| CC domain only |
| ID: | 1451915908 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 51 (49) | ||
| Sequences: | 1340 (714.3) | ||
| Seq/Len: | 27.347 | ||
| Nf(neff/√len): | 102.0 |
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: 27.347).
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 |
| 20_R | 27_D | 3.055 | 1.00 |
| 14_R | 31_I | 2.586 | 1.00 |
| 7_C | 33_C | 1.984 | 1.00 |
| 29_H | 33_C | 1.978 | 1.00 |
| 7_C | 29_H | 1.923 | 1.00 |
| 6_C | 33_C | 1.595 | 1.00 |
| 6_C | 29_H | 1.576 | 1.00 |
| 2_H | 27_D | 1.553 | 1.00 |
| 16_V | 36_L | 1.533 | 1.00 |
| 18_I | 39_Y | 1.507 | 1.00 |
| 26_L | 47_R | 1.507 | 1.00 |
| 28_V | 49_L | 1.498 | 1.00 |
| 16_V | 46_W | 1.490 | 1.00 |
| 28_V | 51_W | 1.413 | 1.00 |
| 4_A | 27_D | 1.324 | 0.99 |
| 17_G | 26_L | 1.310 | 0.99 |
| 31_I | 48_D | 1.294 | 0.99 |
| 22_D | 25_G | 1.274 | 0.99 |
| 3_F | 13_D | 1.273 | 0.99 |
| 4_A | 32_D | 1.209 | 0.98 |
| 39_Y | 46_W | 1.181 | 0.98 |
| 36_L | 46_W | 1.068 | 0.95 |
| 13_D | 30_T | 1.023 | 0.93 |
| 2_H | 18_I | 1.022 | 0.93 |
| 20_R | 35_K | 1.011 | 0.93 |
| 5_H | 8_S | 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 | |
| 2lzyA | 1 | 0.4118 | 9.6 | 0.861 | Contact Map |
| 3w95A | 1 | 0.7255 | 2.9 | 0.891 | Contact Map |
| 4gq2M | 1 | 0.9608 | 2.9 | 0.891 | Contact Map |
| 4p4uA | 1 | 0.902 | 2.2 | 0.897 | Contact Map |
| 3zonA | 1 | 0.2549 | 2.2 | 0.897 | Contact Map |
| 3l4gB | 8 | 0.8431 | 2 | 0.9 | Contact Map |
| 3szrA | 1 | 0.8824 | 2 | 0.9 | Contact Map |
| 3icaA | 2 | 0.8235 | 2 | 0.901 | Contact Map |
| 4qnlA | 1 | 0 | 1.8 | 0.902 | Contact Map |
| 4wckA | 1 | 0.9804 | 1.8 | 0.902 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)