| CTX 22 |
| ID: | 1495092188 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 61 (58) | ||
| Sequences: | 4193 (3247.5) | ||
| Seq/Len: | 72.293 | ||
| Nf(neff/√len): | 426.4 |
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: 72.293).
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_G | 40_K | 4.389 | 1.00 |
| 11_A | 24_Y | 3.235 | 1.00 |
| 50_T | 54_R | 2.996 | 1.00 |
| 22_R | 46_N | 2.819 | 1.00 |
| 26_N | 33_V | 2.531 | 1.00 |
| 19_P | 36_T | 2.510 | 1.00 |
| 29_K | 33_V | 2.373 | 1.00 |
| 23_I | 50_T | 2.190 | 1.00 |
| 22_R | 48_S | 2.018 | 1.00 |
| 53_C | 57_C | 1.935 | 1.00 |
| 6_Y | 56_T | 1.877 | 1.00 |
| 21_Q | 34_T | 1.805 | 1.00 |
| 49_R | 52_D | 1.804 | 1.00 |
| 15_S | 41_G | 1.690 | 1.00 |
| 54_R | 58_Q | 1.577 | 1.00 |
| 8_N | 27_S | 1.560 | 1.00 |
| 9_L | 44_G | 1.323 | 0.99 |
| 21_Q | 36_T | 1.321 | 0.99 |
| 24_Y | 33_V | 1.297 | 0.99 |
| 51_N | 55_Q | 1.271 | 0.99 |
| 9_L | 47_F | 1.225 | 0.98 |
| 48_S | 52_D | 1.189 | 0.98 |
| 6_Y | 47_F | 1.144 | 0.97 |
| 30_K | 58_Q | 1.057 | 0.95 |
| 43_N | 46_N | 1.044 | 0.94 |
| 19_P | 38_N | 1.043 | 0.94 |
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 | |
| 2ddiA | 1 | 1 | 99.2 | -0.08 | Contact Map |
| 4bqdA | 2 | 0.9836 | 99.2 | -0.078 | Contact Map |
| 1yc0I | 1 | 0.9836 | 99.2 | -0.077 | Contact Map |
| 1bunB | 1 | 1 | 99.2 | -0.075 | Contact Map |
| 1co7I | 1 | 0.6721 | 99.2 | -0.073 | Contact Map |
| 1jc6A | 1 | 1 | 99.2 | -0.073 | Contact Map |
| 4dtgK | 1 | 0.9836 | 99.2 | -0.071 | Contact Map |
| 1y62A | 6 | 0.918 | 99.2 | -0.07 | Contact Map |
| 1adzA | 1 | 1 | 99.1 | -0.061 | Contact Map |
| 3aubA | 2 | 0.9508 | 99.1 | -0.061 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)