| 2m2e |
| ID: | 1511790580 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 73 (64) | ||
| Sequences: | 923 (568.8) | ||
| Seq/Len: | 14.422 | ||
| Nf(neff/√len): | 71.1 |
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: 14.422).
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_E | 39_R | 2.978 | 1.00 |
| 10_E | 38_G | 2.038 | 1.00 |
| 41_K | 45_M | 1.889 | 1.00 |
| 20_T | 35_A | 1.767 | 1.00 |
| 48_Y | 52_V | 1.654 | 1.00 |
| 22_P | 28_R | 1.641 | 1.00 |
| 11_Q | 47_R | 1.605 | 1.00 |
| 45_M | 49_K | 1.547 | 1.00 |
| 25_T | 28_R | 1.445 | 1.00 |
| 4_T | 39_R | 1.441 | 1.00 |
| 53_E | 56_K | 1.435 | 1.00 |
| 12_K | 15_E | 1.405 | 0.99 |
| 13_L | 36_V | 1.367 | 0.99 |
| 43_D | 48_Y | 1.347 | 0.99 |
| 17_A | 33_A | 1.331 | 0.99 |
| 30_K | 34_E | 1.329 | 0.99 |
| 51_L | 55_V | 1.313 | 0.99 |
| 51_L | 54_M | 1.299 | 0.99 |
| 54_M | 58_K | 1.262 | 0.99 |
| 13_L | 57_A | 1.223 | 0.98 |
| 20_T | 65_V | 1.130 | 0.97 |
| 44_C | 47_R | 1.112 | 0.96 |
| 11_Q | 15_E | 1.097 | 0.96 |
| 39_R | 47_R | 1.096 | 0.96 |
| 31_K | 34_E | 1.094 | 0.96 |
| 11_Q | 54_M | 1.074 | 0.95 |
| 8_T | 23_V | 1.069 | 0.95 |
| 16_Q | 65_V | 1.067 | 0.95 |
| 5_P | 50_E | 1.063 | 0.95 |
| 42_K | 46_K | 1.061 | 0.95 |
| 44_C | 62_Q | 1.057 | 0.95 |
| 8_T | 11_Q | 1.056 | 0.95 |
| 43_D | 57_A | 1.054 | 0.95 |
| 23_V | 28_R | 1.032 | 0.94 |
| 7_T | 31_K | 1.026 | 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 | |
| 2cqqA | 1 | 0.9178 | 99.5 | 0.342 | Contact Map |
| 2cjjA | 1 | 0.863 | 99.5 | 0.35 | Contact Map |
| 4eefG | 3 | 0.6438 | 99.4 | 0.388 | Contact Map |
| 1ofcX | 1 | 0.9589 | 99.2 | 0.441 | Contact Map |
| 1wgxA | 1 | 0.9315 | 99.1 | 0.466 | Contact Map |
| 2m2eA | 1 | 0.9726 | 99 | 0.473 | Contact Map |
| 2cqrA | 1 | 0.7945 | 98.9 | 0.509 | Contact Map |
| 3zn0B | 1 | 0.863 | 98.5 | 0.56 | Contact Map |
| 2yumA | 1 | 0.9315 | 98.4 | 0.573 | Contact Map |
| 4czzB | 1 | 0.863 | 98.3 | 0.585 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)