| Fti3_1 |
| ID: | 1516289670 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 78 (57) | ||
| Sequences: | 285 (229.8) | ||
| Seq/Len: | 5.000 | ||
| Nf(neff/√len): | 30.4 |
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: 5.000).
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 |
| 55_K | 60_E | 2.839 | 1.00 |
| 24_S | 27_D | 2.511 | 1.00 |
| 23_V | 27_D | 1.918 | 1.00 |
| 53_M | 57_A | 1.798 | 1.00 |
| 45_A | 50_V | 1.721 | 1.00 |
| 52_D | 69_E | 1.452 | 0.98 |
| 65_E | 68_A | 1.429 | 0.98 |
| 56_I | 71_K | 1.399 | 0.97 |
| 35_I | 50_V | 1.384 | 0.97 |
| 46_N | 49_D | 1.337 | 0.96 |
| 64_D | 68_A | 1.318 | 0.96 |
| 35_I | 45_A | 1.318 | 0.96 |
| 38_H | 46_N | 1.291 | 0.95 |
| 51_I | 55_K | 1.290 | 0.95 |
| 38_H | 43_M | 1.269 | 0.95 |
| 42_N | 45_A | 1.250 | 0.94 |
| 28_Y | 35_I | 1.211 | 0.93 |
| 31_I | 57_A | 1.200 | 0.92 |
| 31_I | 75_G | 1.141 | 0.89 |
| 39_A | 43_M | 1.129 | 0.89 |
| 59_N | 74_W | 1.121 | 0.88 |
| 52_D | 61_A | 1.107 | 0.87 |
| 43_M | 49_D | 1.087 | 0.86 |
| 33_S | 37_G | 1.066 | 0.85 |
| 38_H | 45_A | 1.019 | 0.81 |
| 52_D | 66_I | 1.006 | 0.80 |
| 23_V | 54_I | 1.005 | 0.80 |
| 30_E | 36_C | 1.002 | 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 | |
| 3shgB | 1 | 0.7821 | 98.3 | 0.599 | Contact Map |
| 4ociA | 1 | 0.7692 | 41.2 | 0.854 | Contact Map |
| 4mzjA | 1 | 0.8846 | 38.4 | 0.856 | Contact Map |
| 3cucA | 2 | 0.9103 | 37.8 | 0.857 | Contact Map |
| 2jojA | 1 | 0.8718 | 25.9 | 0.868 | Contact Map |
| 3wfnB | 4 | 0.9615 | 25.1 | 0.869 | Contact Map |
| 3mseB | 1 | 0.9231 | 23.3 | 0.871 | Contact Map |
| 3j04B | 2 | 0.8718 | 22.3 | 0.872 | Contact Map |
| 2kz2A | 1 | 0.8974 | 22 | 0.873 | Contact Map |
| 3a1kA | 1 | 0.6923 | 20 | 0.875 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)