| 2eum |
| ID: | 1492603568 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 209 (195) | ||
| Sequences: | 904 (535) | ||
| Seq/Len: | 4.636 | ||
| Nf(neff/√len): | 38.3 |
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: 4.636).
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 |
| 19_E | 22_P | 2.748 | 1.00 |
| 28_S | 57_K | 2.584 | 1.00 |
| 93_A | 96_W | 2.410 | 1.00 |
| 21_G | 60_Y | 2.305 | 1.00 |
| 71_Q | 193_V | 2.098 | 1.00 |
| 130_K | 133_E | 2.096 | 1.00 |
| 54_T | 58_A | 2.075 | 1.00 |
| 63_N | 67_F | 2.042 | 1.00 |
| 55_K | 96_W | 2.031 | 1.00 |
| 55_K | 93_A | 1.975 | 1.00 |
| 192_D | 196_E | 1.919 | 1.00 |
| 17_Q | 72_N | 1.783 | 1.00 |
| 141_G | 146_K | 1.735 | 1.00 |
| 96_W | 148_F | 1.711 | 0.99 |
| 74_L | 197_M | 1.705 | 0.99 |
| 89_G | 92_L | 1.684 | 0.99 |
| 105_Q | 109_Q | 1.676 | 0.99 |
| 196_E | 200_Q | 1.646 | 0.99 |
| 17_Q | 71_Q | 1.606 | 0.99 |
| 59_V | 67_F | 1.605 | 0.99 |
| 95_M | 99_R | 1.603 | 0.99 |
| 157_Y | 160_D | 1.568 | 0.99 |
| 67_F | 73_I | 1.567 | 0.99 |
| 31_P | 53_I | 1.549 | 0.99 |
| 92_L | 96_W | 1.546 | 0.99 |
| 73_I | 99_R | 1.527 | 0.98 |
| 52_N | 96_W | 1.519 | 0.98 |
| 146_K | 149_Q | 1.507 | 0.98 |
| 44_P | 96_W | 1.481 | 0.98 |
| 96_W | 99_R | 1.468 | 0.98 |
| 110_S | 130_K | 1.458 | 0.98 |
| 72_N | 75_E | 1.449 | 0.98 |
| 44_P | 148_F | 1.439 | 0.98 |
| 18_I | 71_Q | 1.397 | 0.97 |
| 56_I | 94_L | 1.378 | 0.97 |
| 132_Y | 140_H | 1.377 | 0.97 |
| 44_P | 52_N | 1.373 | 0.96 |
| 23_F | 34_F | 1.367 | 0.96 |
| 52_N | 93_A | 1.358 | 0.96 |
| 48_D | 52_N | 1.355 | 0.96 |
| 55_K | 148_F | 1.348 | 0.96 |
| 75_E | 200_Q | 1.344 | 0.96 |
| 23_F | 93_A | 1.343 | 0.96 |
| 70_L | 94_L | 1.341 | 0.96 |
| 98_K | 195_Y | 1.336 | 0.96 |
| 52_N | 148_F | 1.335 | 0.96 |
| 110_S | 134_M | 1.328 | 0.95 |
| 45_I | 100_G | 1.322 | 0.95 |
| 98_K | 194_I | 1.311 | 0.95 |
| 102_R | 109_Q | 1.304 | 0.95 |
| 52_N | 55_K | 1.292 | 0.95 |
| 42_F | 48_D | 1.290 | 0.94 |
| 58_A | 61_D | 1.266 | 0.94 |
| 111_I | 127_N | 1.235 | 0.93 |
| 137_K | 145_Q | 1.216 | 0.92 |
| 202_N | 205_L | 1.213 | 0.92 |
| 148_F | 166_S | 1.202 | 0.91 |
| 130_K | 134_M | 1.201 | 0.91 |
| 24_L | 97_L | 1.192 | 0.91 |
| 142_W | 145_Q | 1.177 | 0.90 |
| 77_E | 90_A | 1.174 | 0.90 |
| 136_L | 140_H | 1.173 | 0.90 |
| 49_I | 56_I | 1.171 | 0.90 |
| 20_T | 23_F | 1.169 | 0.90 |
| 47_A | 147_I | 1.167 | 0.90 |
| 145_Q | 154_A | 1.165 | 0.89 |
| 106_V | 134_M | 1.157 | 0.89 |
| 61_D | 64_P | 1.154 | 0.89 |
| 44_P | 93_A | 1.148 | 0.89 |
| 60_Y | 64_P | 1.131 | 0.88 |
| 93_A | 148_F | 1.123 | 0.87 |
| 39_S | 63_N | 1.107 | 0.86 |
| 23_F | 27_V | 1.100 | 0.86 |
| 89_G | 127_N | 1.094 | 0.85 |
| 150_A | 153_Y | 1.084 | 0.84 |
| 50_S | 180_I | 1.082 | 0.84 |
| 18_I | 174_E | 1.077 | 0.84 |
| 40_P | 43_T | 1.076 | 0.84 |
| 107_F | 128_A | 1.074 | 0.84 |
| 48_D | 51_G | 1.069 | 0.83 |
| 29_H | 32_P | 1.066 | 0.83 |
| 103_F | 136_L | 1.061 | 0.83 |
| 138_K | 153_Y | 1.059 | 0.82 |
| 21_G | 25_E | 1.057 | 0.82 |
| 103_F | 108_L | 1.056 | 0.82 |
| 36_C | 46_K | 1.051 | 0.82 |
| 45_I | 48_D | 1.049 | 0.82 |
| 51_G | 70_L | 1.044 | 0.81 |
| 97_L | 108_L | 1.044 | 0.81 |
| 33_F | 41_V | 1.037 | 0.81 |
| 95_M | 198_Y | 1.036 | 0.81 |
| 49_I | 63_N | 1.033 | 0.80 |
| 55_K | 92_L | 1.014 | 0.79 |
| 129_T | 149_Q | 1.009 | 0.78 |
| 201_M | 204_E | 1.009 | 0.78 |
| 183_F | 186_N | 1.008 | 0.78 |
| 35_D | 46_K | 1.006 | 0.78 |
| 99_R | 139_Y | 1.000 | 0.77 |
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 | |
| 3rznA | 1 | 0.9856 | 100 | 0.046 | Contact Map |
| 4k84A | 2 | 0.9522 | 100 | 0.137 | Contact Map |
| 3kv0A | 1 | 0.8182 | 100 | 0.162 | Contact Map |
| 2i3fA | 2 | 0.9043 | 100 | 0.163 | Contact Map |
| 4nt1A | 4 | 0.9187 | 100 | 0.167 | Contact Map |
| 3r9vA | 2 | 0.3684 | 18.6 | 0.945 | Contact Map |
| 4hhjA | 1 | 0.799 | 13.4 | 0.949 | Contact Map |
| 2j0oA | 2 | 0.3828 | 13.3 | 0.949 | Contact Map |
| 2b78A | 1 | 0.3923 | 7.6 | 0.954 | Contact Map |
| 4rp3A | 2 | 0.2823 | 6.8 | 0.955 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)