| T0799 240-408 30-100 |
| ID: | 1401512004 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 71 (68) | ||
| Sequences: | 131 (117.5) | ||
| Seq/Len: | 1.926 | ||
| Nf(neff/√len): | 14.2 |
HHblits Results: (2013_03)
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: 1.926).
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 |
| 5_I | 51_H | 1.801 | 0.97 |
| 26_A | 30_I | 1.720 | 0.96 |
| 29_A | 65_S | 1.687 | 0.96 |
| 29_A | 66_F | 1.601 | 0.94 |
| 16_V | 40_K | 1.535 | 0.92 |
| 30_I | 59_A | 1.460 | 0.89 |
| 12_L | 39_W | 1.436 | 0.88 |
| 55_T | 58_R | 1.363 | 0.84 |
| 30_I | 54_L | 1.353 | 0.83 |
| 37_W | 58_R | 1.339 | 0.82 |
| 15_D | 40_K | 1.335 | 0.82 |
| 10_A | 55_T | 1.323 | 0.81 |
| 33_E | 41_E | 1.302 | 0.80 |
| 7_T | 51_H | 1.298 | 0.80 |
| 62_I | 69_D | 1.269 | 0.78 |
| 23_E | 34_I | 1.267 | 0.77 |
| 56_V | 59_A | 1.254 | 0.76 |
| 25_E | 66_F | 1.249 | 0.76 |
| 51_H | 63_M | 1.248 | 0.76 |
| 7_T | 39_W | 1.245 | 0.76 |
| 55_T | 60_I | 1.226 | 0.74 |
| 27_A | 34_I | 1.223 | 0.74 |
| 18_A | 65_S | 1.205 | 0.72 |
| 28_K | 54_L | 1.201 | 0.72 |
| 49_R | 67_G | 1.197 | 0.71 |
| 14_N | 43_A | 1.196 | 0.71 |
| 5_I | 39_W | 1.189 | 0.71 |
| 30_I | 37_W | 1.155 | 0.68 |
| 38_T | 48_I | 1.143 | 0.66 |
| 34_I | 70_P | 1.112 | 0.63 |
| 61_E | 64_E | 1.105 | 0.63 |
| 64_E | 68_L | 1.091 | 0.61 |
| 24_T | 27_A | 1.088 | 0.61 |
| 10_A | 58_R | 1.087 | 0.61 |
| 3_G | 37_W | 1.086 | 0.61 |
| 7_T | 12_L | 1.076 | 0.59 |
| 33_E | 58_R | 1.070 | 0.59 |
| 23_E | 68_L | 1.052 | 0.57 |
| 28_K | 34_I | 1.047 | 0.56 |
| 4_T | 47_D | 1.043 | 0.56 |
| 39_W | 62_I | 1.041 | 0.56 |
| 36_F | 70_P | 1.037 | 0.55 |
| 19_M | 28_K | 1.028 | 0.54 |
| 17_R | 59_A | 1.004 | 0.52 |
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 | |
| 3gw6A | 6 | 0.9718 | 99.8 | 0.21 | Contact Map |
| 3gudA | 2 | 0.8732 | 99.8 | 0.261 | Contact Map |
| 2xsuA | 1 | 0.8732 | 26.1 | 0.88 | Contact Map |
| 1dmhA | 2 | 0.8732 | 14.1 | 0.894 | Contact Map |
| 2azqA | 1 | 0.8732 | 12.1 | 0.897 | Contact Map |
| 1gl4A | 1 | 1 | 10.7 | 0.9 | Contact Map |
| 3fndA | 1 | 0.9296 | 9.6 | 0.902 | Contact Map |
| 4axnA | 2 | 0.8873 | 9.5 | 0.902 | Contact Map |
| 3vgjA | 2 | 0.9437 | 8.8 | 0.904 | Contact Map |
| 2cycA | 2 | 0.8732 | 8.8 | 0.904 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)