| Q9X0J6 |
| ID: | 1385513769 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 89 (87) | ||
| Sequences: | 549 (350.4) | ||
| Seq/Len: | 6.310 | ||
| Nf(neff/√len): | 37.6 |
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: 6.310).
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 |
| 30_E | 77_K | 2.518 | 1.00 |
| 49_E | 77_K | 2.311 | 1.00 |
| 47_K | 80_E | 2.265 | 1.00 |
| 49_E | 79_L | 2.198 | 1.00 |
| 6_E | 12_K | 2.106 | 1.00 |
| 28_V | 81_P | 2.097 | 1.00 |
| 41_C | 66_V | 2.096 | 1.00 |
| 47_K | 59_V | 1.940 | 1.00 |
| 32_D | 53_E | 1.877 | 1.00 |
| 52_T | 57_K | 1.774 | 1.00 |
| 47_K | 61_E | 1.756 | 1.00 |
| 40_T | 65_L | 1.694 | 1.00 |
| 25_E | 83_R | 1.592 | 0.99 |
| 23_I | 83_R | 1.559 | 0.99 |
| 48_V | 82_V | 1.459 | 0.99 |
| 30_E | 75_R | 1.445 | 0.99 |
| 53_E | 73_R | 1.418 | 0.99 |
| 54_D | 57_K | 1.377 | 0.98 |
| 4_K | 11_E | 1.326 | 0.98 |
| 50_V | 60_I | 1.324 | 0.98 |
| 24_W | 82_V | 1.324 | 0.98 |
| 49_E | 59_V | 1.245 | 0.96 |
| 12_K | 15_E | 1.220 | 0.95 |
| 25_E | 45_E | 1.213 | 0.95 |
| 42_Y | 65_L | 1.212 | 0.95 |
| 65_L | 85_H | 1.184 | 0.94 |
| 31_F | 78_V | 1.174 | 0.94 |
| 10_P | 14_K | 1.167 | 0.94 |
| 48_V | 78_V | 1.165 | 0.94 |
| 51_T | 57_K | 1.156 | 0.93 |
| 50_V | 68_F | 1.135 | 0.93 |
| 9_T | 14_K | 1.134 | 0.92 |
| 25_E | 81_P | 1.129 | 0.92 |
| 11_E | 14_K | 1.105 | 0.91 |
| 8_P | 13_L | 1.101 | 0.91 |
| 44_L | 85_H | 1.100 | 0.91 |
| 51_T | 55_G | 1.067 | 0.89 |
| 35_Y | 68_F | 1.057 | 0.89 |
| 41_C | 82_V | 1.049 | 0.88 |
| 48_V | 60_I | 1.012 | 0.85 |
| 4_K | 7_K | 1.003 | 0.85 |
| 33_W | 68_F | 1.001 | 0.85 |
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 | |
| 3myxA | 2 | 1 | 99.6 | 0.459 | Contact Map |
| 1o5uA | 2 | 0.9888 | 99.3 | 0.543 | Contact Map |
| 3bcwA | 2 | 1 | 99 | 0.6 | Contact Map |
| 3es4A | 2 | 0.9888 | 99 | 0.604 | Contact Map |
| 3eo6A | 2 | 0.9551 | 98.6 | 0.656 | Contact Map |
| 2pytA | 2 | 0.9888 | 98.2 | 0.692 | Contact Map |
| 4axoA | 2 | 0.9888 | 98.1 | 0.699 | Contact Map |
| 1juhA | 4 | 1 | 97.7 | 0.728 | Contact Map |
| 3lwcA | 1 | 0.9663 | 97.2 | 0.751 | Contact Map |
| 2ozjA | 2 | 0.9888 | 97.2 | 0.752 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)