| 1AON |
| ID: | 1429438730 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 100 (95) | ||
| Sequences: | 1769 (935.4) | ||
| Seq/Len: | 18.621 | ||
| Nf(neff/√len): | 96.0 |
HHblits Results: (2013_03)
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: 18.621).
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 |
| 16_Q | 42_T | 4.441 | 1.00 |
| 16_Q | 84_E | 4.396 | 1.00 |
| 54_D | 57_K | 3.594 | 1.00 |
| 13_I | 94_V | 3.566 | 1.00 |
| 80_K | 85_E | 2.712 | 1.00 |
| 51_W | 58_R | 2.478 | 1.00 |
| 40_E | 68_T | 2.257 | 1.00 |
| 52_D | 57_K | 2.214 | 1.00 |
| 63_V | 94_V | 1.990 | 1.00 |
| 7_K | 99_S | 1.878 | 1.00 |
| 17_A | 71_Y | 1.878 | 1.00 |
| 6_I | 96_A | 1.830 | 1.00 |
| 41_G | 71_Y | 1.689 | 1.00 |
| 78_E | 85_E | 1.595 | 1.00 |
| 52_D | 59_I | 1.558 | 1.00 |
| 62_D | 91_A | 1.556 | 1.00 |
| 6_I | 14_L | 1.532 | 1.00 |
| 74_Y | 90_S | 1.457 | 1.00 |
| 22_T | 35_K | 1.428 | 1.00 |
| 15_V | 89_L | 1.414 | 1.00 |
| 64_A | 67_D | 1.392 | 0.99 |
| 61_L | 91_A | 1.377 | 0.99 |
| 11_D | 90_S | 1.353 | 0.99 |
| 16_Q | 86_Y | 1.340 | 0.99 |
| 48_P | 62_D | 1.323 | 0.99 |
| 44_V | 86_Y | 1.307 | 0.99 |
| 45_A | 65_E | 1.289 | 0.99 |
| 15_V | 41_G | 1.277 | 0.99 |
| 46_V | 61_L | 1.265 | 0.99 |
| 42_T | 66_G | 1.240 | 0.98 |
| 18_N | 68_T | 1.220 | 0.98 |
| 42_T | 68_T | 1.214 | 0.98 |
| 72_S | 75_G | 1.193 | 0.98 |
| 23_T | 29_V | 1.181 | 0.98 |
| 7_K | 97_V | 1.180 | 0.98 |
| 39_Q | 77_T | 1.179 | 0.98 |
| 42_T | 65_E | 1.148 | 0.97 |
| 71_Y | 87_L | 1.136 | 0.97 |
| 39_Q | 73_K | 1.127 | 0.97 |
| 48_P | 61_L | 1.078 | 0.95 |
| 14_L | 88_I | 1.051 | 0.94 |
| 38_P | 73_K | 1.027 | 0.94 |
| 69_V | 94_V | 1.021 | 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 | |
| 1p3hA | 14 | 0.98 | 100 | 0.015 | Contact Map |
| 3nx6A | 1 | 0.75 | 100 | 0.017 | Contact Map |
| 1pcqO | 7 | 0.96 | 100 | 0.02 | Contact Map |
| 1wnrA | 7 | 0.94 | 100 | 0.04 | Contact Map |
| 1g31A | 7 | 0.86 | 99.9 | 0.199 | Contact Map |
| 4a2cA | 2 | 0.89 | 38 | 0.894 | Contact Map |
| 1piwA | 2 | 0.91 | 33.2 | 0.898 | Contact Map |
| 2vn8A | 2 | 0.88 | 32.1 | 0.898 | Contact Map |
| 3jynA | 1 | 0.84 | 28.1 | 0.902 | Contact Map |
| 3fbgA | 2 | 0.86 | 27.6 | 0.902 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)