| 1156 |
| ID: | 1447261493 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 76 (73) | ||
| Sequences: | 12991 (8388.2) | ||
| Seq/Len: | 177.959 | ||
| Nf(neff/√len): | 981.8 |
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: 177.959).
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 |
| 25_D | 61_T | 4.482 | 1.00 |
| 12_K | 64_F | 3.373 | 1.00 |
| 28_T | 48_D | 2.660 | 1.00 |
| 8_I | 68_L | 2.198 | 1.00 |
| 32_G | 44_K | 1.865 | 1.00 |
| 16_D | 22_G | 1.815 | 1.00 |
| 23_G | 30_E | 1.789 | 1.00 |
| 32_G | 47_L | 1.697 | 1.00 |
| 55_D | 58_G | 1.639 | 1.00 |
| 18_F | 34_V | 1.596 | 1.00 |
| 12_K | 16_D | 1.575 | 1.00 |
| 20_A | 33_T | 1.555 | 1.00 |
| 16_D | 64_F | 1.545 | 1.00 |
| 54_V | 70_M | 1.502 | 1.00 |
| 59_S | 66_E | 1.459 | 1.00 |
| 4_S | 7_M | 1.446 | 1.00 |
| 42_P | 46_E | 1.400 | 0.99 |
| 19_D | 24_G | 1.393 | 0.99 |
| 63_D | 66_E | 1.358 | 0.99 |
| 25_D | 63_D | 1.338 | 0.99 |
| 54_V | 62_I | 1.318 | 0.99 |
| 21_D | 30_E | 1.311 | 0.99 |
| 59_S | 63_D | 1.277 | 0.99 |
| 28_T | 51_I | 1.265 | 0.99 |
| 55_D | 60_G | 1.247 | 0.99 |
| 8_I | 12_K | 1.243 | 0.98 |
| 64_F | 68_L | 1.238 | 0.98 |
| 43_T | 46_E | 1.231 | 0.98 |
| 17_M | 37_M | 1.205 | 0.98 |
| 55_D | 59_S | 1.165 | 0.97 |
| 23_G | 27_S | 1.150 | 0.97 |
| 19_D | 22_G | 1.139 | 0.97 |
| 32_G | 36_R | 1.105 | 0.96 |
| 3_L | 7_M | 1.097 | 0.96 |
| 56_E | 69_V | 1.074 | 0.95 |
| 33_T | 36_R | 1.055 | 0.95 |
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 | |
| 4d1eA | 1 | 1 | 98.8 | -0.014 | Contact Map |
| 1avsA | 2 | 1 | 98.7 | 0.023 | Contact Map |
| 4il1A | 4 | 0 | 98.6 | 0.03 | Contact Map |
| 3u0kA | 1 | 0.9737 | 98.6 | 0.031 | Contact Map |
| 2lc5A | 1 | 1 | 98.6 | 0.031 | Contact Map |
| 3mwuA | 1 | 0.7368 | 98.6 | 0.031 | Contact Map |
| 2jojA | 1 | 0.9737 | 98.6 | 0.034 | Contact Map |
| 4mvfA | 1 | 1 | 98.6 | 0.036 | Contact Map |
| 4oy4A | 1 | 0.9868 | 98.6 | 0.038 | Contact Map |
| 4gjfA | 1 | 0.9605 | 98.6 | 0.039 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)