| selpar1 |
| ID: | 1431616515 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 68 (68) | ||
| Sequences: | 15795 (13352.5) | ||
| Seq/Len: | 232.279 | ||
| Nf(neff/√len): | 1619.2 |
HHblits Results: (2013_03)
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: 232.279).
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 |
| 37_Q | 60_L | 2.329 | 1.00 |
| 41_A | 61_Y | 2.265 | 1.00 |
| 4_Q | 27_Y | 2.260 | 1.00 |
| 8_G | 28_L | 2.088 | 1.00 |
| 37_Q | 67_A | 2.025 | 1.00 |
| 4_Q | 34_Q | 2.010 | 1.00 |
| 32_A | 37_Q | 1.788 | 1.00 |
| 4_Q | 30_Q | 1.709 | 1.00 |
| 23_R | 26_I | 1.675 | 1.00 |
| 58_Y | 62_V | 1.665 | 1.00 |
| 25_R | 29_E | 1.664 | 1.00 |
| 25_R | 40_L | 1.587 | 1.00 |
| 25_R | 50_S | 1.582 | 1.00 |
| 37_Q | 63_A | 1.533 | 1.00 |
| 5_Q | 36_G | 1.494 | 1.00 |
| 45_L | 61_Y | 1.478 | 1.00 |
| 56_R | 59_E | 1.466 | 1.00 |
| 31_S | 36_G | 1.466 | 1.00 |
| 62_V | 66_N | 1.416 | 1.00 |
| 45_L | 57_A | 1.392 | 0.99 |
| 5_Q | 39_E | 1.354 | 0.99 |
| 7_V | 11_F | 1.339 | 0.99 |
| 29_E | 33_A | 1.327 | 0.99 |
| 12_S | 28_L | 1.275 | 0.99 |
| 40_L | 44_L | 1.271 | 0.99 |
| 21_V | 48_D | 1.231 | 0.98 |
| 20_D | 23_R | 1.222 | 0.98 |
| 26_I | 30_Q | 1.184 | 0.98 |
| 12_S | 24_A | 1.174 | 0.98 |
| 57_A | 61_Y | 1.142 | 0.97 |
| 24_A | 28_L | 1.122 | 0.97 |
| 53_D | 56_R | 1.113 | 0.96 |
| 39_E | 42_Y | 1.051 | 0.94 |
| 63_A | 67_A | 1.041 | 0.94 |
| 60_L | 63_A | 1.041 | 0.94 |
| 32_A | 65_S | 1.028 | 0.94 |
| 27_Y | 30_Q | 1.016 | 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 | |
| 4bwrA | 1 | 1 | 99 | 0.217 | Contact Map |
| 1ouvA | 1 | 1 | 98.7 | 0.28 | Contact Map |
| 1klxA | 1 | 1 | 98.7 | 0.288 | Contact Map |
| 3e4bA | 4 | 1 | 98 | 0.422 | Contact Map |
| 3rjvA | 1 | 1 | 96.6 | 0.542 | Contact Map |
| 1pc2A | 1 | 0.9265 | 90.8 | 0.654 | Contact Map |
| 1tjcA | 2 | 0.8824 | 89.5 | 0.663 | Contact Map |
| 1hh8A | 1 | 0.8824 | 86.9 | 0.678 | Contact Map |
| 4u04A | 2 | 0.8824 | 86.6 | 0.68 | Contact Map |
| 2xpiA | 2 | 0.8824 | 84.9 | 0.686 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)