| 1e0s |
| ID: | 1448613945 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 174 (164) | ||
| Sequences: | 39631 (22280.9) | ||
| Seq/Len: | 241.652 | ||
| Nf(neff/√len): | 1739.8 |
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: 241.652).
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 |
| 31_K | 158_G | 3.252 | 1.00 |
| 151_Q | 167_W | 3.177 | 1.00 |
| 89_C | 120_A | 2.918 | 1.00 |
| 84_I | 119_F | 2.670 | 1.00 |
| 20_L | 97_E | 2.416 | 1.00 |
| 149_Y | 167_W | 2.408 | 1.00 |
| 167_W | 170_S | 2.380 | 1.00 |
| 86_V | 121_N | 2.343 | 1.00 |
| 119_F | 164_G | 2.319 | 1.00 |
| 167_W | 171_N | 2.162 | 1.00 |
| 28_I | 86_V | 2.155 | 1.00 |
| 119_F | 153_S | 2.153 | 1.00 |
| 123_Q | 152_P | 2.007 | 1.00 |
| 120_A | 152_P | 1.919 | 1.00 |
| 48_V | 59_N | 1.879 | 1.00 |
| 89_C | 123_Q | 1.836 | 1.00 |
| 14_R | 59_N | 1.792 | 1.00 |
| 27_T | 155_A | 1.764 | 1.00 |
| 123_Q | 159_D | 1.758 | 1.00 |
| 16_L | 80_T | 1.743 | 1.00 |
| 17_M | 29_L | 1.731 | 1.00 |
| 160_G | 163_E | 1.685 | 1.00 |
| 58_F | 169_T | 1.614 | 1.00 |
| 82_G | 168_L | 1.610 | 1.00 |
| 50_T | 57_K | 1.604 | 1.00 |
| 28_I | 164_G | 1.600 | 1.00 |
| 12_E | 59_N | 1.590 | 1.00 |
| 117_L | 151_Q | 1.578 | 1.00 |
| 136_E | 140_L | 1.568 | 1.00 |
| 87_V | 118_I | 1.567 | 1.00 |
| 84_I | 168_L | 1.561 | 1.00 |
| 121_N | 155_A | 1.556 | 1.00 |
| 87_V | 150_V | 1.553 | 1.00 |
| 31_K | 161_L | 1.547 | 1.00 |
| 117_L | 167_W | 1.524 | 1.00 |
| 90_A | 125_L | 1.515 | 1.00 |
| 82_G | 117_L | 1.492 | 1.00 |
| 92_R | 138_L | 1.479 | 1.00 |
| 56_V | 169_T | 1.472 | 1.00 |
| 87_V | 120_A | 1.417 | 1.00 |
| 17_M | 84_I | 1.391 | 0.99 |
| 28_I | 161_L | 1.389 | 0.99 |
| 85_F | 98_A | 1.387 | 0.99 |
| 153_S | 164_G | 1.377 | 0.99 |
| 84_I | 117_L | 1.364 | 0.99 |
| 88_D | 122_K | 1.336 | 0.99 |
| 88_D | 91_D | 1.321 | 0.99 |
| 54_K | 169_T | 1.305 | 0.99 |
| 102_L | 106_I | 1.304 | 0.99 |
| 163_E | 166_T | 1.300 | 0.99 |
| 15_I | 82_G | 1.295 | 0.99 |
| 120_A | 150_V | 1.293 | 0.99 |
| 135_Q | 139_G | 1.285 | 0.99 |
| 124_D | 154_C | 1.240 | 0.98 |
| 163_E | 167_W | 1.229 | 0.98 |
| 91_D | 94_R | 1.227 | 0.98 |
| 32_L | 165_L | 1.212 | 0.98 |
| 84_I | 164_G | 1.202 | 0.98 |
| 12_E | 57_K | 1.200 | 0.98 |
| 101_E | 104_R | 1.195 | 0.98 |
| 52_T | 57_K | 1.188 | 0.98 |
| 101_E | 105_I | 1.162 | 0.97 |
| 161_L | 165_L | 1.145 | 0.97 |
| 166_T | 170_S | 1.120 | 0.96 |
| 142_R | 146_R | 1.110 | 0.96 |
| 122_K | 125_L | 1.106 | 0.96 |
| 162_Y | 166_T | 1.100 | 0.96 |
| 100_Q | 104_R | 1.097 | 0.96 |
| 115_I | 171_N | 1.080 | 0.95 |
| 93_D | 96_D | 1.074 | 0.95 |
| 28_I | 155_A | 1.068 | 0.95 |
| 83_L | 114_A | 1.061 | 0.95 |
| 140_L | 144_R | 1.057 | 0.95 |
| 20_L | 23_A | 1.031 | 0.94 |
| 48_V | 61_W | 1.019 | 0.93 |
| 14_R | 61_W | 1.016 | 0.93 |
| 50_T | 59_N | 1.016 | 0.93 |
| 62_D | 65_G | 1.012 | 0.93 |
| 118_I | 150_V | 1.011 | 0.93 |
| 149_Y | 171_N | 1.007 | 0.93 |
| 85_F | 102_L | 1.003 | 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 | |
| 3lvqE | 1 | 0.9425 | 100 | 0.123 | Contact Map |
| 1mozA | 2 | 0.977 | 100 | 0.153 | Contact Map |
| 3o47A | 2 | 0.9368 | 99.9 | 0.16 | Contact Map |
| 1zj6A | 1 | 0.977 | 99.9 | 0.165 | Contact Map |
| 2x77A | 2 | 0.9943 | 99.9 | 0.17 | Contact Map |
| 1r8sA | 1 | 0.9195 | 99.9 | 0.171 | Contact Map |
| 1kshA | 1 | 0.9368 | 99.9 | 0.171 | Contact Map |
| 4ileA | 1 | 0.977 | 99.9 | 0.174 | Contact Map |
| 2b6hA | 1 | 0.9713 | 99.9 | 0.179 | Contact Map |
| 1uptA | 4 | 0.9713 | 99.9 | 0.186 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)