| osSweet |
| ID: | 1497577654 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 224 (211) | ||
| Sequences: | 1157 (774.7) | ||
| Seq/Len: | 5.483 | ||
| Nf(neff/√len): | 53.3 |
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: 5.483).
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 |
| 62_G | 73_V | 2.472 | 1.00 |
| 185_G | 194_Y | 2.397 | 1.00 |
| 155_G | 159_R | 2.333 | 1.00 |
| 161_E | 214_Y | 2.274 | 1.00 |
| 158_I | 214_Y | 2.190 | 1.00 |
| 204_G | 207_Q | 2.183 | 1.00 |
| 168_F | 172_L | 2.130 | 1.00 |
| 20_A | 27_P | 2.082 | 1.00 |
| 197_N | 200_G | 2.076 | 1.00 |
| 148_A | 203_L | 2.062 | 1.00 |
| 196_P | 210_L | 1.862 | 1.00 |
| 51_S | 146_M | 1.775 | 1.00 |
| 166_M | 171_S | 1.726 | 1.00 |
| 89_C | 93_F | 1.684 | 1.00 |
| 196_P | 200_G | 1.622 | 0.99 |
| 51_S | 84_Q | 1.597 | 0.99 |
| 79_I | 83_F | 1.596 | 0.99 |
| 12_A | 15_A | 1.590 | 0.99 |
| 13_G | 16_G | 1.553 | 0.99 |
| 199_L | 203_L | 1.552 | 0.99 |
| 86_A | 90_L | 1.530 | 0.99 |
| 175_F | 208_L | 1.492 | 0.99 |
| 168_F | 204_G | 1.470 | 0.99 |
| 153_V | 165_F | 1.465 | 0.99 |
| 32_K | 36_K | 1.455 | 0.98 |
| 58_C | 139_S | 1.444 | 0.98 |
| 45_G | 91_F | 1.421 | 0.98 |
| 37_A | 41_E | 1.403 | 0.98 |
| 59_L | 74_A | 1.399 | 0.98 |
| 203_L | 207_Q | 1.388 | 0.98 |
| 9_C | 12_A | 1.375 | 0.98 |
| 17_N | 20_A | 1.362 | 0.97 |
| 32_K | 35_L | 1.356 | 0.97 |
| 167_P | 171_S | 1.320 | 0.97 |
| 40_T | 91_F | 1.306 | 0.96 |
| 55_C | 80_G | 1.268 | 0.95 |
| 62_G | 77_N | 1.262 | 0.95 |
| 58_C | 61_Y | 1.252 | 0.95 |
| 87_Y | 94_Y | 1.246 | 0.95 |
| 33_R | 164_E | 1.241 | 0.95 |
| 121_A | 124_F | 1.227 | 0.94 |
| 190_D | 207_Q | 1.223 | 0.94 |
| 44_D | 152_A | 1.218 | 0.94 |
| 139_S | 142_S | 1.202 | 0.93 |
| 182_A | 185_G | 1.194 | 0.93 |
| 163_V | 211_Y | 1.193 | 0.93 |
| 77_N | 80_G | 1.190 | 0.93 |
| 47_P | 170_L | 1.180 | 0.93 |
| 55_C | 179_A | 1.176 | 0.92 |
| 152_A | 156_V | 1.165 | 0.92 |
| 16_G | 24_F | 1.160 | 0.92 |
| 137_A | 140_M | 1.154 | 0.91 |
| 150_P | 157_V | 1.147 | 0.91 |
| 163_V | 166_M | 1.147 | 0.91 |
| 133_Q | 192_F | 1.147 | 0.91 |
| 199_L | 202_I | 1.145 | 0.91 |
| 48_Y | 84_Q | 1.139 | 0.91 |
| 78_G | 193_I | 1.135 | 0.91 |
| 177_M | 181_F | 1.133 | 0.90 |
| 24_F | 28_V | 1.119 | 0.90 |
| 188_L | 193_I | 1.117 | 0.90 |
| 200_G | 211_Y | 1.111 | 0.89 |
| 23_L | 27_P | 1.105 | 0.89 |
| 31_F | 48_Y | 1.100 | 0.89 |
| 197_N | 204_G | 1.097 | 0.89 |
| 20_A | 23_L | 1.092 | 0.88 |
| 85_L | 89_C | 1.091 | 0.88 |
| 73_V | 193_I | 1.081 | 0.88 |
| 183_L | 187_L | 1.080 | 0.87 |
| 112_V | 116_A | 1.077 | 0.87 |
| 143_L | 194_Y | 1.077 | 0.87 |
| 19_F | 180_S | 1.076 | 0.87 |
| 160_S | 170_L | 1.076 | 0.87 |
| 56_L | 81_A | 1.075 | 0.87 |
| 48_Y | 166_M | 1.075 | 0.87 |
| 130_L | 134_F | 1.073 | 0.87 |
| 157_V | 160_S | 1.072 | 0.87 |
| 40_T | 167_P | 1.068 | 0.87 |
| 17_N | 27_P | 1.065 | 0.86 |
| 200_G | 207_Q | 1.064 | 0.86 |
| 151_L | 196_P | 1.064 | 0.86 |
| 190_D | 193_I | 1.056 | 0.86 |
| 197_N | 214_Y | 1.050 | 0.85 |
| 73_V | 78_G | 1.042 | 0.85 |
| 202_I | 206_M | 1.041 | 0.85 |
| 74_A | 77_N | 1.040 | 0.85 |
| 23_L | 26_S | 1.037 | 0.84 |
| 210_L | 214_Y | 1.036 | 0.84 |
| 77_N | 197_N | 1.034 | 0.84 |
| 144_I | 192_F | 1.032 | 0.84 |
| 165_F | 169_Y | 1.030 | 0.84 |
| 35_L | 90_L | 1.027 | 0.84 |
| 157_V | 166_M | 1.026 | 0.84 |
| 48_Y | 51_S | 1.022 | 0.83 |
| 63_L | 79_I | 1.022 | 0.83 |
| 43_F | 171_S | 1.013 | 0.82 |
| 100_T | 103_K | 1.010 | 0.82 |
| 179_A | 183_L | 1.007 | 0.82 |
| 154_M | 210_L | 1.007 | 0.82 |
| 34_I | 91_F | 1.004 | 0.82 |
| 54_N | 146_M | 1.002 | 0.82 |
| 13_G | 17_N | 1.000 | 0.81 |
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 | |
| 4qndA | 1 | 0.4241 | 99.6 | 0.701 | Contact Map |
| 4rngA | 6 | 0.3705 | 99.5 | 0.712 | Contact Map |
| 4qncA | 2 | 0.3661 | 99.4 | 0.729 | Contact Map |
| 4x5mA | 3 | 0.4152 | 99.3 | 0.742 | Contact Map |
| 4p6vD | 1 | 0.3304 | 6.2 | 0.957 | Contact Map |
| 4p6vE | 1 | 0.7902 | 5.1 | 0.958 | Contact Map |
| 2b2hA | 1 | 0.4018 | 4.3 | 0.96 | Contact Map |
| 3m73A | 1 | 0.3125 | 4 | 0.96 | Contact Map |
| 4j05A | 2 | 0.9152 | 3.6 | 0.961 | Contact Map |
| 3wdoA | 1 | 0.9732 | 3.2 | 0.962 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)