| Hbinder |
| ID: | 1669756490 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 76 (74) | ||
| Sequences: | 508 (361.7) | ||
| Seq/Len: | 6.865 | ||
| Nf(neff/√len): | 42.0 |
HHblits Results: (2016_02)
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 |
| 22_D | 45_R | 3.237 | 1.00 |
| 55_G | 58_D | 1.910 | 1.00 |
| 35_C | 41_H | 1.902 | 1.00 |
| 26_D | 29_C | 1.864 | 1.00 |
| 11_F | 30_V | 1.630 | 1.00 |
| 9_R | 15_E | 1.586 | 1.00 |
| 32_C | 35_C | 1.552 | 0.99 |
| 67_E | 70_Y | 1.459 | 0.99 |
| 25_V | 66_K | 1.444 | 0.99 |
| 57_C | 60_G | 1.418 | 0.99 |
| 71_C | 74_H | 1.382 | 0.99 |
| 32_C | 41_H | 1.315 | 0.98 |
| 38_G | 73_K | 1.268 | 0.97 |
| 59_C | 71_C | 1.266 | 0.97 |
| 36_F | 46_Y | 1.244 | 0.97 |
| 23_C | 44_H | 1.207 | 0.96 |
| 32_C | 36_F | 1.195 | 0.95 |
| 23_C | 32_C | 1.177 | 0.95 |
| 29_C | 65_W | 1.151 | 0.94 |
| 66_K | 70_Y | 1.133 | 0.93 |
| 7_C | 59_C | 1.131 | 0.93 |
| 7_C | 20_C | 1.127 | 0.93 |
| 18_Y | 41_H | 1.126 | 0.93 |
| 11_F | 55_G | 1.122 | 0.93 |
| 2_P | 39_S | 1.104 | 0.92 |
| 7_C | 35_C | 1.102 | 0.92 |
| 35_C | 44_H | 1.100 | 0.92 |
| 62_T | 67_E | 1.097 | 0.92 |
| 15_E | 29_C | 1.084 | 0.91 |
| 5_S | 16_P | 1.073 | 0.91 |
| 41_H | 44_H | 1.069 | 0.91 |
| 35_C | 60_G | 1.055 | 0.90 |
| 44_H | 59_C | 1.055 | 0.90 |
| 2_P | 74_H | 1.054 | 0.90 |
| 30_V | 55_G | 1.046 | 0.89 |
| 44_H | 60_G | 1.034 | 0.89 |
| 32_C | 44_H | 1.034 | 0.89 |
| 61_D | 64_A | 1.021 | 0.88 |
| 10_V | 48_M | 1.020 | 0.88 |
| 23_C | 35_C | 1.008 | 0.87 |
| 43_D | 69_P | 1.002 | 0.86 |
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 | |
| 3ny3A | 1 | 0.9211 | 99.9 | -0.063 | Contact Map |
| 3nisA | 4 | 1 | 99.9 | -0.038 | Contact Map |
| 2junA | 1 | 0.6053 | 52.1 | 0.822 | Contact Map |
| 2yvrA | 2 | 0.5921 | 43.3 | 0.831 | Contact Map |
| 3ddtA | 3 | 0.6053 | 41.6 | 0.833 | Contact Map |
| 1totA | 1 | 0.6184 | 34 | 0.841 | Contact Map |
| 2didA | 1 | 0.6447 | 32.5 | 0.843 | Contact Map |
| 1freA | 1 | 0.5132 | 28.8 | 0.847 | Contact Map |
| 2egmA | 1 | 0.5658 | 24.1 | 0.852 | Contact Map |
| 2fc7A | 1 | 0.7368 | 23.9 | 0.853 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)