| 1BTA |
| ID: | 1471609791 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 89 (82) | ||
| Sequences: | 1056 (767.7) | ||
| Seq/Len: | 12.878 | ||
| Nf(neff/√len): | 84.8 |
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: 12.878).
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 |
| 17_H | 30_Y | 3.689 | 1.00 |
| 12_S | 15_D | 2.937 | 1.00 |
| 33_N | 36_A | 2.251 | 1.00 |
| 31_G | 36_A | 1.953 | 1.00 |
| 56_F | 67_A | 1.919 | 1.00 |
| 7_G | 53_W | 1.875 | 1.00 |
| 34_L | 69_S | 1.863 | 1.00 |
| 18_Q | 32_E | 1.861 | 1.00 |
| 16_L | 34_L | 1.809 | 1.00 |
| 6_N | 55_Q | 1.743 | 1.00 |
| 29_Y | 40_C | 1.730 | 1.00 |
| 53_W | 59_S | 1.631 | 1.00 |
| 63_T | 66_G | 1.525 | 1.00 |
| 16_L | 20_L | 1.505 | 1.00 |
| 21_K | 32_E | 1.502 | 1.00 |
| 16_L | 70_V | 1.492 | 1.00 |
| 37_L | 41_L | 1.435 | 1.00 |
| 11_R | 15_D | 1.396 | 0.99 |
| 59_S | 64_E | 1.361 | 0.99 |
| 38_W | 42_T | 1.361 | 0.99 |
| 19_T | 22_K | 1.346 | 0.99 |
| 41_L | 73_V | 1.340 | 0.99 |
| 4_V | 54_R | 1.328 | 0.99 |
| 13_I | 35_D | 1.322 | 0.99 |
| 37_L | 73_V | 1.315 | 0.99 |
| 10_I | 16_L | 1.280 | 0.99 |
| 26_L | 40_C | 1.231 | 0.98 |
| 8_E | 55_Q | 1.197 | 0.98 |
| 5_I | 53_W | 1.193 | 0.98 |
| 19_T | 23_E | 1.187 | 0.98 |
| 53_W | 70_V | 1.177 | 0.98 |
| 9_Q | 19_T | 1.176 | 0.98 |
| 31_G | 39_D | 1.138 | 0.97 |
| 34_L | 70_V | 1.128 | 0.97 |
| 13_I | 17_H | 1.125 | 0.97 |
| 21_K | 30_Y | 1.116 | 0.96 |
| 34_L | 37_L | 1.100 | 0.96 |
| 36_A | 39_D | 1.089 | 0.96 |
| 17_H | 34_L | 1.061 | 0.95 |
| 44_W | 81_G | 1.055 | 0.95 |
| 7_G | 19_T | 1.042 | 0.94 |
| 58_Q | 61_Q | 1.037 | 0.94 |
| 42_T | 77_A | 1.018 | 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 | |
| 2za4B | 2 | 0.9888 | 99.9 | 0.026 | Contact Map |
| 2cx6A | 2 | 0.9663 | 99.8 | 0.094 | Contact Map |
| 1w5sA | 2 | 1 | 68.2 | 0.812 | Contact Map |
| 4xgcE | 1 | 0.9663 | 64.9 | 0.817 | Contact Map |
| 4xgcC | 1 | 0.9438 | 55.7 | 0.827 | Contact Map |
| 1vh6A | 2 | 0.8764 | 46.6 | 0.836 | Contact Map |
| 1fnnA | 2 | 0.9663 | 43.8 | 0.839 | Contact Map |
| 4iwbA | 2 | 0.8652 | 37.5 | 0.844 | Contact Map |
| 4xgcA | 1 | 0.8427 | 34.8 | 0.847 | Contact Map |
| 2v1uA | 1 | 0.9326 | 30.6 | 0.852 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)