| 5elj |
| ID: | 1511348090 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 116 (94) | ||
| Sequences: | 691 (520.5) | ||
| Seq/Len: | 7.351 | ||
| Nf(neff/√len): | 53.7 |
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: 7.351).
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_A | 41_F | 2.970 | 1.00 |
| 30_E | 98_L | 2.624 | 1.00 |
| 30_E | 33_K | 2.533 | 1.00 |
| 31_H | 35_E | 2.502 | 1.00 |
| 19_E | 83_V | 2.300 | 1.00 |
| 47_A | 64_L | 2.064 | 1.00 |
| 43_R | 67_E | 2.034 | 1.00 |
| 84_K | 95_F | 2.017 | 1.00 |
| 61_M | 99_Q | 1.903 | 1.00 |
| 41_F | 66_L | 1.886 | 1.00 |
| 6_T | 52_D | 1.840 | 1.00 |
| 48_K | 63_Y | 1.772 | 1.00 |
| 77_Y | 103_P | 1.730 | 1.00 |
| 8_V | 63_Y | 1.607 | 1.00 |
| 82_W | 95_F | 1.600 | 1.00 |
| 84_K | 93_M | 1.570 | 1.00 |
| 52_D | 59_F | 1.557 | 1.00 |
| 89_W | 93_M | 1.524 | 0.99 |
| 23_L | 83_V | 1.458 | 0.99 |
| 83_V | 96_K | 1.435 | 0.99 |
| 9_R | 49_E | 1.425 | 0.99 |
| 10_A | 48_K | 1.417 | 0.99 |
| 84_K | 89_W | 1.411 | 0.99 |
| 45_V | 76_L | 1.401 | 0.99 |
| 61_M | 80_K | 1.392 | 0.99 |
| 52_D | 58_V | 1.389 | 0.99 |
| 24_A | 66_L | 1.378 | 0.99 |
| 41_F | 68_A | 1.257 | 0.97 |
| 50_Q | 61_M | 1.244 | 0.97 |
| 20_I | 44_V | 1.213 | 0.96 |
| 58_V | 89_W | 1.200 | 0.96 |
| 46_K | 65_T | 1.192 | 0.96 |
| 73_K | 106_D | 1.164 | 0.95 |
| 68_A | 77_Y | 1.151 | 0.95 |
| 20_I | 47_A | 1.138 | 0.94 |
| 7_G | 52_D | 1.128 | 0.94 |
| 51_I | 60_T | 1.122 | 0.94 |
| 42_V | 69_K | 1.119 | 0.94 |
| 85_G | 89_W | 1.109 | 0.93 |
| 6_T | 59_F | 1.106 | 0.93 |
| 98_L | 101_F | 1.104 | 0.93 |
| 39_L | 68_A | 1.095 | 0.93 |
| 12_P | 47_A | 1.057 | 0.91 |
| 8_V | 61_M | 1.045 | 0.90 |
| 41_F | 77_Y | 1.040 | 0.90 |
| 80_K | 100_E | 1.028 | 0.89 |
| 61_M | 82_W | 1.027 | 0.89 |
| 28_V | 32_N | 1.018 | 0.89 |
| 39_L | 101_F | 1.009 | 0.88 |
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 | |
| 3imaB | 2 | 0.7328 | 99.9 | 0.271 | Contact Map |
| 2l4vA | 1 | 0.8276 | 99.9 | 0.274 | Contact Map |
| 3ul5A | 4 | 0.7155 | 99.9 | 0.275 | Contact Map |
| 1eqkA | 1 | 0.8448 | 99.9 | 0.283 | Contact Map |
| 4lziA | 1 | 0.819 | 99.8 | 0.299 | Contact Map |
| 2kxgA | 1 | 0.7759 | 99.8 | 0.315 | Contact Map |
| 4n6tA | 1 | 0.681 | 99.8 | 0.362 | Contact Map |
| 1yvbI | 1 | 0.7672 | 99.8 | 0.367 | Contact Map |
| 3gaxA | 2 | 0.75 | 99.8 | 0.368 | Contact Map |
| 4it7A | 4 | 0.7586 | 99.8 | 0.369 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)