| T0803 1-90 |
| ID: | 1401826419 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 90 (78) | ||
| Sequences: | 796 (618.2) | ||
| Seq/Len: | 10.205 | ||
| Nf(neff/√len): | 70.0 |
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: 10.205).
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 |
| 11_V | 57_D | 3.481 | 1.00 |
| 23_L | 50_E | 3.430 | 1.00 |
| 28_D | 48_Y | 3.181 | 1.00 |
| 55_K | 61_E | 2.295 | 1.00 |
| 63_K | 73_L | 2.270 | 1.00 |
| 57_D | 62_Y | 2.119 | 1.00 |
| 25_Y | 37_D | 2.015 | 1.00 |
| 44_V | 47_T | 1.831 | 1.00 |
| 60_G | 79_G | 1.646 | 1.00 |
| 2_N | 5_K | 1.618 | 1.00 |
| 10_S | 14_D | 1.614 | 1.00 |
| 25_Y | 41_G | 1.605 | 1.00 |
| 25_Y | 31_K | 1.601 | 1.00 |
| 3_I | 7_K | 1.594 | 1.00 |
| 14_D | 62_Y | 1.411 | 1.00 |
| 49_M | 53_P | 1.403 | 0.99 |
| 63_K | 75_I | 1.366 | 0.99 |
| 31_K | 37_D | 1.330 | 0.99 |
| 4_N | 7_K | 1.322 | 0.99 |
| 8_V | 11_V | 1.321 | 0.99 |
| 11_V | 58_I | 1.307 | 0.99 |
| 18_I | 49_M | 1.276 | 0.99 |
| 35_T | 66_K | 1.254 | 0.99 |
| 23_L | 32_I | 1.181 | 0.98 |
| 2_N | 24_S | 1.180 | 0.98 |
| 65_I | 69_N | 1.152 | 0.97 |
| 67_V | 71_L | 1.145 | 0.97 |
| 19_K | 72_V | 1.095 | 0.96 |
| 14_D | 18_I | 1.089 | 0.96 |
| 9_A | 13_S | 1.075 | 0.95 |
| 29_T | 47_T | 1.051 | 0.94 |
| 17_S | 24_S | 1.039 | 0.94 |
| 11_V | 62_Y | 1.018 | 0.93 |
| 22_A | 72_V | 1.009 | 0.93 |
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 | |
| 1t92A | 2 | 0.9889 | 99.9 | 0.178 | Contact Map |
| 3gn9A | 3 | 0.9889 | 99.9 | 0.202 | Contact Map |
| 2kepA | 1 | 0.9889 | 99.8 | 0.205 | Contact Map |
| 3g20A | 2 | 0.9889 | 99.7 | 0.336 | Contact Map |
| 2m7gA | 1 | 0.4 | 93.9 | 0.781 | Contact Map |
| 4ixjA | 2 | 0.9444 | 92.6 | 0.792 | Contact Map |
| 2hi2A | 1 | 0.9667 | 75.2 | 0.837 | Contact Map |
| 2m3kA | 1 | 0.8667 | 63.5 | 0.85 | Contact Map |
| 1x6zA | 1 | 0.9444 | 56.3 | 0.856 | Contact Map |
| 1qveA | 2 | 0.9667 | 46.1 | 0.865 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)