| TssG |
| ID: | 1515509246 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 66 (66) | ||
| Sequences: | 294 (175.9) | ||
| Seq/Len: | 4.455 | ||
| Nf(neff/√len): | 21.7 |
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: 4.455).
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 |
| 35_R | 65_T | 1.934 | 1.00 |
| 46_M | 58_P | 1.872 | 1.00 |
| 31_W | 34_D | 1.700 | 0.99 |
| 18_L | 32_H | 1.580 | 0.99 |
| 5_M | 66_D | 1.566 | 0.99 |
| 43_P | 50_H | 1.463 | 0.98 |
| 8_P | 23_A | 1.408 | 0.97 |
| 48_V | 60_M | 1.360 | 0.96 |
| 37_R | 63_H | 1.359 | 0.96 |
| 3_P | 49_H | 1.343 | 0.96 |
| 5_M | 40_L | 1.314 | 0.95 |
| 1_L | 66_D | 1.297 | 0.94 |
| 1_L | 14_G | 1.281 | 0.94 |
| 16_T | 29_R | 1.240 | 0.92 |
| 12_A | 25_G | 1.236 | 0.92 |
| 57_R | 60_M | 1.223 | 0.92 |
| 2_L | 25_G | 1.210 | 0.91 |
| 2_L | 22_L | 1.210 | 0.91 |
| 7_L | 46_M | 1.198 | 0.90 |
| 5_M | 36_R | 1.195 | 0.90 |
| 1_L | 22_L | 1.164 | 0.89 |
| 4_L | 19_V | 1.160 | 0.89 |
| 18_L | 24_P | 1.141 | 0.87 |
| 16_T | 30_V | 1.109 | 0.85 |
| 28_A | 38_I | 1.109 | 0.85 |
| 47_R | 62_D | 1.109 | 0.85 |
| 24_P | 28_A | 1.104 | 0.85 |
| 53_S | 58_P | 1.103 | 0.85 |
| 43_P | 53_S | 1.085 | 0.84 |
| 42_T | 50_H | 1.079 | 0.83 |
| 23_A | 44_L | 1.056 | 0.81 |
| 46_M | 57_R | 1.032 | 0.79 |
| 27_Q | 42_T | 1.016 | 0.78 |
| 42_T | 53_S | 1.015 | 0.78 |
| 33_H | 66_D | 1.007 | 0.77 |
| 48_V | 51_P | 1.000 | 0.76 |
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 | |
| 3c9pA | 1 | 1 | 15.2 | 0.87 | Contact Map |
| 1ocxA | 3 | 0.8636 | 8.4 | 0.884 | Contact Map |
| 3fttA | 1 | 0.8788 | 7.3 | 0.887 | Contact Map |
| 4n6aA | 2 | 0.9545 | 7.1 | 0.888 | Contact Map |
| 3nz2A | 12 | 0.8788 | 6.5 | 0.89 | Contact Map |
| 3hjjA | 3 | 0.8788 | 6.2 | 0.891 | Contact Map |
| 1krrA | 3 | 0.8788 | 6.1 | 0.892 | Contact Map |
| 3srtA | 2 | 0.8788 | 5.8 | 0.892 | Contact Map |
| 2p2oA | 6 | 0.8788 | 5.5 | 0.893 | Contact Map |
| 4rxvA | 1 | 0.6818 | 5.4 | 0.894 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)