| Adhiron2 |
| ID: | 1515341267 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 79 (79) | ||
| Sequences: | 972 (704.5) | ||
| Seq/Len: | 12.304 | ||
| Nf(neff/√len): | 79.3 |
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: 12.304).
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 |
| 29_R | 48_E | 2.813 | 1.00 |
| 10_A | 27_F | 2.438 | 1.00 |
| 5_E | 64_V | 2.351 | 1.00 |
| 16_E | 73_L | 2.322 | 1.00 |
| 16_E | 19_K | 2.272 | 1.00 |
| 42_M | 61_K | 2.204 | 1.00 |
| 65_K | 70_F | 2.167 | 1.00 |
| 65_K | 68_E | 2.035 | 1.00 |
| 34_K | 44_Y | 1.976 | 1.00 |
| 17_H | 21_E | 1.972 | 1.00 |
| 35_E | 41_T | 1.958 | 1.00 |
| 33_A | 45_L | 1.940 | 1.00 |
| 42_M | 74_Q | 1.918 | 1.00 |
| 63_W | 70_F | 1.648 | 1.00 |
| 27_F | 47_L | 1.481 | 1.00 |
| 25_L | 58_Y | 1.479 | 1.00 |
| 31_V | 57_L | 1.457 | 1.00 |
| 42_M | 63_W | 1.452 | 1.00 |
| 61_K | 75_E | 1.433 | 1.00 |
| 10_A | 47_L | 1.419 | 1.00 |
| 28_V | 50_K | 1.370 | 0.99 |
| 6_I | 33_A | 1.347 | 0.99 |
| 25_L | 49_A | 1.290 | 0.99 |
| 6_I | 9_L | 1.274 | 0.99 |
| 49_A | 58_Y | 1.272 | 0.99 |
| 32_K | 46_T | 1.254 | 0.99 |
| 37_V | 41_T | 1.219 | 0.98 |
| 9_L | 64_V | 1.172 | 0.98 |
| 12_F | 73_L | 1.156 | 0.97 |
| 38_V | 42_M | 1.155 | 0.97 |
| 49_A | 56_K | 1.104 | 0.96 |
| 40_G | 43_Y | 1.102 | 0.96 |
| 3_S | 7_E | 1.072 | 0.95 |
| 36_Q | 39_A | 1.066 | 0.95 |
| 5_E | 33_A | 1.051 | 0.94 |
| 44_Y | 59_E | 1.029 | 0.94 |
| 36_Q | 40_G | 1.029 | 0.94 |
| 9_L | 71_K | 1.017 | 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 | |
| 2l4vA | 1 | 1 | 99.8 | 0.05 | Contact Map |
| 3ul5A | 4 | 1 | 99.8 | 0.058 | Contact Map |
| 3imaB | 2 | 0.9747 | 99.8 | 0.072 | Contact Map |
| 1eqkA | 1 | 1 | 99.8 | 0.075 | Contact Map |
| 4n6tA | 1 | 1 | 99.8 | 0.079 | Contact Map |
| 4lziA | 1 | 1 | 99.8 | 0.086 | Contact Map |
| 5a0oB | 2 | 0 | 99.7 | 0.113 | Contact Map |
| 2kxgA | 1 | 0.9747 | 99.7 | 0.124 | Contact Map |
| 4n6oB | 1 | 1 | 99.6 | 0.184 | Contact Map |
| 3gaxA | 2 | 1 | 99.6 | 0.188 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)