| S15 |
| ID: | 1499108515 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 89 (86) | ||
| Sequences: | 2382 (1086) | ||
| Seq/Len: | 27.698 | ||
| Nf(neff/√len): | 117.1 |
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: 27.698).
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 |
| 14_E | 84_R | 3.974 | 1.00 |
| 35_Q | 59_M | 3.594 | 1.00 |
| 26_E | 77_R | 3.116 | 1.00 |
| 75_V | 79_T | 2.792 | 1.00 |
| 7_A | 34_A | 2.568 | 1.00 |
| 7_A | 10_K | 2.451 | 1.00 |
| 80_Q | 84_R | 2.286 | 1.00 |
| 13_S | 16_G | 2.139 | 1.00 |
| 10_K | 14_E | 2.092 | 1.00 |
| 34_A | 38_H | 2.015 | 1.00 |
| 15_F | 84_R | 1.948 | 1.00 |
| 74_D | 77_R | 1.852 | 1.00 |
| 7_A | 38_H | 1.798 | 1.00 |
| 4_S | 7_A | 1.722 | 1.00 |
| 33_T | 37_N | 1.662 | 1.00 |
| 50_H | 53_R | 1.652 | 1.00 |
| 78_Y | 82_I | 1.645 | 1.00 |
| 16_G | 20_N | 1.645 | 1.00 |
| 29_V | 81_L | 1.579 | 1.00 |
| 12_V | 27_V | 1.558 | 1.00 |
| 5_T | 9_A | 1.513 | 1.00 |
| 41_G | 44_A | 1.476 | 1.00 |
| 68_D | 71_K | 1.462 | 1.00 |
| 17_R | 21_D | 1.421 | 1.00 |
| 34_A | 37_N | 1.403 | 0.99 |
| 57_L | 60_V | 1.379 | 0.99 |
| 54_R | 58_R | 1.343 | 0.99 |
| 57_L | 61_S | 1.301 | 0.99 |
| 80_Q | 83_E | 1.297 | 0.99 |
| 16_G | 19_A | 1.231 | 0.98 |
| 68_D | 89_R | 1.227 | 0.98 |
| 9_A | 13_S | 1.221 | 0.98 |
| 76_A | 80_Q | 1.180 | 0.98 |
| 82_I | 89_R | 1.160 | 0.97 |
| 43_F | 53_R | 1.118 | 0.96 |
| 15_F | 30_A | 1.108 | 0.96 |
| 50_H | 61_S | 1.100 | 0.96 |
| 13_S | 19_A | 1.058 | 0.95 |
| 43_F | 50_H | 1.027 | 0.94 |
| 58_R | 62_Q | 1.006 | 0.93 |
| 61_S | 65_K | 1.002 | 0.92 |
| 64_R | 68_D | 1.000 | 0.92 |
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 | |
| 4rb5O | 1 | 0.9888 | 100 | 0.045 | Contact Map |
| 4iylA | 1 | 0.9551 | 100 | 0.051 | Contact Map |
| 1a32A | 1 | 0.9551 | 100 | 0.059 | Contact Map |
| 4a5uB | 1 | 0.8989 | 100 | 0.064 | Contact Map |
| 5aj3O | 1 | 0 | 100 | 0.088 | Contact Map |
| 3bbnO | 1 | 0.9326 | 100 | 0.152 | Contact Map |
| 3j20Q | 1 | 0.9551 | 99.9 | 0.363 | Contact Map |
| 4ujpO | 1 | 0.9888 | 99.3 | 0.584 | Contact Map |
| 4bpeO | 1 | 0.9888 | 99.3 | 0.589 | Contact Map |
| 3zeyG | 1 | 0.8876 | 99.3 | 0.589 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)