| BCII |
| ID: | 1515603041 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 257 (217) | ||
| Sequences: | 3735 (2504.6) | ||
| Seq/Len: | 17.212 | ||
| Nf(neff/√len): | 170.0 |
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: 17.212).
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 |
| 114_I | 125_I | 3.781 | 1.00 |
| 85_V | 115_T | 3.300 | 1.00 |
| 192_N | 234_N | 3.249 | 1.00 |
| 224_E | 253_L | 2.949 | 1.00 |
| 171_E | 189_P | 2.873 | 1.00 |
| 139_A | 158_Q | 2.798 | 1.00 |
| 50_Q | 53_K | 2.739 | 1.00 |
| 134_K | 155_G | 2.563 | 1.00 |
| 162_N | 169_K | 2.467 | 1.00 |
| 87_S | 112_V | 2.278 | 1.00 |
| 169_K | 190_Q | 2.264 | 1.00 |
| 77_N | 107_K | 2.244 | 1.00 |
| 157_L | 184_I | 2.002 | 1.00 |
| 74_L | 195_V | 1.983 | 1.00 |
| 227_L | 250_L | 1.976 | 1.00 |
| 75_V | 101_V | 1.961 | 1.00 |
| 111_D | 134_K | 1.904 | 1.00 |
| 164_K | 169_K | 1.880 | 1.00 |
| 162_N | 171_E | 1.876 | 1.00 |
| 176_G | 185_V | 1.862 | 1.00 |
| 95_K | 99_E | 1.852 | 1.00 |
| 100_M | 103_K | 1.826 | 1.00 |
| 111_D | 136_H | 1.795 | 1.00 |
| 193_I | 237_V | 1.794 | 1.00 |
| 85_V | 186_V | 1.794 | 1.00 |
| 136_H | 155_G | 1.780 | 1.00 |
| 187_W | 194_L | 1.763 | 1.00 |
| 81_G | 110_T | 1.759 | 1.00 |
| 50_Q | 54_N | 1.751 | 1.00 |
| 75_V | 82_L | 1.746 | 1.00 |
| 215_Y | 218_E | 1.738 | 1.00 |
| 55_V | 193_I | 1.700 | 1.00 |
| 54_N | 191_Y | 1.675 | 1.00 |
| 224_E | 228_K | 1.669 | 1.00 |
| 168_M | 191_Y | 1.642 | 1.00 |
| 83_V | 170_V | 1.609 | 1.00 |
| 188_L | 191_Y | 1.594 | 1.00 |
| 77_N | 82_L | 1.579 | 1.00 |
| 193_I | 235_A | 1.578 | 1.00 |
| 112_V | 125_I | 1.567 | 1.00 |
| 54_N | 168_M | 1.565 | 1.00 |
| 121_R | 240_H | 1.564 | 1.00 |
| 113_I | 186_V | 1.560 | 1.00 |
| 183_N | 197_G | 1.485 | 1.00 |
| 82_L | 105_F | 1.479 | 1.00 |
| 238_P | 241_G | 1.449 | 1.00 |
| 122_I | 145_A | 1.449 | 1.00 |
| 86_D | 116_H | 1.441 | 1.00 |
| 155_G | 161_T | 1.439 | 1.00 |
| 142_A | 146_K | 1.428 | 1.00 |
| 170_V | 188_L | 1.423 | 1.00 |
| 178_G | 222_S | 1.410 | 1.00 |
| 115_T | 186_V | 1.406 | 0.99 |
| 79_S | 167_N | 1.383 | 0.99 |
| 160_V | 171_E | 1.381 | 0.99 |
| 195_V | 237_V | 1.371 | 0.99 |
| 82_L | 101_V | 1.370 | 0.99 |
| 56_W | 77_N | 1.365 | 0.99 |
| 223_I | 249_L | 1.364 | 0.99 |
| 138_T | 184_I | 1.346 | 0.99 |
| 50_Q | 56_W | 1.331 | 0.99 |
| 83_V | 113_I | 1.328 | 0.99 |
| 116_H | 198_C | 1.324 | 0.99 |
| 74_L | 237_V | 1.313 | 0.99 |
| 140_L | 143_E | 1.300 | 0.99 |
| 98_I | 102_E | 1.297 | 0.99 |
| 185_V | 199_L | 1.290 | 0.99 |
| 121_R | 198_C | 1.284 | 0.99 |
| 91_D | 95_K | 1.272 | 0.99 |
| 159_T | 225_N | 1.256 | 0.99 |
| 129_K | 154_L | 1.255 | 0.99 |
| 78_T | 166_G | 1.245 | 0.98 |
| 164_K | 167_N | 1.245 | 0.98 |
| 172_T | 186_V | 1.244 | 0.98 |
| 87_S | 125_I | 1.227 | 0.98 |
| 94_T | 127_T | 1.222 | 0.98 |
| 244_G | 248_L | 1.211 | 0.98 |
| 78_T | 83_V | 1.207 | 0.98 |
| 157_L | 161_T | 1.206 | 0.98 |
| 112_V | 128_L | 1.202 | 0.98 |
| 139_A | 156_D | 1.192 | 0.98 |
| 225_N | 228_K | 1.187 | 0.98 |
| 75_V | 84_L | 1.171 | 0.98 |
| 142_A | 156_D | 1.163 | 0.97 |
| 120_D | 240_H | 1.159 | 0.97 |
| 172_T | 184_I | 1.158 | 0.97 |
| 80_K | 166_G | 1.154 | 0.97 |
| 168_M | 188_L | 1.131 | 0.97 |
| 111_D | 155_G | 1.128 | 0.97 |
| 170_V | 186_V | 1.123 | 0.97 |
| 83_V | 111_D | 1.109 | 0.96 |
| 99_E | 103_K | 1.105 | 0.96 |
| 118_H | 121_R | 1.098 | 0.96 |
| 227_L | 253_L | 1.091 | 0.96 |
| 171_E | 187_W | 1.089 | 0.96 |
| 73_G | 88_S | 1.086 | 0.96 |
| 158_Q | 161_T | 1.072 | 0.95 |
| 194_L | 236_V | 1.070 | 0.95 |
| 55_V | 76_L | 1.067 | 0.95 |
| 116_H | 121_R | 1.067 | 0.95 |
| 220_S | 224_E | 1.067 | 0.95 |
| 115_T | 197_G | 1.067 | 0.95 |
| 115_T | 195_V | 1.066 | 0.95 |
| 178_G | 218_E | 1.063 | 0.95 |
| 169_K | 189_P | 1.050 | 0.94 |
| 58_H | 97_L | 1.049 | 0.94 |
| 168_M | 190_Q | 1.048 | 0.94 |
| 80_K | 110_T | 1.033 | 0.94 |
| 98_I | 128_L | 1.022 | 0.93 |
| 98_I | 127_T | 1.019 | 0.93 |
| 54_N | 79_S | 1.013 | 0.93 |
| 78_T | 81_G | 1.010 | 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 | |
| 4c1hA | 1 | 0.8599 | 100 | 0.417 | Contact Map |
| 4d1tA | 1 | 0.8677 | 100 | 0.424 | Contact Map |
| 3l6nA | 1 | 0.8366 | 100 | 0.429 | Contact Map |
| 2yheA | 6 | 0.9455 | 100 | 0.432 | Contact Map |
| 1m2xA | 4 | 0.8249 | 100 | 0.432 | Contact Map |
| 1a7tA | 2 | 0.8482 | 100 | 0.432 | Contact Map |
| 2fhxA | 2 | 0.8093 | 100 | 0.436 | Contact Map |
| 4eybA | 2 | 0.8872 | 100 | 0.441 | Contact Map |
| 2zo4A | 1 | 0.7899 | 100 | 0.442 | Contact Map |
| 2yntA | 2 | 0.8405 | 100 | 0.443 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)