| hAQP0 |
| ID: | 1493285283 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 263 (225) | ||
| Sequences: | 5196 (3015.7) | ||
| Seq/Len: | 23.093 | ||
| Nf(neff/√len): | 201.0 |
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: 23.093).
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 |
| 76_L | 83_L | 4.301 | 1.00 |
| 72_T | 86_A | 4.033 | 1.00 |
| 17_F | 99_A | 3.810 | 1.00 |
| 21_L | 103_V | 3.453 | 1.00 |
| 76_L | 86_A | 3.407 | 1.00 |
| 135_I | 214_L | 3.172 | 1.00 |
| 135_I | 210_I | 3.128 | 1.00 |
| 13_I | 92_A | 3.067 | 1.00 |
| 131_T | 207_G | 3.041 | 1.00 |
| 137_L | 175_G | 2.964 | 1.00 |
| 13_I | 88_C | 2.817 | 1.00 |
| 21_L | 100_G | 2.579 | 1.00 |
| 144_C | 167_S | 2.549 | 1.00 |
| 12_A | 85_R | 2.489 | 1.00 |
| 49_G | 169_A | 2.426 | 1.00 |
| 182_G | 188_S | 2.406 | 1.00 |
| 17_F | 95_L | 2.405 | 1.00 |
| 139_L | 215_G | 2.248 | 1.00 |
| 27_G | 48_F | 2.202 | 1.00 |
| 201_H | 205_W | 2.109 | 1.00 |
| 59_V | 67_V | 2.090 | 1.00 |
| 73_F | 209_I | 2.075 | 1.00 |
| 189_F | 205_W | 2.024 | 1.00 |
| 90_M | 209_I | 1.985 | 1.00 |
| 172_H | 181_A | 1.962 | 1.00 |
| 102_A | 194_L | 1.912 | 1.00 |
| 92_A | 96_G | 1.882 | 1.00 |
| 94_L | 189_F | 1.876 | 1.00 |
| 131_T | 135_I | 1.873 | 1.00 |
| 171_G | 183_M | 1.834 | 1.00 |
| 9_F | 13_I | 1.830 | 1.00 |
| 19_A | 67_V | 1.829 | 1.00 |
| 121_L | 130_A | 1.772 | 1.00 |
| 77_V | 213_G | 1.756 | 1.00 |
| 73_F | 90_M | 1.752 | 1.00 |
| 128_G | 132_T | 1.615 | 1.00 |
| 101_A | 191_P | 1.596 | 1.00 |
| 66_H | 89_Y | 1.579 | 1.00 |
| 79_S | 220_D | 1.578 | 1.00 |
| 86_A | 90_M | 1.568 | 1.00 |
| 137_L | 183_M | 1.518 | 1.00 |
| 172_H | 176_M | 1.513 | 1.00 |
| 20_T | 97_A | 1.481 | 1.00 |
| 189_F | 193_I | 1.480 | 1.00 |
| 130_A | 179_T | 1.474 | 1.00 |
| 150_D | 219_Y | 1.454 | 1.00 |
| 29_G | 104_L | 1.438 | 1.00 |
| 142_V | 212_G | 1.417 | 1.00 |
| 211_G | 215_G | 1.399 | 0.99 |
| 138_T | 212_G | 1.385 | 0.99 |
| 52_L | 168_L | 1.378 | 0.99 |
| 189_F | 201_H | 1.350 | 0.99 |
| 72_T | 81_M | 1.341 | 0.99 |
| 209_I | 213_G | 1.335 | 0.99 |
| 139_L | 218_L | 1.333 | 0.99 |
| 81_M | 86_A | 1.332 | 0.99 |
| 22_F | 55_L | 1.310 | 0.99 |
| 148_T | 163_A | 1.309 | 0.99 |
| 55_L | 59_V | 1.307 | 0.99 |
| 30_S | 47_A | 1.304 | 0.99 |
| 74_A | 78_G | 1.302 | 0.99 |
| 53_A | 165_G | 1.294 | 0.99 |
| 71_V | 145_I | 1.292 | 0.99 |
| 168_L | 183_M | 1.292 | 0.99 |
| 98_V | 189_F | 1.286 | 0.99 |
| 202_W | 206_V | 1.283 | 0.99 |
| 198_F | 201_H | 1.275 | 0.99 |
| 76_L | 81_M | 1.263 | 0.99 |
| 28_L | 101_A | 1.261 | 0.99 |
| 99_A | 102_A | 1.259 | 0.99 |
| 187_R | 191_P | 1.257 | 0.99 |
| 207_G | 211_G | 1.256 | 0.99 |
| 69_P | 186_A | 1.249 | 0.99 |
| 98_V | 193_I | 1.239 | 0.98 |
| 87_F | 91_A | 1.228 | 0.98 |
| 26_F | 51_A | 1.223 | 0.98 |
| 22_F | 140_Q | 1.203 | 0.98 |
| 139_L | 214_L | 1.192 | 0.98 |
| 133_V | 179_T | 1.192 | 0.98 |
| 45_A | 173_L | 1.190 | 0.98 |
| 101_A | 190_A | 1.175 | 0.98 |
| 23_Y | 52_L | 1.174 | 0.98 |
| 21_L | 99_A | 1.172 | 0.98 |
| 70_A | 185_P | 1.171 | 0.98 |
| 53_A | 162_L | 1.157 | 0.97 |
| 74_A | 142_V | 1.147 | 0.97 |
| 10_W | 13_I | 1.146 | 0.97 |
| 72_T | 90_M | 1.139 | 0.97 |
| 133_V | 178_Y | 1.138 | 0.97 |
| 103_V | 136_F | 1.131 | 0.97 |
| 74_A | 216_S | 1.130 | 0.97 |
| 83_L | 86_A | 1.126 | 0.97 |
| 59_V | 65_A | 1.125 | 0.97 |
| 42_L | 46_M | 1.122 | 0.97 |
| 102_A | 106_S | 1.113 | 0.96 |
| 133_V | 137_L | 1.090 | 0.96 |
| 39_L | 43_Q | 1.080 | 0.95 |
| 51_A | 55_L | 1.073 | 0.95 |
| 98_V | 190_A | 1.071 | 0.95 |
| 70_A | 212_G | 1.062 | 0.95 |
| 56_V | 161_A | 1.061 | 0.95 |
| 135_I | 211_G | 1.060 | 0.95 |
| 134_E | 179_T | 1.059 | 0.95 |
| 141_F | 168_L | 1.057 | 0.95 |
| 75_F | 81_M | 1.044 | 0.94 |
| 40_H | 43_Q | 1.040 | 0.94 |
| 146_F | 215_G | 1.038 | 0.94 |
| 66_H | 72_T | 1.037 | 0.94 |
| 188_S | 208_P | 1.036 | 0.94 |
| 96_G | 100_G | 1.019 | 0.93 |
| 29_G | 174_F | 1.019 | 0.93 |
| 160_V | 164_V | 1.010 | 0.93 |
| 33_R | 178_Y | 1.006 | 0.93 |
| 25_F | 107_V | 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
- 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 | |
| 4oj2X | 1 | 0.9582 | 100 | 0.149 | Contact Map |
| 2b6oA | 1 | 0.8935 | 100 | 0.151 | Contact Map |
| 1j4nA | 1 | 0.9087 | 100 | 0.156 | Contact Map |
| 3d9sA | 4 | 0.9202 | 100 | 0.164 | Contact Map |
| 3iyzA | 1 | 0.8365 | 100 | 0.187 | Contact Map |
| 2zz9A | 1 | 0.8365 | 100 | 0.194 | Contact Map |
| 4nefA | 4 | 0.9125 | 100 | 0.195 | Contact Map |
| 3c02A | 1 | 0.8479 | 100 | 0.226 | Contact Map |
| 3cn5A | 1 | 0.8517 | 100 | 0.226 | Contact Map |
| 1ldfA | 1 | 0.8365 | 100 | 0.229 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)