| Adhiron |
| ID: | 1515596981 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 73 (73) | ||
| Sequences: | 1525 (1115.9) | ||
| Seq/Len: | 20.890 | ||
| Nf(neff/√len): | 130.6 |
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: 20.890).
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 |
| 28_E | 47_K | 3.161 | 1.00 |
| 33_T | 43_E | 2.676 | 1.00 |
| 34_Q | 40_F | 2.340 | 1.00 |
| 60_K | 65_E | 2.306 | 1.00 |
| 41_I | 58_W | 2.191 | 1.00 |
| 9_F | 26_F | 2.169 | 1.00 |
| 15_L | 18_Q | 1.992 | 1.00 |
| 9_F | 44_G | 1.927 | 1.00 |
| 31_T | 45_V | 1.662 | 1.00 |
| 60_K | 63_N | 1.643 | 1.00 |
| 35_Q | 41_I | 1.617 | 1.00 |
| 24_L | 48_T | 1.598 | 1.00 |
| 5_V | 32_A | 1.540 | 1.00 |
| 32_A | 44_G | 1.528 | 1.00 |
| 27_V | 49_N | 1.403 | 0.99 |
| 54_K | 72_E | 1.401 | 0.99 |
| 4_H | 59_C | 1.393 | 0.99 |
| 26_F | 46_V | 1.355 | 0.99 |
| 9_F | 13_V | 1.335 | 0.99 |
| 5_V | 8_A | 1.325 | 0.99 |
| 30_I | 47_K | 1.316 | 0.99 |
| 41_I | 56_K | 1.306 | 0.99 |
| 41_I | 69_Q | 1.304 | 0.99 |
| 58_W | 65_E | 1.280 | 0.99 |
| 36_V | 40_F | 1.275 | 0.99 |
| 37_V | 41_I | 1.273 | 0.99 |
| 16_A | 20_N | 1.256 | 0.99 |
| 59_C | 66_K | 1.228 | 0.98 |
| 8_A | 59_C | 1.210 | 0.98 |
| 15_L | 68_L | 1.188 | 0.98 |
| 13_V | 17_N | 1.167 | 0.97 |
| 56_K | 72_E | 1.086 | 0.96 |
| 39_G | 58_W | 1.086 | 0.96 |
| 11_D | 68_L | 1.053 | 0.95 |
| 30_I | 52_D | 1.037 | 0.94 |
| 4_H | 8_A | 1.034 | 0.94 |
| 27_V | 47_K | 1.018 | 0.93 |
| 2_D | 6_I | 1.012 | 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 | |
| 3ul5A | 4 | 1 | 99.5 | 0.011 | Contact Map |
| 2l4vA | 1 | 1 | 99.5 | 0.012 | Contact Map |
| 1eqkA | 1 | 1 | 99.5 | 0.017 | Contact Map |
| 5a0oB | 2 | 0 | 99.4 | 0.047 | Contact Map |
| 4n6tA | 1 | 1 | 99.4 | 0.053 | Contact Map |
| 3imaB | 2 | 0.9863 | 99.4 | 0.055 | Contact Map |
| 4lziA | 1 | 1 | 99.4 | 0.056 | Contact Map |
| 2kxgA | 1 | 0.9726 | 99.4 | 0.085 | Contact Map |
| 3gaxA | 2 | 1 | 99.3 | 0.12 | Contact Map |
| 4n6oB | 1 | 1 | 99.3 | 0.121 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)