| SUMO |
| ID: | 1439233163 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 95 (85) | ||
| Sequences: | 591 (430.7) | ||
| Seq/Len: | 6.953 | ||
| Nf(neff/√len): | 46.7 |
HHblits Results: (2015_06)
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: 6.953).
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 |
| 71_D | 75_Q | 3.630 | 1.00 |
| 48_C | 58_I | 2.466 | 1.00 |
| 36_R | 74_A | 2.235 | 1.00 |
| 59_R | 89_Q | 2.230 | 1.00 |
| 73_P | 78_M | 2.170 | 1.00 |
| 62_F | 78_M | 2.075 | 1.00 |
| 41_S | 45_K | 1.944 | 1.00 |
| 44_M | 60_F | 1.656 | 1.00 |
| 45_K | 49_E | 1.593 | 1.00 |
| 67_I | 76_L | 1.593 | 1.00 |
| 68_N | 71_D | 1.584 | 1.00 |
| 61_R | 87_F | 1.545 | 0.99 |
| 44_M | 69_E | 1.464 | 0.99 |
| 82_D | 85_D | 1.454 | 0.99 |
| 17_H | 44_M | 1.431 | 0.99 |
| 61_R | 66_P | 1.393 | 0.99 |
| 43_L | 47_Y | 1.388 | 0.99 |
| 47_Y | 87_F | 1.373 | 0.98 |
| 40_L | 43_L | 1.334 | 0.98 |
| 32_F | 35_K | 1.207 | 0.96 |
| 34_I | 46_A | 1.199 | 0.96 |
| 52_G | 58_I | 1.190 | 0.95 |
| 38_T | 42_K | 1.174 | 0.95 |
| 18_I | 56_R | 1.171 | 0.95 |
| 32_F | 47_Y | 1.171 | 0.95 |
| 42_K | 46_A | 1.129 | 0.93 |
| 30_V | 35_K | 1.121 | 0.93 |
| 20_L | 24_G | 1.119 | 0.93 |
| 48_C | 55_M | 1.110 | 0.93 |
| 78_M | 82_D | 1.095 | 0.92 |
| 24_G | 47_Y | 1.088 | 0.92 |
| 83_T | 87_F | 1.077 | 0.91 |
| 29_V | 61_R | 1.076 | 0.91 |
| 32_F | 42_K | 1.062 | 0.90 |
| 16_D | 49_E | 1.037 | 0.89 |
| 62_F | 67_I | 1.037 | 0.89 |
| 86_V | 90_Q | 1.030 | 0.89 |
| 79_E | 82_D | 1.011 | 0.87 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 3ix6A | 2 | 0.0737 | 99.9 | 0.215 | Contact Map |
| 2l76A | 1 | 0.9158 | 99.9 | 0.265 | Contact Map |
| 3uf8A | 1 | 0.8526 | 99.8 | 0.303 | Contact Map |
| 3goeA | 1 | 0.8316 | 99.8 | 0.347 | Contact Map |
| 4da1A | 1 | 0 | 99.8 | 0.352 | Contact Map |
| 3pgeA | 1 | 0.8526 | 99.8 | 0.373 | Contact Map |
| 3tixA | 2 | 0.8421 | 99.7 | 0.38 | Contact Map |
| 2ekeC | 2 | 0.9158 | 99.7 | 0.393 | Contact Map |
| 3v7oA | 2 | 0.8421 | 99.7 | 0.393 | Contact Map |
| 2k8hA | 1 | 0.9684 | 99.7 | 0.405 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)