| 5elu |
| ID: | 1511348123 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 118 (94) | ||
| Sequences: | 538 (404.3) | ||
| Seq/Len: | 5.723 | ||
| Nf(neff/√len): | 41.7 |
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: 5.723).
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 | 2.704 | 1.00 |
| 19_E | 83_V | 2.369 | 1.00 |
| 30_E | 98_L | 2.197 | 1.00 |
| 31_H | 35_E | 2.188 | 1.00 |
| 6_T | 52_D | 2.146 | 1.00 |
| 43_R | 67_E | 2.121 | 1.00 |
| 30_E | 33_K | 2.007 | 1.00 |
| 61_M | 99_Q | 1.953 | 1.00 |
| 84_K | 95_F | 1.720 | 1.00 |
| 24_A | 66_L | 1.710 | 1.00 |
| 77_Y | 103_P | 1.690 | 1.00 |
| 47_A | 64_L | 1.652 | 1.00 |
| 52_D | 59_T | 1.559 | 0.99 |
| 61_M | 80_K | 1.538 | 0.99 |
| 20_I | 47_A | 1.530 | 0.99 |
| 84_K | 87_L | 1.523 | 0.99 |
| 41_F | 66_L | 1.520 | 0.99 |
| 61_M | 82_W | 1.505 | 0.99 |
| 42_V | 69_K | 1.455 | 0.99 |
| 45_V | 76_L | 1.455 | 0.99 |
| 87_L | 95_F | 1.390 | 0.98 |
| 48_K | 63_Y | 1.312 | 0.97 |
| 95_F | 99_Q | 1.262 | 0.96 |
| 11_V | 47_A | 1.211 | 0.94 |
| 82_W | 95_F | 1.206 | 0.94 |
| 69_K | 72_G | 1.203 | 0.94 |
| 68_A | 77_Y | 1.194 | 0.94 |
| 49_E | 60_T | 1.186 | 0.93 |
| 41_F | 68_A | 1.184 | 0.93 |
| 8_V | 61_M | 1.181 | 0.93 |
| 28_V | 101_F | 1.178 | 0.93 |
| 39_L | 68_A | 1.153 | 0.92 |
| 8_V | 63_Y | 1.142 | 0.92 |
| 10_A | 48_K | 1.138 | 0.91 |
| 9_R | 49_E | 1.117 | 0.90 |
| 12_P | 47_A | 1.115 | 0.90 |
| 7_G | 51_V | 1.113 | 0.90 |
| 21_E | 24_A | 1.110 | 0.90 |
| 50_Q | 81_V | 1.102 | 0.90 |
| 83_V | 96_K | 1.101 | 0.89 |
| 28_V | 32_N | 1.072 | 0.88 |
| 46_K | 65_T | 1.053 | 0.86 |
| 24_A | 44_V | 1.051 | 0.86 |
| 6_T | 59_T | 1.011 | 0.83 |
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 | 0.7203 | 99.9 | 0.274 | Contact Map |
| 2l4vA | 1 | 0.8136 | 99.9 | 0.277 | Contact Map |
| 3ul5A | 4 | 0.7034 | 99.9 | 0.286 | Contact Map |
| 1eqkA | 1 | 0.8305 | 99.9 | 0.29 | Contact Map |
| 4lziA | 1 | 0.8051 | 99.9 | 0.309 | Contact Map |
| 2kxgA | 1 | 0.7627 | 99.8 | 0.325 | Contact Map |
| 4it7A | 4 | 0.7458 | 99.8 | 0.374 | Contact Map |
| 5a0oB | 2 | 0 | 99.8 | 0.375 | Contact Map |
| 3gaxA | 2 | 0.7373 | 99.8 | 0.375 | Contact Map |
| 4n6tA | 1 | 0.6695 | 99.8 | 0.375 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)