| T0792 |
| ID: | 1400863848 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 80 (69) | ||
| Sequences: | 227 (181.3) | ||
| Seq/Len: | 3.290 | ||
| Nf(neff/√len): | 21.8 |
Jackhmmer Results: (2014_04_16)
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: 3.290).
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 |
| 15_D | 62_N | 2.692 | 1.00 |
| 47_F | 57_L | 1.776 | 0.99 |
| 14_I | 49_L | 1.657 | 0.98 |
| 47_F | 53_V | 1.655 | 0.98 |
| 26_A | 30_I | 1.430 | 0.95 |
| 19_R | 48_P | 1.391 | 0.94 |
| 52_N | 55_D | 1.389 | 0.94 |
| 43_T | 63_V | 1.366 | 0.93 |
| 12_P | 20_A | 1.353 | 0.93 |
| 20_A | 63_V | 1.347 | 0.92 |
| 69_E | 72_K | 1.338 | 0.92 |
| 35_I | 47_F | 1.329 | 0.92 |
| 41_K | 49_L | 1.302 | 0.91 |
| 12_P | 69_E | 1.295 | 0.90 |
| 22_L | 61_P | 1.294 | 0.90 |
| 24_S | 57_L | 1.224 | 0.87 |
| 22_L | 64_T | 1.214 | 0.86 |
| 66_E | 74_I | 1.196 | 0.85 |
| 15_D | 74_I | 1.190 | 0.85 |
| 21_I | 43_T | 1.184 | 0.84 |
| 26_A | 38_E | 1.179 | 0.84 |
| 32_I | 47_F | 1.145 | 0.81 |
| 11_Y | 18_V | 1.132 | 0.80 |
| 52_N | 74_I | 1.118 | 0.79 |
| 11_Y | 66_E | 1.091 | 0.77 |
| 73_R | 77_L | 1.090 | 0.77 |
| 21_I | 72_K | 1.079 | 0.76 |
| 20_A | 38_E | 1.077 | 0.75 |
| 31_T | 34_S | 1.068 | 0.75 |
| 17_E | 20_A | 1.047 | 0.72 |
| 16_S | 75_F | 1.045 | 0.72 |
| 18_V | 30_I | 1.038 | 0.72 |
| 14_I | 60_I | 1.033 | 0.71 |
| 30_I | 38_E | 1.026 | 0.70 |
| 38_E | 44_G | 1.023 | 0.70 |
| 40_R | 46_P | 1.013 | 0.69 |
| 67_C | 74_I | 1.009 | 0.68 |
| 22_L | 60_I | 1.005 | 0.68 |
| 22_L | 39_Y | 1.002 | 0.68 |
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 | |
| 3rcoA | 2 | 0.9125 | 99.7 | 0.282 | Contact Map |
| 3s93A | 2 | 0.95 | 99.5 | 0.363 | Contact Map |
| 2ly1A | 1 | 0.9125 | 96.1 | 0.728 | Contact Map |
| 3thdA | 4 | 0.9875 | 17.3 | 0.882 | Contact Map |
| 4flaA | 4 | 0.7625 | 12.1 | 0.89 | Contact Map |
| 4cemA | 2 | 0.875 | 11.2 | 0.891 | Contact Map |
| 1u7lA | 1 | 0.9375 | 10.8 | 0.892 | Contact Map |
| 2jeeA | 4 | 0.775 | 8.2 | 0.897 | Contact Map |
| 2kiiA | 1 | 0.95 | 6.4 | 0.903 | Contact Map |
| 2dk8A | 1 | 0.875 | 6.1 | 0.904 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)