| UBE2I |
| ID: | 1439233112 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 158 (155) | ||
| Sequences: | 3775 (2269.3) | ||
| Seq/Len: | 24.355 | ||
| Nf(neff/√len): | 182.3 |
HHblits Results: (2015_06)
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: 24.355).
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 |
| 67_D | 71_S | 3.964 | 1.00 |
| 141_R | 145_E | 3.511 | 1.00 |
| 140_N | 143_E | 3.234 | 1.00 |
| 8_R | 12_E | 2.799 | 1.00 |
| 143_E | 146_K | 2.759 | 1.00 |
| 130_Q | 133_A | 2.699 | 1.00 |
| 40_N | 61_R | 2.678 | 1.00 |
| 82_F | 136_I | 2.598 | 1.00 |
| 58_F | 152_A | 2.441 | 1.00 |
| 135_T | 139_Q | 2.306 | 1.00 |
| 40_N | 63_L | 2.288 | 1.00 |
| 64_F | 109_I | 2.280 | 1.00 |
| 42_E | 59_K | 2.035 | 1.00 |
| 47_G | 54_E | 1.958 | 1.00 |
| 47_G | 51_T | 1.930 | 1.00 |
| 126_Q | 138_C | 1.929 | 1.00 |
| 37_N | 40_N | 1.811 | 1.00 |
| 148_V | 152_A | 1.722 | 1.00 |
| 84_P | 144_Y | 1.681 | 1.00 |
| 144_Y | 148_V | 1.678 | 1.00 |
| 142_V | 145_E | 1.583 | 1.00 |
| 61_R | 76_K | 1.581 | 1.00 |
| 11_Q | 15_A | 1.576 | 1.00 |
| 137_Y | 141_R | 1.560 | 1.00 |
| 95_S | 102_D | 1.558 | 1.00 |
| 5_A | 39_M | 1.536 | 1.00 |
| 59_K | 78_E | 1.529 | 1.00 |
| 118_E | 122_E | 1.528 | 1.00 |
| 128_P | 134_Y | 1.481 | 1.00 |
| 90_G | 97_L | 1.476 | 1.00 |
| 124_N | 127_D | 1.471 | 1.00 |
| 9_L | 64_F | 1.465 | 1.00 |
| 75_C | 112_I | 1.458 | 1.00 |
| 150_A | 154_K | 1.432 | 1.00 |
| 61_R | 78_E | 1.414 | 1.00 |
| 62_M | 75_C | 1.411 | 1.00 |
| 145_E | 149_R | 1.387 | 0.99 |
| 49_K | 54_E | 1.366 | 0.99 |
| 60_L | 116_I | 1.360 | 0.99 |
| 46_P | 57_L | 1.356 | 0.99 |
| 41_W | 64_F | 1.351 | 0.99 |
| 75_C | 116_I | 1.350 | 0.99 |
| 152_A | 156_A | 1.337 | 0.99 |
| 77_F | 86_V | 1.306 | 0.99 |
| 136_I | 147_R | 1.303 | 0.99 |
| 52_P | 145_E | 1.284 | 0.99 |
| 80_P | 155_F | 1.270 | 0.99 |
| 107_I | 115_G | 1.248 | 0.99 |
| 87_Y | 91_T | 1.246 | 0.98 |
| 110_K | 114_L | 1.241 | 0.98 |
| 10_A | 14_K | 1.227 | 0.98 |
| 87_Y | 129_A | 1.216 | 0.98 |
| 147_R | 150_A | 1.210 | 0.98 |
| 42_E | 61_R | 1.207 | 0.98 |
| 9_L | 12_E | 1.203 | 0.98 |
| 43_C | 62_M | 1.201 | 0.98 |
| 125_I | 137_Y | 1.183 | 0.98 |
| 108_T | 111_Q | 1.170 | 0.97 |
| 151_Q | 155_F | 1.162 | 0.97 |
| 9_L | 41_W | 1.142 | 0.97 |
| 6_L | 10_A | 1.142 | 0.97 |
| 124_N | 129_A | 1.127 | 0.97 |
| 41_W | 109_I | 1.126 | 0.97 |
| 51_T | 54_E | 1.124 | 0.97 |
| 96_I | 107_I | 1.123 | 0.97 |
| 83_H | 86_V | 1.121 | 0.97 |
| 23_G | 117_Q | 1.118 | 0.96 |
| 127_D | 130_Q | 1.111 | 0.96 |
| 54_E | 149_R | 1.100 | 0.96 |
| 113_L | 117_Q | 1.084 | 0.96 |
| 15_A | 108_T | 1.077 | 0.95 |
| 14_K | 18_K | 1.077 | 0.95 |
| 43_C | 60_L | 1.076 | 0.95 |
| 85_N | 119_L | 1.052 | 0.95 |
| 60_L | 75_C | 1.050 | 0.94 |
| 148_V | 151_Q | 1.049 | 0.94 |
| 82_F | 133_A | 1.032 | 0.94 |
| 132_E | 136_I | 1.021 | 0.93 |
| 98_E | 101_K | 1.019 | 0.93 |
| 81_L | 86_V | 1.017 | 0.93 |
| 93_C | 128_P | 1.004 | 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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 1ayzA | 3 | 0.9494 | 100 | 0.021 | Contact Map |
| 2gjdA | 4 | 0.9873 | 100 | 0.022 | Contact Map |
| 2grrA | 1 | 0.9937 | 100 | 0.023 | Contact Map |
| 4m1nA | 3 | 1 | 100 | 0.025 | Contact Map |
| 2clwA | 1 | 0.943 | 100 | 0.029 | Contact Map |
| 3e46A | 1 | 0.9557 | 100 | 0.03 | Contact Map |
| 3rczB | 1 | 0.981 | 100 | 0.031 | Contact Map |
| 1tteA | 1 | 0.9494 | 100 | 0.031 | Contact Map |
| 4ladA | 1 | 0.962 | 100 | 0.031 | Contact Map |
| 3k9oA | 1 | 0.943 | 100 | 0.034 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)