| x25 |
| ID: | 1493560445 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 88 (86) | ||
| Sequences: | 203 (151.5) | ||
| Seq/Len: | 2.360 | ||
| Nf(neff/√len): | 16.3 |
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: 2.360).
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 |
| 6_T | 45_Q | 2.978 | 1.00 |
| 79_Y | 84_H | 2.286 | 1.00 |
| 45_Q | 63_N | 2.188 | 1.00 |
| 16_W | 54_W | 1.978 | 0.99 |
| 56_N | 59_Y | 1.952 | 0.99 |
| 21_H | 52_D | 1.870 | 0.99 |
| 47_K | 54_W | 1.850 | 0.99 |
| 47_K | 63_N | 1.801 | 0.98 |
| 10_I | 15_D | 1.793 | 0.98 |
| 8_Q | 23_T | 1.723 | 0.98 |
| 39_L | 75_V | 1.710 | 0.97 |
| 9_H | 15_D | 1.689 | 0.97 |
| 16_W | 47_K | 1.671 | 0.97 |
| 16_W | 63_N | 1.638 | 0.96 |
| 11_F | 23_T | 1.483 | 0.93 |
| 36_S | 74_H | 1.443 | 0.91 |
| 43_N | 67_T | 1.442 | 0.91 |
| 8_Q | 11_F | 1.409 | 0.90 |
| 46_Y | 86_V | 1.407 | 0.90 |
| 54_W | 63_N | 1.368 | 0.88 |
| 25_L | 35_F | 1.355 | 0.88 |
| 51_N | 55_N | 1.353 | 0.87 |
| 18_P | 49_A | 1.305 | 0.85 |
| 7_F | 66_L | 1.289 | 0.84 |
| 27_K | 30_S | 1.246 | 0.81 |
| 36_S | 76_T | 1.235 | 0.80 |
| 52_D | 61_S | 1.212 | 0.78 |
| 58_S | 61_S | 1.196 | 0.77 |
| 27_K | 33_Y | 1.196 | 0.77 |
| 44_Y | 76_T | 1.173 | 0.75 |
| 46_Y | 75_V | 1.165 | 0.74 |
| 79_Y | 83_T | 1.146 | 0.73 |
| 7_F | 44_Y | 1.138 | 0.72 |
| 76_T | 83_T | 1.106 | 0.69 |
| 50_L | 64_I | 1.102 | 0.68 |
| 43_N | 65_N | 1.101 | 0.68 |
| 62_D | 87_Y | 1.099 | 0.68 |
| 46_Y | 79_Y | 1.094 | 0.68 |
| 18_P | 40_P | 1.046 | 0.62 |
| 16_W | 45_Q | 1.034 | 0.61 |
| 21_H | 27_K | 1.011 | 0.59 |
| 10_I | 13_G | 1.010 | 0.58 |
| 4_A | 69_P | 1.007 | 0.58 |
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 | |
| 2wanA | 1 | 0.9886 | 99.3 | 0.578 | Contact Map |
| 4cfeB | 2 | 0.8068 | 97.2 | 0.767 | Contact Map |
| 4aeeA | 2 | 0.875 | 97.2 | 0.767 | Contact Map |
| 4aefA | 2 | 0.8977 | 97.1 | 0.769 | Contact Map |
| 1vemA | 1 | 0.8068 | 97.1 | 0.771 | Contact Map |
| 2qlvB | 2 | 0.6932 | 97 | 0.773 | Contact Map |
| 4jcmA | 1 | 0.8295 | 97 | 0.773 | Contact Map |
| 4fe9A | 1 | 0.8977 | 97 | 0.774 | Contact Map |
| 3bmvA | 1 | 0.8523 | 96.9 | 0.775 | Contact Map |
| 1z0nA | 3 | 0.7386 | 96.8 | 0.778 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)