| 1EJBA |
| ID: | 1411762813 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 168 (150) | ||
| Sequences: | 1532 (895.9) | ||
| Seq/Len: | 10.213 | ||
| Nf(neff/√len): | 73.1 |
HHblits Results: (2013_03)
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: 10.213).
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 |
| 83_V | 156_A | 3.455 | 1.00 |
| 20_G | 70_F | 3.364 | 1.00 |
| 35_V | 54_I | 3.076 | 1.00 |
| 111_N | 115_K | 2.684 | 1.00 |
| 53_I | 81_L | 2.661 | 1.00 |
| 41_R | 150_E | 2.320 | 1.00 |
| 55_E | 70_F | 2.305 | 1.00 |
| 67_T | 86_P | 2.265 | 1.00 |
| 17_I | 160_A | 2.175 | 1.00 |
| 94_S | 135_A | 2.129 | 1.00 |
| 86_P | 109_L | 2.062 | 1.00 |
| 14_G | 47_V | 2.057 | 1.00 |
| 92_K | 128_M | 2.028 | 1.00 |
| 23_H | 35_V | 2.023 | 1.00 |
| 29_V | 134_L | 2.015 | 1.00 |
| 68_K | 115_K | 1.951 | 1.00 |
| 28_R | 32_D | 1.946 | 1.00 |
| 90_L | 101_I | 1.890 | 1.00 |
| 39_I | 43_A | 1.882 | 1.00 |
| 16_K | 51_N | 1.854 | 1.00 |
| 104_S | 107_H | 1.827 | 1.00 |
| 42_M | 47_V | 1.756 | 1.00 |
| 99_E | 102_S | 1.694 | 1.00 |
| 96_M | 99_E | 1.625 | 1.00 |
| 19_V | 160_A | 1.573 | 1.00 |
| 105_T | 124_L | 1.567 | 1.00 |
| 63_L | 124_L | 1.558 | 1.00 |
| 42_M | 85_I | 1.558 | 1.00 |
| 61_Y | 122_F | 1.553 | 1.00 |
| 131_E | 135_A | 1.533 | 1.00 |
| 32_D | 56_T | 1.532 | 1.00 |
| 42_M | 153_G | 1.526 | 1.00 |
| 43_A | 49_E | 1.515 | 1.00 |
| 25_R | 158_E | 1.513 | 1.00 |
| 148_H | 151_D | 1.489 | 1.00 |
| 68_K | 114_E | 1.439 | 1.00 |
| 72_D | 117_D | 1.427 | 1.00 |
| 30_I | 89_V | 1.405 | 0.99 |
| 23_H | 31_I | 1.396 | 0.99 |
| 65_W | 113_Q | 1.391 | 0.99 |
| 29_V | 130_E | 1.357 | 0.99 |
| 57_V | 66_G | 1.351 | 0.99 |
| 107_H | 111_N | 1.342 | 0.99 |
| 98_F | 102_S | 1.327 | 0.99 |
| 40_E | 44_S | 1.316 | 0.99 |
| 69_R | 117_D | 1.310 | 0.99 |
| 64_P | 108_A | 1.305 | 0.99 |
| 23_H | 54_I | 1.280 | 0.99 |
| 28_R | 56_T | 1.273 | 0.99 |
| 41_R | 154_A | 1.270 | 0.99 |
| 67_T | 84_V | 1.256 | 0.99 |
| 66_G | 163_F | 1.233 | 0.98 |
| 121_I | 155_A | 1.221 | 0.98 |
| 30_I | 134_L | 1.217 | 0.98 |
| 96_M | 100_Y | 1.214 | 0.98 |
| 45_L | 157_V | 1.201 | 0.98 |
| 137_A | 147_N | 1.147 | 0.97 |
| 65_W | 163_F | 1.137 | 0.97 |
| 96_M | 128_M | 1.128 | 0.97 |
| 24_A | 31_I | 1.126 | 0.97 |
| 128_M | 132_Q | 1.126 | 0.97 |
| 68_K | 72_D | 1.115 | 0.96 |
| 22_I | 63_L | 1.103 | 0.96 |
| 92_K | 96_M | 1.092 | 0.96 |
| 87_I | 123_G | 1.078 | 0.95 |
| 17_I | 164_G | 1.071 | 0.95 |
| 22_I | 67_T | 1.070 | 0.95 |
| 156_A | 160_A | 1.062 | 0.95 |
| 90_L | 102_S | 1.060 | 0.95 |
| 68_K | 117_D | 1.044 | 0.94 |
| 71_V | 84_V | 1.042 | 0.94 |
| 48_E | 51_N | 1.022 | 0.93 |
| 20_G | 81_L | 1.003 | 0.93 |
| 100_Y | 103_D | 1.001 | 0.92 |
| 33_A | 36_K | 1.000 | 0.92 |
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 | |
| 1ejbA | 5 | 1 | 100 | 0.022 | Contact Map |
| 1c41A | 10 | 0.9524 | 100 | 0.086 | Contact Map |
| 1kz1A | 5 | 0.8929 | 100 | 0.104 | Contact Map |
| 1hqkA | 5 | 0.9167 | 100 | 0.108 | Contact Map |
| 1rvvA | 30 | 0.9167 | 100 | 0.108 | Contact Map |
| 3nq4A | 30 | 0.9107 | 100 | 0.115 | Contact Map |
| 2obxA | 10 | 0.9048 | 100 | 0.126 | Contact Map |
| 1c2yA | 20 | 0.9167 | 100 | 0.127 | Contact Map |
| 2i0fA | 5 | 0.875 | 100 | 0.135 | Contact Map |
| 4j07A | 5 | 0.8929 | 100 | 0.14 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)