| Sac10a2 |
| ID: | 1490334222 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 89 (83) | ||
| Sequences: | 330 (287.2) | ||
| Seq/Len: | 3.976 | ||
| Nf(neff/√len): | 31.5 |
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: 3.976).
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 |
| 21_L | 66_L | 2.781 | 1.00 |
| 34_M | 40_N | 2.518 | 1.00 |
| 73_E | 77_I | 2.381 | 1.00 |
| 31_T | 35_Y | 2.154 | 1.00 |
| 21_L | 27_E | 1.992 | 1.00 |
| 19_K | 78_E | 1.948 | 1.00 |
| 40_N | 43_V | 1.903 | 1.00 |
| 30_K | 47_Y | 1.732 | 0.99 |
| 8_R | 13_I | 1.696 | 0.99 |
| 34_M | 43_V | 1.664 | 0.99 |
| 16_T | 38_G | 1.652 | 0.99 |
| 18_L | 51_I | 1.634 | 0.99 |
| 34_M | 44_F | 1.632 | 0.99 |
| 7_H | 11_I | 1.580 | 0.98 |
| 21_L | 57_V | 1.526 | 0.98 |
| 16_T | 20_V | 1.484 | 0.97 |
| 34_M | 41_Y | 1.425 | 0.96 |
| 52_E | 57_V | 1.419 | 0.96 |
| 21_L | 77_I | 1.393 | 0.96 |
| 28_V | 33_L | 1.380 | 0.95 |
| 33_L | 64_Y | 1.345 | 0.95 |
| 21_L | 73_E | 1.315 | 0.94 |
| 34_M | 38_G | 1.294 | 0.93 |
| 7_H | 32_H | 1.278 | 0.92 |
| 9_S | 12_E | 1.264 | 0.92 |
| 28_V | 36_L | 1.211 | 0.89 |
| 66_L | 77_I | 1.206 | 0.89 |
| 47_Y | 66_L | 1.134 | 0.85 |
| 16_T | 37_V | 1.128 | 0.84 |
| 76_M | 79_N | 1.124 | 0.84 |
| 30_K | 37_V | 1.111 | 0.83 |
| 29_K | 32_H | 1.107 | 0.83 |
| 44_F | 66_L | 1.103 | 0.82 |
| 8_R | 12_E | 1.100 | 0.82 |
| 37_V | 75_E | 1.094 | 0.82 |
| 19_K | 59_V | 1.088 | 0.81 |
| 29_K | 56_L | 1.044 | 0.77 |
| 40_N | 44_F | 1.041 | 0.77 |
| 6_K | 68_D | 1.023 | 0.75 |
| 33_L | 44_F | 1.007 | 0.74 |
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 | |
| 4hw0A | 3 | 0.8989 | 99.4 | 0.416 | Contact Map |
| 1r7jA | 1 | 0.8989 | 99.2 | 0.468 | Contact Map |
| 3df8A | 1 | 0.9775 | 96.8 | 0.714 | Contact Map |
| 3f8bA | 2 | 0.9326 | 96.6 | 0.722 | Contact Map |
| 2hztA | 4 | 0.8989 | 96.6 | 0.722 | Contact Map |
| 4hqeA | 2 | 0.9888 | 96.4 | 0.728 | Contact Map |
| 4esfA | 1 | 0.9438 | 96.3 | 0.73 | Contact Map |
| 1z7uA | 2 | 0.9775 | 96.3 | 0.73 | Contact Map |
| 4a5nA | 4 | 0.8876 | 96.3 | 0.731 | Contact Map |
| 2fswA | 2 | 0.9213 | 96.2 | 0.732 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)