| ES |
| ID: | 1402261544 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 97 (95) | ||
| Sequences: | 2598 (1319) | ||
| Seq/Len: | 27.347 | ||
| Nf(neff/√len): | 135.3 |
Jackhmmer Results: (2014_04_16)
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: 27.347).
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 |
| 13_K | 81_E | 4.467 | 1.00 |
| 13_K | 39_E | 4.239 | 1.00 |
| 10_V | 91_I | 3.205 | 1.00 |
| 77_K | 82_E | 2.530 | 1.00 |
| 49_L | 53_E | 2.449 | 1.00 |
| 48_I | 54_V | 2.440 | 1.00 |
| 37_R | 64_I | 2.275 | 1.00 |
| 14_R | 67_F | 2.141 | 1.00 |
| 38_G | 67_F | 2.031 | 1.00 |
| 59_V | 91_I | 2.018 | 1.00 |
| 4_R | 96_E | 1.990 | 1.00 |
| 42_A | 61_V | 1.879 | 1.00 |
| 41_L | 83_V | 1.874 | 1.00 |
| 3_I | 93_A | 1.797 | 1.00 |
| 39_E | 64_I | 1.783 | 1.00 |
| 75_S | 82_E | 1.758 | 1.00 |
| 49_L | 55_K | 1.719 | 1.00 |
| 58_D | 88_E | 1.716 | 1.00 |
| 11_I | 85_I | 1.690 | 1.00 |
| 60_K | 63_D | 1.636 | 1.00 |
| 68_N | 71_Y | 1.576 | 1.00 |
| 3_I | 11_I | 1.490 | 1.00 |
| 12_V | 86_M | 1.441 | 1.00 |
| 67_F | 84_L | 1.392 | 0.99 |
| 13_K | 83_V | 1.386 | 0.99 |
| 43_V | 57_L | 1.355 | 0.99 |
| 45_N | 58_D | 1.325 | 0.99 |
| 57_L | 88_E | 1.314 | 0.99 |
| 21_S | 24_G | 1.307 | 0.99 |
| 8_D | 87_S | 1.289 | 0.99 |
| 70_G | 87_S | 1.271 | 0.99 |
| 19_T | 32_A | 1.268 | 0.99 |
| 39_E | 61_V | 1.261 | 0.99 |
| 15_K | 39_E | 1.251 | 0.99 |
| 4_R | 94_I | 1.244 | 0.98 |
| 47_R | 89_S | 1.238 | 0.98 |
| 35_S | 69_D | 1.224 | 0.98 |
| 36_T | 69_D | 1.218 | 0.98 |
| 15_K | 64_I | 1.213 | 0.98 |
| 20_K | 26_V | 1.203 | 0.98 |
| 12_V | 38_G | 1.184 | 0.98 |
| 9_R | 87_S | 1.121 | 0.97 |
| 36_T | 73_V | 1.111 | 0.96 |
| 15_K | 38_G | 1.054 | 0.95 |
| 39_E | 62_G | 1.041 | 0.94 |
| 54_V | 58_D | 1.008 | 0.93 |
| 29_G | 32_A | 1.006 | 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 | |
| 3nx6A | 1 | 0.7732 | 100 | -0.003 | Contact Map |
| 1we3O | 7 | 0.9794 | 100 | 0 | Contact Map |
| 1p3hA | 14 | 0.9897 | 100 | 0.009 | Contact Map |
| 1pcqO | 7 | 1 | 100 | 0.01 | Contact Map |
| 1g31A | 7 | 0.9072 | 99.9 | 0.212 | Contact Map |
| 4j6fA | 2 | 0.8866 | 44.5 | 0.885 | Contact Map |
| 3gqvA | 1 | 0.8557 | 40.1 | 0.888 | Contact Map |
| 4gi2A | 2 | 0.9072 | 39.7 | 0.888 | Contact Map |
| 2c0cA | 2 | 0.8454 | 39.6 | 0.889 | Contact Map |
| 3krtA | 4 | 0.8969 | 38.4 | 0.889 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)