| tail |
| ID: | 1487188682 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 78 (78) | ||
| Sequences: | 200 (119.9) | ||
| Seq/Len: | 2.564 | ||
| Nf(neff/√len): | 13.6 |
Jackhmmer Results: (2016_04)
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: 2.564).
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 |
| 24_N | 35_A | 1.900 | 0.99 |
| 54_W | 57_R | 1.849 | 0.99 |
| 9_D | 25_D | 1.735 | 0.98 |
| 68_E | 75_E | 1.733 | 0.98 |
| 14_K | 28_Q | 1.554 | 0.95 |
| 63_Q | 66_I | 1.520 | 0.95 |
| 7_A | 14_K | 1.428 | 0.92 |
| 57_R | 65_V | 1.428 | 0.92 |
| 13_S | 19_A | 1.408 | 0.91 |
| 54_W | 75_E | 1.386 | 0.90 |
| 47_P | 68_E | 1.361 | 0.89 |
| 48_K | 52_H | 1.353 | 0.89 |
| 64_L | 77_D | 1.339 | 0.88 |
| 57_R | 74_E | 1.331 | 0.88 |
| 34_K | 72_D | 1.316 | 0.87 |
| 7_A | 10_E | 1.304 | 0.86 |
| 55_T | 63_Q | 1.271 | 0.84 |
| 1_I | 8_E | 1.266 | 0.84 |
| 19_A | 40_K | 1.224 | 0.81 |
| 67_Y | 73_P | 1.214 | 0.81 |
| 55_T | 75_E | 1.192 | 0.79 |
| 54_W | 74_E | 1.190 | 0.79 |
| 17_S | 29_L | 1.180 | 0.78 |
| 52_H | 63_Q | 1.172 | 0.77 |
| 4_K | 9_D | 1.137 | 0.74 |
| 63_Q | 75_E | 1.104 | 0.71 |
| 50_G | 77_D | 1.100 | 0.71 |
| 17_S | 54_W | 1.092 | 0.70 |
| 57_R | 61_R | 1.077 | 0.68 |
| 18_E | 27_K | 1.076 | 0.68 |
| 52_H | 56_H | 1.074 | 0.68 |
| 22_P | 32_P | 1.068 | 0.67 |
| 43_K | 51_K | 1.067 | 0.67 |
| 60_E | 73_P | 1.065 | 0.67 |
| 34_K | 39_E | 1.058 | 0.66 |
| 17_S | 27_K | 1.047 | 0.65 |
| 28_Q | 34_K | 1.038 | 0.64 |
| 53_A | 68_E | 1.038 | 0.64 |
| 32_P | 66_I | 1.015 | 0.62 |
| 41_I | 45_S | 1.009 | 0.61 |
| 63_Q | 70_I | 1.005 | 0.60 |
| 35_A | 38_S | 1.001 | 0.60 |
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 | |
| 4ye0A | 2 | 0 | 3.8 | 0.93 | Contact Map |
| 4a8jA | 2 | 0.9103 | 3.5 | 0.931 | Contact Map |
| 1vk1A | 1 | 0.3205 | 2.4 | 0.937 | Contact Map |
| 2trcP | 1 | 0.5128 | 2.1 | 0.939 | Contact Map |
| 2pigA | 2 | 0.3077 | 2.1 | 0.939 | Contact Map |
| 2klrA | 2 | 0.0641 | 1.4 | 0.945 | Contact Map |
| 4ydzA | 4 | 0 | 1.4 | 0.945 | Contact Map |
| 1vi7A | 1 | 0.9487 | 1.3 | 0.945 | Contact Map |
| 1darA | 1 | 0.5128 | 1.1 | 0.948 | Contact Map |
| 2xexA | 2 | 0.9103 | 1.1 | 0.948 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)