| CENPO |
| ID: | 1512489107 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 106 (94) | ||
| Sequences: | 287 (180.4) | ||
| Seq/Len: | 3.053 | ||
| Nf(neff/√len): | 18.6 |
Jackhmmer Results: (2016_04)
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: 3.053).
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 |
| 92_H | 95_R | 1.899 | 0.99 |
| 4_G | 9_I | 1.734 | 0.99 |
| 5_I | 81_V | 1.602 | 0.97 |
| 6_R | 21_Y | 1.598 | 0.97 |
| 41_I | 88_L | 1.533 | 0.96 |
| 59_D | 73_G | 1.508 | 0.96 |
| 6_R | 19_P | 1.504 | 0.96 |
| 69_K | 72_P | 1.485 | 0.95 |
| 20_Y | 39_H | 1.410 | 0.94 |
| 29_S | 70_A | 1.332 | 0.91 |
| 91_W | 94_R | 1.330 | 0.91 |
| 7_I | 73_G | 1.328 | 0.91 |
| 39_H | 94_R | 1.302 | 0.89 |
| 59_D | 68_L | 1.290 | 0.89 |
| 28_H | 68_L | 1.286 | 0.89 |
| 45_I | 53_R | 1.280 | 0.88 |
| 19_P | 40_T | 1.268 | 0.88 |
| 34_L | 54_Y | 1.213 | 0.84 |
| 4_G | 24_L | 1.213 | 0.84 |
| 51_E | 84_L | 1.194 | 0.83 |
| 69_K | 73_G | 1.192 | 0.83 |
| 22_L | 80_F | 1.187 | 0.83 |
| 59_D | 69_K | 1.160 | 0.81 |
| 34_L | 94_R | 1.160 | 0.81 |
| 88_L | 103_E | 1.152 | 0.80 |
| 45_I | 84_L | 1.136 | 0.79 |
| 30_D | 88_L | 1.109 | 0.76 |
| 22_L | 84_L | 1.096 | 0.75 |
| 6_R | 10_C | 1.093 | 0.75 |
| 68_L | 73_G | 1.090 | 0.75 |
| 54_Y | 84_L | 1.088 | 0.74 |
| 4_G | 11_T | 1.082 | 0.74 |
| 59_D | 70_A | 1.081 | 0.74 |
| 36_V | 58_P | 1.074 | 0.73 |
| 68_L | 71_K | 1.068 | 0.72 |
| 50_L | 80_F | 1.065 | 0.72 |
| 16_Y | 38_R | 1.063 | 0.72 |
| 6_R | 26_R | 1.058 | 0.71 |
| 20_Y | 85_R | 1.054 | 0.71 |
| 37_H | 77_L | 1.052 | 0.71 |
| 36_V | 77_L | 1.048 | 0.70 |
| 28_H | 80_F | 1.046 | 0.70 |
| 49_Q | 100_W | 1.046 | 0.70 |
| 26_R | 99_A | 1.044 | 0.70 |
| 21_Y | 40_T | 1.042 | 0.70 |
| 30_D | 71_K | 1.041 | 0.70 |
| 41_I | 80_F | 1.036 | 0.69 |
| 58_P | 71_K | 1.033 | 0.69 |
| 34_L | 37_H | 1.031 | 0.69 |
| 51_E | 55_L | 1.026 | 0.68 |
| 26_R | 53_R | 1.025 | 0.68 |
| 77_L | 85_R | 1.022 | 0.68 |
| 47_L | 68_L | 1.019 | 0.67 |
| 8_D | 96_D | 1.019 | 0.67 |
| 20_Y | 91_W | 1.004 | 0.66 |
| 59_D | 71_K | 1.002 | 0.65 |
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 | |
| 3zxuA | 2 | 0.8868 | 100 | 0.171 | Contact Map |
| 3vz9B | 1 | 0.717 | 79.8 | 0.87 | Contact Map |
| 2ve7A | 2 | 0.6604 | 75.6 | 0.875 | Contact Map |
| 2ftxA | 1 | 0.6604 | 65.4 | 0.884 | Contact Map |
| 1upkA | 1 | 0.6981 | 12.2 | 0.922 | Contact Map |
| 3w3aG | 2 | 0.8019 | 11 | 0.924 | Contact Map |
| 3htkC | 1 | 0.6226 | 8.1 | 0.928 | Contact Map |
| 2xq0A | 1 | 0.5189 | 6.6 | 0.931 | Contact Map |
| 1s2xA | 1 | 0.2547 | 5.7 | 0.933 | Contact Map |
| 4tlfA | 4 | 0 | 5.6 | 0.933 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)