| sdfff |
| ID: | 1490307330 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 212 (204) | ||
| Sequences: | 522 (437.8) | ||
| Seq/Len: | 2.559 | ||
| Nf(neff/√len): | 30.7 |
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: 2.559).
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 |
| 64_W | 111_Y | 3.710 | 1.00 |
| 127_W | 131_V | 3.280 | 1.00 |
| 155_V | 159_I | 2.746 | 1.00 |
| 68_G | 72_F | 2.255 | 1.00 |
| 177_F | 187_Y | 1.987 | 0.99 |
| 60_M | 116_L | 1.951 | 0.99 |
| 61_E | 65_A | 1.937 | 0.99 |
| 50_V | 73_A | 1.858 | 0.99 |
| 110_R | 118_G | 1.853 | 0.99 |
| 174_I | 178_G | 1.745 | 0.98 |
| 174_I | 177_F | 1.704 | 0.98 |
| 130_V | 158_F | 1.699 | 0.98 |
| 8_R | 12_G | 1.614 | 0.97 |
| 187_Y | 191_L | 1.588 | 0.96 |
| 107_S | 194_P | 1.564 | 0.96 |
| 182_E | 187_Y | 1.551 | 0.95 |
| 109_Q | 112_L | 1.538 | 0.95 |
| 89_L | 93_R | 1.537 | 0.95 |
| 9_V | 12_G | 1.479 | 0.94 |
| 110_R | 119_C | 1.458 | 0.93 |
| 177_F | 182_E | 1.457 | 0.93 |
| 151_F | 155_V | 1.452 | 0.93 |
| 178_G | 187_Y | 1.445 | 0.93 |
| 152_P | 178_G | 1.375 | 0.90 |
| 69_L | 73_A | 1.366 | 0.89 |
| 10_A | 14_L | 1.361 | 0.89 |
| 23_L | 45_N | 1.358 | 0.89 |
| 87_C | 92_M | 1.356 | 0.89 |
| 9_V | 13_I | 1.349 | 0.89 |
| 177_F | 183_A | 1.345 | 0.89 |
| 22_P | 45_N | 1.342 | 0.88 |
| 71_D | 110_R | 1.337 | 0.88 |
| 14_L | 18_L | 1.324 | 0.87 |
| 151_F | 182_E | 1.318 | 0.87 |
| 112_L | 122_T | 1.317 | 0.87 |
| 64_W | 67_Y | 1.307 | 0.87 |
| 32_L | 37_F | 1.304 | 0.86 |
| 47_L | 80_S | 1.285 | 0.85 |
| 129_Y | 136_P | 1.280 | 0.85 |
| 18_L | 48_T | 1.275 | 0.85 |
| 138_L | 154_V | 1.269 | 0.84 |
| 108_A | 146_V | 1.269 | 0.84 |
| 11_L | 90_A | 1.260 | 0.84 |
| 19_C | 52_A | 1.257 | 0.84 |
| 123_Q | 129_Y | 1.249 | 0.83 |
| 164_W | 177_F | 1.248 | 0.83 |
| 8_R | 59_N | 1.236 | 0.82 |
| 33_A | 41_I | 1.231 | 0.82 |
| 174_I | 182_E | 1.230 | 0.82 |
| 68_G | 71_D | 1.224 | 0.81 |
| 139_V | 148_V | 1.221 | 0.81 |
| 83_L | 136_P | 1.220 | 0.81 |
| 13_I | 17_L | 1.209 | 0.80 |
| 183_A | 187_Y | 1.207 | 0.80 |
| 5_L | 9_V | 1.206 | 0.80 |
| 89_L | 140_L | 1.203 | 0.80 |
| 35_V | 90_A | 1.196 | 0.79 |
| 178_G | 182_E | 1.187 | 0.78 |
| 194_P | 198_D | 1.130 | 0.73 |
| 25_L | 28_H | 1.124 | 0.73 |
| 91_I | 152_P | 1.119 | 0.72 |
| 201_F | 204_S | 1.112 | 0.72 |
| 83_L | 87_C | 1.108 | 0.71 |
| 140_L | 146_V | 1.107 | 0.71 |
| 29_N | 32_L | 1.105 | 0.71 |
| 92_M | 176_F | 1.094 | 0.70 |
| 113_I | 118_G | 1.093 | 0.70 |
| 71_D | 74_S | 1.091 | 0.70 |
| 111_Y | 118_G | 1.089 | 0.69 |
| 12_G | 59_N | 1.084 | 0.69 |
| 86_T | 140_L | 1.084 | 0.69 |
| 75_F | 122_T | 1.081 | 0.69 |
| 202_G | 205_H | 1.073 | 0.68 |
| 46_I | 50_V | 1.072 | 0.68 |
| 110_R | 113_I | 1.072 | 0.68 |
| 11_L | 55_W | 1.064 | 0.67 |
| 47_L | 51_S | 1.064 | 0.67 |
| 12_G | 23_L | 1.060 | 0.66 |
| 86_T | 167_I | 1.058 | 0.66 |
| 170_A | 178_G | 1.057 | 0.66 |
| 21_V | 26_L | 1.053 | 0.66 |
| 87_C | 137_P | 1.052 | 0.66 |
| 22_P | 176_F | 1.052 | 0.66 |
| 10_A | 13_I | 1.039 | 0.64 |
| 152_P | 177_F | 1.038 | 0.64 |
| 142_V | 159_I | 1.038 | 0.64 |
| 181_K | 188_R | 1.025 | 0.63 |
| 33_A | 37_F | 1.023 | 0.62 |
| 6_V | 33_A | 1.019 | 0.62 |
| 178_G | 183_A | 1.008 | 0.61 |
| 180_T | 187_Y | 1.005 | 0.60 |
| 111_Y | 119_C | 1.001 | 0.60 |
| 170_A | 177_F | 1.000 | 0.60 |
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 | |
| 2z73A | 2 | 0.9623 | 25 | 0.94 | Contact Map |
| 4l6rA | 1 | 0.9292 | 24.7 | 0.941 | Contact Map |
| 3oduA | 2 | 0.9528 | 18.3 | 0.944 | Contact Map |
| 4xesA | 1 | 0 | 17.7 | 0.945 | Contact Map |
| 4pxzA | 1 | 0.9292 | 17.5 | 0.945 | Contact Map |
| 4n6hA | 1 | 0.934 | 15.1 | 0.946 | Contact Map |
| 4mbsA | 2 | 0.9623 | 12.5 | 0.948 | Contact Map |
| 4eiyA | 1 | 0.9104 | 9.5 | 0.951 | Contact Map |
| 3emlA | 1 | 0.9528 | 9.3 | 0.951 | Contact Map |
| 3pblA | 2 | 0.9387 | 8.9 | 0.951 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)