_N | 1.309 | 0.99 |
| 276_R | 290_E | 1.308 | 0.99 |
| 221_L | 277_C | 1.298 | 0.99 |
| 37_V | 52_T | 1.279 | 0.99 |
| 25_L | 40_L | 1.277 | 0.99 |
| 105_S | 171_N | 1.275 | 0.99 |
| 288_I | 291_L | 1.257 | 0.99 |
| 145_V | 176_I | 1.252 | 0.99 |
| 276_R | 279_I | 1.250 | 0.99 |
| 163_I | 178_L | 1.243 | 0.98 |
| 152_L | 158_I | 1.227 | 0.98 |
| 40_L | 45_S | 1.222 | 0.98 |
| 146_L | 288_I | 1.220 | 0.98 |
| 276_R | 294_H | 1.211 | 0.98 |
| 105_S | 177_K | 1.205 | 0.98 |
| 161_R | 196_V | 1.184 | 0.98 |
| 222_G | 277_C | 1.170 | 0.97 |
| 135_E | 296_L | 1.169 | 0.97 |
| 273_F | 294_H | 1.165 | 0.97 |
| 167_N | 180_D | 1.163 | 0.97 |
| 252_I | 255_E | 1.163 | 0.97 |
| 78_P | 151_H | 1.163 | 0.97 |
| 171_N | 177_K | 1.159 | 0.97 |
| 273_F | 286_S | 1.154 | 0.97 |
| 47_I | 104_Y | 1.154 | 0.97 |
| 83_I | 179_C | 1.153 | 0.97 |
| 107_C | 174_G | 1.147 | 0.97 |
| 212_Y | 216_G | 1.145 | 0.97 |
| 206_R | 216_G | 1.140 | 0.97 |
| 219_W | 278_C | 1.134 | 0.97 |
| 154_R | 289_H | 1.130 | 0.97 |
| 160_H | 163_I | 1.128 | 0.97 |
| 249_L | 252_I | 1.122 | 0.97 |
| 143_Y | 292_L | 1.122 | 0.97 |
| 223_L | 233_F | 1.118 | 0.96 |
| 47_I | 50_K | 1.114 | 0.96 |
| 183_V | 196_V | 1.113 | 0.96 |
| 22_L | 87_G | 1.099 | 0.96 |
| 164_K | 167_N | 1.091 | 0.96 |
| 218_V | 291_L | 1.091 | 0.96 |
| 157_K | 214_I | 1.087 | 0.96 |
| 200_T | 219_W | 1.083 | 0.96 |
| 164_K | 180_D | 1.081 | 0.95 |
| 277_C | 286_S | 1.081 | 0.95 |
| 135_E | 138_I | 1.076 | 0.95 |
| 82_I | 152_L | 1.070 | 0.95 |
| 146_L | 292_L | 1.068 | 0.95 |
| 72_I | 184_S | 1.068 | 0.95 |
| 248_L | 252_I | 1.066 | 0.95 |
| 258_P | 261_P | 1.064 | 0.95 |
| 30_A | 35_T | 1.063 | 0.95 |
| 245_I | 248_L | 1.061 | 0.95 |
| 48_V | 86_Y | 1.055 | 0.95 |
| 227_E | 233_F | 1.052 | 0.95 |
| 145_V | 224_M | 1.049 | 0.94 |
| 85_F | 88_A | 1.043 | 0.94 |
| 162_D | 198_T | 1.039 | 0.94 |
| 147_N | 150_D | 1.034 | 0.94 |
| 274_V | 278_C | 1.032 | 0.94 |
| 170_I | 176_I | 1.027 | 0.94 |
| 279_I | 286_S | 1.025 | 0.93 |
| 147_N | 292_L | 1.024 | 0.93 |
| 149_L | 153_Y | 1.023 | 0.93 |
| 226_I | 235_L | 1.017 | 0.93 |
| 269_E | 295_D | 1.016 | 0.93 |
| 150_D | 288_I | 1.011 | 0.93 |
| 153_Y | 288_I | 1.007 | 0.93 |
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 | |
| 3eqcA | 1 | 0.8943 | 100 | 0.249 | Contact Map |
| 3soaA | 1 | 0.864 | 100 | 0.251 | Contact Map |
| 4lgdA | 4 | 0.9094 | 100 | 0.256 | Contact Map |
| 3pfqA | 1 | 0.861 | 100 | 0.258 | Contact Map |
| 2i0eA | 2 | 0.861 | 100 | 0.262 | Contact Map |
| 3c0iA | 1 | 0.8731 | 100 | 0.262 | Contact Map |
| 4dc2A | 1 | 0.864 | 100 | 0.265 | Contact Map |
| 4c0tA | 1 | 0.8187 | 100 | 0.267 | Contact Map |
| 2acxA | 2 | 0.9063 | 100 | 0.268 | Contact Map |
| 2bdwA | 2 | 0.8822 | 100 | 0.269 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)