| 1r69 |
| ID: | 1667800905 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 69 (65) | ||
| Sequences: | 64757 (47804.8) | ||
| Seq/Len: | 996.262 | ||
| Nf(neff/√len): | 5929.5 |
HHblits Results: (2016_02)
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 |
| 10_R | 35_E | 3.847 | 1.00 |
| 23_K | 51_A | 2.556 | 1.00 |
| 9_K | 12_Q | 2.229 | 1.00 |
| 18_A | 28_Q | 2.187 | 1.00 |
| 9_K | 13_L | 1.860 | 1.00 |
| 33_Q | 38_K | 1.796 | 1.00 |
| 30_S | 34_L | 1.794 | 1.00 |
| 28_Q | 32_E | 1.768 | 1.00 |
| 34_L | 44_F | 1.746 | 1.00 |
| 19_E | 23_K | 1.658 | 1.00 |
| 17_Q | 32_E | 1.554 | 1.00 |
| 18_A | 22_Q | 1.538 | 1.00 |
| 32_E | 36_N | 1.485 | 1.00 |
| 8_S | 12_Q | 1.473 | 1.00 |
| 16_N | 19_E | 1.415 | 1.00 |
| 24_V | 51_A | 1.379 | 0.99 |
| 44_F | 47_E | 1.349 | 0.99 |
| 15_L | 19_E | 1.347 | 0.99 |
| 29_Q | 32_E | 1.338 | 0.99 |
| 15_L | 23_K | 1.319 | 0.99 |
| 5_R | 8_S | 1.289 | 0.99 |
| 26_T | 44_F | 1.252 | 0.99 |
| 15_L | 51_A | 1.252 | 0.99 |
| 7_K | 35_E | 1.233 | 0.98 |
| 20_L | 31_I | 1.174 | 0.98 |
| 33_Q | 39_T | 1.160 | 0.97 |
| 30_S | 33_Q | 1.093 | 0.96 |
| 5_R | 58_W | 1.087 | 0.96 |
| 55_S | 58_W | 1.078 | 0.95 |
| 41_R | 44_F | 1.062 | 0.95 |
| 9_K | 54_V | 1.058 | 0.95 |
| 5_R | 9_K | 1.034 | 0.94 |
| 7_K | 17_Q | 1.019 | 0.93 |
| 26_T | 30_S | 1.015 | 0.93 |
| 20_L | 52_L | 1.005 | 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 | |
| 1r69A | 1 | 0.913 | 98.3 | -0.045 | Contact Map |
| 4ndwA | 2 | 1 | 98.2 | 0.003 | Contact Map |
| 1y9qA | 1 | 1 | 98.2 | 0.003 | Contact Map |
| 3mlfA | 5 | 1 | 98.2 | 0.006 | Contact Map |
| 4pu7B | 2 | 0.8551 | 98.2 | 0.009 | Contact Map |
| 2o38A | 2 | 1 | 98.1 | 0.01 | Contact Map |
| 3qwgA | 2 | 1 | 98.1 | 0.017 | Contact Map |
| 3tysA | 1 | 0.942 | 98.1 | 0.019 | Contact Map |
| 2bnmA | 2 | 1 | 98.1 | 0.02 | Contact Map |
| 3r1fA | 18 | 1 | 98.1 | 0.02 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)