| 3ossC |
| ID: | 1487844422 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 65 (65) | ||
| Sequences: | 525 (370.6) | ||
| Seq/Len: | 8.077 | ||
| Nf(neff/√len): | 46.0 |
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: 8.077).
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 |
| 43_I | 46_I | 4.604 | 1.00 |
| 44_E | 59_I | 2.048 | 1.00 |
| 4_L | 60_E | 1.900 | 1.00 |
| 42_V | 54_R | 1.789 | 1.00 |
| 6_V | 21_I | 1.718 | 1.00 |
| 21_I | 51_V | 1.716 | 1.00 |
| 2_T | 60_E | 1.700 | 1.00 |
| 55_Y | 60_E | 1.615 | 1.00 |
| 8_L | 21_I | 1.502 | 1.00 |
| 53_L | 62_L | 1.438 | 0.99 |
| 8_L | 53_L | 1.429 | 0.99 |
| 4_L | 41_A | 1.398 | 0.99 |
| 44_E | 54_R | 1.393 | 0.99 |
| 50_H | 61_R | 1.377 | 0.99 |
| 21_I | 62_L | 1.349 | 0.99 |
| 52_M | 59_I | 1.293 | 0.98 |
| 6_V | 62_L | 1.276 | 0.98 |
| 19_A | 46_I | 1.273 | 0.98 |
| 20_V | 49_D | 1.265 | 0.98 |
| 7_V | 22_E | 1.243 | 0.98 |
| 42_V | 53_L | 1.219 | 0.97 |
| 18_G | 29_V | 1.158 | 0.96 |
| 54_R | 57_G | 1.152 | 0.96 |
| 47_N | 50_H | 1.129 | 0.95 |
| 2_T | 62_L | 1.110 | 0.94 |
| 32_Q | 42_V | 1.107 | 0.94 |
| 20_V | 27_Q | 1.076 | 0.93 |
| 9_R | 12_A | 1.075 | 0.93 |
| 2_T | 8_L | 1.070 | 0.93 |
| 12_A | 29_V | 1.065 | 0.93 |
| 12_A | 47_N | 1.052 | 0.92 |
| 18_G | 31_L | 1.045 | 0.92 |
| 9_R | 27_Q | 1.040 | 0.91 |
| 27_Q | 64_L | 1.028 | 0.91 |
| 10_G | 20_V | 1.028 | 0.91 |
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 | |
| 3ossC | 1 | 1 | 99.5 | 0.064 | Contact Map |
| 2lnvA | 1 | 1 | 99.4 | 0.091 | Contact Map |
| 4av2M | 12 | 1 | 88.4 | 0.688 | Contact Map |
| 2ivwA | 1 | 1 | 74.6 | 0.733 | Contact Map |
| 2lc4A | 1 | 1 | 70.6 | 0.741 | Contact Map |
| 2y4xA | 2 | 0.9846 | 67.1 | 0.746 | Contact Map |
| 2fauA | 1 | 0.8154 | 22.8 | 0.81 | Contact Map |
| 2f5tX | 1 | 0.8615 | 20.5 | 0.814 | Contact Map |
| 3qphA | 1 | 0.8615 | 15.8 | 0.823 | Contact Map |
| 2ztdA | 2 | 0.5846 | 9.1 | 0.842 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)