| abeta |
| ID: | 1434110963 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 40 (40) | ||
| Sequences: | 34 (22.1) | ||
| Seq/Len: | 0.850 | ||
| Nf(neff/√len): | 3.5 |
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: 0.850).
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 |
| 28_A | 31_G | 2.218 | 0.97 |
| 29_I | 36_G | 1.896 | 0.91 |
| 37_V | 40_A | 1.813 | 0.89 |
| 14_K | 18_F | 1.632 | 0.81 |
| 1_D | 7_D | 1.518 | 0.73 |
| 30_I | 34_V | 1.499 | 0.72 |
| 29_I | 35_G | 1.342 | 0.60 |
| 33_M | 38_V | 1.291 | 0.55 |
| 34_V | 40_A | 1.273 | 0.54 |
| 3_E | 15_L | 1.254 | 0.52 |
| 34_V | 39_I | 1.246 | 0.51 |
| 27_G | 35_G | 1.240 | 0.51 |
| 28_A | 33_M | 1.156 | 0.43 |
| 16_V | 22_V | 1.131 | 0.41 |
| 2_A | 23_G | 1.131 | 0.41 |
| 20_E | 23_G | 1.117 | 0.40 |
| 15_L | 18_F | 1.104 | 0.39 |
| 7_D | 14_K | 1.063 | 0.35 |
| 30_I | 37_V | 1.046 | 0.34 |
| 7_D | 16_V | 1.027 | 0.33 |
| 1_D | 17_F | 1.015 | 0.32 |
| 12_H | 39_I | 1.001 | 0.31 |
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.
Sequence Conservation (Image Generated using WebLogo v3)