| s15 |
| ID: | 1509955402 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 89 (86) | ||
| Sequences: | 2998 (1367.2) | ||
| Seq/Len: | 34.860 | ||
| Nf(neff/√len): | 147.4 |
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: 34.860).
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 | 3.815 | 1.00 |
| 35_Q | 59_M | 3.428 | 1.00 |
| 26_E | 77_R | 3.140 | 1.00 |
| 75_V | 79_T | 2.700 | 1.00 |
| 7_A | 34_A | 2.496 | 1.00 |
| 7_A | 10_K | 2.403 | 1.00 |
| 80_Q | 84_R | 2.284 | 1.00 |
| 13_S | 16_G | 2.263 | 1.00 |
| 10_K | 14_E | 1.943 | 1.00 |
| 74_D | 77_R | 1.917 | 1.00 |
| 4_S | 7_A | 1.874 | 1.00 |
| 34_A | 38_H | 1.836 | 1.00 |
| 7_A | 38_H | 1.762 | 1.00 |
| 15_F | 84_R | 1.730 | 1.00 |
| 5_T | 9_A | 1.679 | 1.00 |
| 17_R | 21_D | 1.641 | 1.00 |
| 50_H | 53_R | 1.612 | 1.00 |
| 33_T | 37_N | 1.596 | 1.00 |
| 16_G | 20_N | 1.554 | 1.00 |
| 54_R | 58_R | 1.546 | 1.00 |
| 78_Y | 82_I | 1.478 | 1.00 |
| 12_V | 27_V | 1.449 | 1.00 |
| 41_G | 44_A | 1.448 | 1.00 |
| 80_Q | 83_E | 1.403 | 0.99 |
| 76_A | 80_Q | 1.360 | 0.99 |
| 57_L | 61_S | 1.298 | 0.99 |
| 34_A | 37_N | 1.288 | 0.99 |
| 29_V | 81_L | 1.283 | 0.99 |
| 68_D | 71_K | 1.275 | 0.99 |
| 17_R | 26_E | 1.177 | 0.98 |
| 9_A | 13_S | 1.173 | 0.98 |
| 68_D | 89_R | 1.159 | 0.97 |
| 16_G | 19_A | 1.132 | 0.97 |
| 57_L | 60_V | 1.119 | 0.96 |
| 42_H | 49_D | 1.118 | 0.96 |
| 43_F | 61_S | 1.107 | 0.96 |
| 51_H | 55_G | 1.103 | 0.96 |
| 58_R | 62_Q | 1.090 | 0.96 |
| 21_D | 24_S | 1.058 | 0.95 |
| 23_G | 28_Q | 1.047 | 0.94 |
| 50_H | 61_S | 1.045 | 0.94 |
| 61_S | 65_K | 1.033 | 0.94 |
| 82_I | 89_R | 1.011 | 0.93 |
| 43_F | 53_R | 1.004 | 0.93 |
| 53_R | 57_L | 1.004 | 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 | |
| 4rb5O | 1 | 0.9888 | 100 | -0.02 | Contact Map |
| 4iylA | 1 | 0.9551 | 100 | -0.014 | Contact Map |
| 1a32A | 1 | 0.9551 | 100 | -0.002 | Contact Map |
| 4a5uB | 1 | 0.8989 | 100 | 0.002 | Contact Map |
| 5aj3O | 1 | 0 | 100 | 0.026 | Contact Map |
| 3bbnO | 1 | 0.9326 | 100 | 0.098 | Contact Map |
| 3j20Q | 1 | 0.9551 | 99.8 | 0.324 | Contact Map |
| 4ujpO | 1 | 0.9438 | 99 | 0.602 | Contact Map |
| 4bpeO | 1 | 0.9438 | 99 | 0.603 | Contact Map |
| 3zeyG | 1 | 0.8427 | 99 | 0.603 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)