| 2coils |
| ID: | 1504469301 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 77 (67) | ||
| Sequences: | 331 (177.5) | ||
| Seq/Len: | 4.940 | ||
| Nf(neff/√len): | 21.7 |
Jackhmmer Results: (2016_04)
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: 4.940).
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 |
| 18_L | 22_I | 3.018 | 1.00 |
| 23_V | 29_K | 2.124 | 1.00 |
| 4_S | 7_Q | 2.014 | 1.00 |
| 22_I | 33_P | 1.595 | 0.99 |
| 24_L | 34_L | 1.570 | 0.99 |
| 3_W | 7_Q | 1.480 | 0.98 |
| 48_M | 52_I | 1.479 | 0.98 |
| 24_L | 28_F | 1.469 | 0.98 |
| 42_V | 46_I | 1.417 | 0.98 |
| 33_P | 36_A | 1.407 | 0.97 |
| 48_M | 55_Y | 1.394 | 0.97 |
| 2_Q | 61_R | 1.307 | 0.96 |
| 10_A | 52_I | 1.279 | 0.95 |
| 26_A | 34_L | 1.267 | 0.94 |
| 53_Q | 56_A | 1.263 | 0.94 |
| 50_A | 54_L | 1.244 | 0.94 |
| 11_L | 15_P | 1.234 | 0.93 |
| 58_K | 62_D | 1.230 | 0.93 |
| 12_N | 19_L | 1.229 | 0.93 |
| 17_I | 45_V | 1.216 | 0.93 |
| 8_F | 14_A | 1.195 | 0.92 |
| 3_W | 47_A | 1.185 | 0.91 |
| 57_K | 61_R | 1.157 | 0.90 |
| 10_A | 14_A | 1.157 | 0.90 |
| 63_Q | 66_L | 1.145 | 0.89 |
| 52_I | 55_Y | 1.124 | 0.88 |
| 25_L | 52_I | 1.112 | 0.88 |
| 25_L | 48_M | 1.090 | 0.86 |
| 44_L | 60_R | 1.062 | 0.84 |
| 54_L | 57_K | 1.060 | 0.84 |
| 24_L | 32_L | 1.055 | 0.84 |
| 55_Y | 59_R | 1.052 | 0.83 |
| 39_W | 43_A | 1.024 | 0.81 |
| 11_L | 52_I | 1.024 | 0.81 |
| 57_K | 60_R | 1.017 | 0.80 |
| 54_L | 58_K | 1.015 | 0.80 |
| 30_N | 33_P | 1.010 | 0.80 |
| 11_L | 19_L | 1.001 | 0.79 |
| 11_L | 14_A | 1.000 | 0.79 |
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 | |
| 4ry2A | 2 | 0 | 62.3 | 0.868 | Contact Map |
| 4u0qB | 2 | 0.2987 | 43.6 | 0.882 | Contact Map |
| 4a82A | 4 | 0.987 | 29.4 | 0.892 | Contact Map |
| 5a2fA | 1 | 0 | 27.3 | 0.894 | Contact Map |
| 2kncA | 1 | 0.6234 | 25.2 | 0.896 | Contact Map |
| 4f4cA | 1 | 0.987 | 25.1 | 0.896 | Contact Map |
| 4q4hA | 1 | 0.974 | 24.9 | 0.896 | Contact Map |
| 3b5xA | 2 | 0.974 | 24.2 | 0.897 | Contact Map |
| 3lb6C | 1 | 0.0779 | 23.7 | 0.897 | Contact Map |
| 4q4hB | 1 | 0.9221 | 23.4 | 0.898 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)