| PF16845HHblits |
| ID: | 1512406090 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 82 (82) | ||
| Sequences: | 1482 (1090.6) | ||
| Seq/Len: | 18.073 | ||
| Nf(neff/√len): | 120.4 |
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: 18.073).
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 |
| 32_K | 51_Q | 3.187 | 1.00 |
| 19_E | 22_K | 2.533 | 1.00 |
| 13_A | 30_L | 2.451 | 1.00 |
| 37_E | 47_R | 2.316 | 1.00 |
| 68_K | 73_L | 2.000 | 1.00 |
| 45_N | 64_V | 1.966 | 1.00 |
| 35_K | 49_I | 1.881 | 1.00 |
| 38_T | 44_T | 1.867 | 1.00 |
| 68_K | 71_L | 1.864 | 1.00 |
| 61_Y | 81_L | 1.767 | 1.00 |
| 8_H | 67_E | 1.734 | 1.00 |
| 30_L | 50_L | 1.670 | 1.00 |
| 15_F | 76_L | 1.621 | 1.00 |
| 36_G | 48_L | 1.604 | 1.00 |
| 66_W | 73_L | 1.570 | 1.00 |
| 45_N | 66_W | 1.518 | 1.00 |
| 19_E | 76_L | 1.484 | 1.00 |
| 13_A | 48_L | 1.431 | 1.00 |
| 34_V | 60_T | 1.410 | 1.00 |
| 45_N | 77_T | 1.382 | 0.99 |
| 31_D | 53_K | 1.379 | 0.99 |
| 40_V | 44_T | 1.369 | 0.99 |
| 67_E | 74_R | 1.367 | 0.99 |
| 20_Y | 24_S | 1.361 | 0.99 |
| 20_Y | 63_A | 1.326 | 0.99 |
| 47_R | 62_Q | 1.302 | 0.99 |
| 64_V | 78_S | 1.284 | 0.99 |
| 28_L | 52_A | 1.232 | 0.98 |
| 39_Q | 45_N | 1.227 | 0.98 |
| 50_L | 63_A | 1.214 | 0.98 |
| 41_V | 45_N | 1.203 | 0.98 |
| 49_I | 62_Q | 1.163 | 0.97 |
| 9_V | 36_G | 1.149 | 0.97 |
| 34_V | 51_Q | 1.136 | 0.97 |
| 13_A | 50_L | 1.129 | 0.97 |
| 43_G | 66_W | 1.109 | 0.96 |
| 6_D | 10_M | 1.088 | 0.96 |
| 39_Q | 42_A | 1.066 | 0.95 |
| 4_T | 9_V | 1.047 | 0.94 |
| 31_D | 58_D | 1.045 | 0.94 |
| 1_I | 36_G | 1.024 | 0.93 |
| 12_I | 67_E | 1.020 | 0.93 |
| 20_Y | 26_G | 1.019 | 0.93 |
| 2_K | 38_T | 1.009 | 0.93 |
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 | |
| 2l4vA | 1 | 1 | 99.8 | 0.008 | Contact Map |
| 3ul5A | 4 | 0.9756 | 99.7 | 0.023 | Contact Map |
| 1eqkA | 1 | 1 | 99.7 | 0.027 | Contact Map |
| 3imaB | 2 | 0.939 | 99.7 | 0.041 | Contact Map |
| 4lziA | 1 | 1 | 99.7 | 0.055 | Contact Map |
| 5a0oB | 2 | 0 | 99.7 | 0.059 | Contact Map |
| 4n6tA | 1 | 0.9634 | 99.7 | 0.066 | Contact Map |
| 2kxgA | 1 | 0.9756 | 99.7 | 0.099 | Contact Map |
| 4n6oB | 1 | 1 | 99.6 | 0.13 | Contact Map |
| 3gaxA | 2 | 1 | 99.6 | 0.13 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)