| ATE N-term |
| ID: | 1512844725 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 128 (107) | ||
| Sequences: | 160 (119.6) | ||
| Seq/Len: | 1.495 | ||
| Nf(neff/√len): | 11.6 |
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: 1.495).
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 |
| 31_C | 34_C | 2.582 | 1.00 |
| 56_Q | 60_D | 2.376 | 1.00 |
| 44_G | 69_Y | 2.017 | 0.98 |
| 62_G | 72_K | 1.971 | 0.98 |
| 96_K | 101_V | 1.877 | 0.97 |
| 24_E | 31_C | 1.834 | 0.96 |
| 75_M | 78_T | 1.757 | 0.95 |
| 99_K | 103_K | 1.713 | 0.94 |
| 66_S | 73_P | 1.692 | 0.93 |
| 51_T | 96_K | 1.602 | 0.90 |
| 105_M | 109_L | 1.600 | 0.90 |
| 24_E | 32_G | 1.571 | 0.89 |
| 77_Q | 93_Q | 1.547 | 0.88 |
| 72_K | 75_M | 1.537 | 0.88 |
| 18_S | 50_M | 1.502 | 0.86 |
| 18_S | 24_E | 1.500 | 0.86 |
| 98_H | 106_L | 1.472 | 0.85 |
| 54_D | 75_M | 1.466 | 0.84 |
| 24_E | 34_C | 1.402 | 0.81 |
| 38_L | 96_K | 1.386 | 0.79 |
| 83_Y | 108_F | 1.207 | 0.65 |
| 32_G | 44_G | 1.191 | 0.63 |
| 95_S | 108_F | 1.175 | 0.62 |
| 55_Y | 65_R | 1.162 | 0.61 |
| 68_K | 85_I | 1.143 | 0.59 |
| 32_G | 64_R | 1.138 | 0.58 |
| 46_W | 102_L | 1.104 | 0.55 |
| 24_E | 33_Y | 1.080 | 0.52 |
| 20_V | 95_S | 1.062 | 0.50 |
| 104_K | 107_K | 1.061 | 0.50 |
| 111_K | 119_C | 1.060 | 0.50 |
| 60_D | 65_R | 1.057 | 0.50 |
| 90_L | 93_Q | 1.046 | 0.49 |
| 69_Y | 97_S | 1.044 | 0.48 |
| 71_Y | 86_R | 1.038 | 0.48 |
| 68_K | 100_K | 1.037 | 0.48 |
| 61_R | 83_Y | 1.033 | 0.47 |
| 27_T | 74_V | 1.021 | 0.46 |
| 22_Y | 34_C | 1.019 | 0.46 |
| 98_H | 103_K | 1.012 | 0.45 |
| 15_P | 50_M | 1.007 | 0.45 |
| 43_Y | 56_Q | 1.005 | 0.44 |
| 91_Q | 104_K | 1.002 | 0.44 |
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 | |
| 3s5tA | 1 | 0.5547 | 6.7 | 0.957 | Contact Map |
| 1ivhA | 4 | 0.3203 | 6.7 | 0.957 | Contact Map |
| 1j7nA | 2 | 0.6797 | 5.6 | 0.959 | Contact Map |
| 2pg0A | 2 | 0.2969 | 3.8 | 0.962 | Contact Map |
| 3nf4A | 2 | 0.3203 | 3.8 | 0.962 | Contact Map |
| 3swoA | 4 | 0.375 | 3.6 | 0.962 | Contact Map |
| 2m4gA | 1 | 0.4688 | 3.1 | 0.963 | Contact Map |
| 3ii9A | 4 | 0.3828 | 3.1 | 0.963 | Contact Map |
| 1zrxA | 1 | 0.2344 | 3 | 0.963 | Contact Map |
| 1s58A | 1 | 0.6562 | 3 | 0.964 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)