| AcbaC19000a |
| ID: | 1480552741 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 296 (292) | ||
| Sequences: | 521 (372.9) | ||
| Seq/Len: | 1.784 | ||
| Nf(neff/√len): | 21.8 |
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: 1.784).
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 |
| 291_Y | 295_K | 3.284 | 1.00 |
| 291_Y | 294_A | 2.703 | 1.00 |
| 20_L | 125_L | 2.664 | 1.00 |
| 284_E | 287_R | 2.528 | 1.00 |
| 124_A | 229_S | 2.454 | 1.00 |
| 4_V | 62_P | 2.451 | 1.00 |
| 103_Y | 292_L | 2.426 | 1.00 |
| 67_G | 76_V | 1.920 | 0.98 |
| 5_Y | 18_L | 1.891 | 0.98 |
| 243_V | 267_I | 1.873 | 0.98 |
| 235_L | 241_V | 1.863 | 0.98 |
| 14_R | 37_S | 1.847 | 0.97 |
| 140_L | 221_V | 1.841 | 0.97 |
| 5_Y | 17_A | 1.813 | 0.97 |
| 13_H | 92_M | 1.811 | 0.97 |
| 123_G | 284_E | 1.753 | 0.96 |
| 177_T | 186_I | 1.746 | 0.96 |
| 178_S | 230_M | 1.701 | 0.95 |
| 243_V | 258_I | 1.694 | 0.95 |
| 146_S | 182_P | 1.675 | 0.95 |
| 178_S | 233_E | 1.672 | 0.95 |
| 105_V | 288_V | 1.661 | 0.94 |
| 234_A | 241_V | 1.655 | 0.94 |
| 268_S | 277_P | 1.649 | 0.94 |
| 21_F | 66_F | 1.638 | 0.94 |
| 140_L | 214_E | 1.630 | 0.94 |
| 94_P | 110_D | 1.629 | 0.94 |
| 107_P | 123_G | 1.598 | 0.93 |
| 119_I | 288_V | 1.591 | 0.93 |
| 259_D | 263_E | 1.509 | 0.90 |
| 139_I | 220_A | 1.508 | 0.90 |
| 135_Q | 172_E | 1.508 | 0.90 |
| 231_V | 258_I | 1.502 | 0.89 |
| 135_Q | 171_A | 1.490 | 0.89 |
| 8_D | 13_H | 1.489 | 0.89 |
| 230_M | 233_E | 1.487 | 0.89 |
| 67_G | 90_I | 1.465 | 0.88 |
| 10_K | 13_H | 1.461 | 0.88 |
| 107_P | 110_D | 1.447 | 0.87 |
| 178_S | 227_S | 1.445 | 0.87 |
| 19_G | 124_A | 1.443 | 0.87 |
| 106_I | 285_A | 1.418 | 0.85 |
| 57_L | 60_Q | 1.408 | 0.85 |
| 65_I | 79_L | 1.405 | 0.85 |
| 141_I | 164_I | 1.396 | 0.84 |
| 283_K | 286_D | 1.356 | 0.82 |
| 290_T | 294_A | 1.350 | 0.81 |
| 144_G | 180_R | 1.340 | 0.81 |
| 41_L | 126_N | 1.339 | 0.81 |
| 92_M | 124_A | 1.339 | 0.81 |
| 286_D | 290_T | 1.335 | 0.80 |
| 180_R | 227_S | 1.333 | 0.80 |
| 143_L | 189_L | 1.329 | 0.80 |
| 62_P | 240_R | 1.323 | 0.80 |
| 83_F | 86_A | 1.320 | 0.79 |
| 92_M | 285_A | 1.312 | 0.79 |
| 13_H | 177_T | 1.309 | 0.79 |
| 254_I | 258_I | 1.304 | 0.78 |
| 258_I | 267_I | 1.303 | 0.78 |
| 161_V | 193_S | 1.302 | 0.78 |
| 153_N | 156_K | 1.299 | 0.78 |
| 76_V | 88_T | 1.289 | 0.77 |
| 255_T | 259_D | 1.264 | 0.75 |
| 262_I | 267_I | 1.264 | 0.75 |
| 227_S | 230_M | 1.244 | 0.73 |
| 134_H | 137_S | 1.243 | 0.73 |
| 137_S | 171_A | 1.238 | 0.73 |
| 15_S | 19_G | 1.236 | 0.73 |
| 20_L | 97_P | 1.234 | 0.73 |
| 123_G | 289_A | 1.231 | 0.72 |
| 157_V | 185_F | 1.226 | 0.72 |
| 238_G | 279_P | 1.226 | 0.72 |
| 222_W | 244_I | 1.220 | 0.71 |
| 13_H | 73_H | 1.211 | 0.71 |
| 154_Q | 184_E | 1.199 | 0.69 |
| 22_Q | 127_P | 1.187 | 0.68 |
| 175_L | 202_P | 1.183 | 0.68 |
| 12_G | 178_S | 1.177 | 0.67 |
| 122_R | 141_I | 1.177 | 0.67 |
| 24_M | 293_L | 1.174 | 0.67 |
| 158_L | 188_I | 1.167 | 0.66 |
| 177_T | 202_P | 1.167 | 0.66 |
| 13_H | 90_I | 1.163 | 0.66 |
| 6_V | 118_V | 1.162 | 0.66 |
| 12_G | 227_S | 1.161 | 0.66 |
| 8_D | 92_M | 1.158 | 0.66 |
| 68_V | 92_M | 1.154 | 0.65 |
| 182_P | 185_F | 1.153 | 0.65 |
| 14_R | 18_L | 1.149 | 0.65 |
| 67_G | 88_T | 1.148 | 0.65 |
| 97_P | 147_S | 1.144 | 0.64 |
| 144_G | 227_S | 1.143 | 0.64 |
| 186_I | 189_L | 1.137 | 0.63 |
| 161_V | 188_I | 1.136 | 0.63 |
| 76_V | 90_I | 1.134 | 0.63 |
| 108_E | 120_V | 1.128 | 0.63 |
| 110_D | 253_R | 1.124 | 0.62 |
| 175_L | 198_L | 1.124 | 0.62 |
| 162_Q | 192_Q | 1.117 | 0.61 |
| 157_V | 161_V | 1.109 | 0.61 |
| 65_I | 76_V | 1.106 | 0.60 |
| 228_V | 257_S | 1.097 | 0.59 |
| 4_V | 60_Q | 1.095 | 0.59 |
| 92_M | 123_G | 1.095 | 0.59 |
| 105_V | 125_L | 1.093 | 0.59 |
| 105_V | 284_E | 1.093 | 0.59 |
| 92_M | 109_H | 1.091 | 0.59 |
| 9_G | 23_A | 1.088 | 0.58 |
| 213_E | 217_K | 1.088 | 0.58 |
| 285_A | 289_A | 1.086 | 0.58 |
| 25_Q | 293_L | 1.083 | 0.58 |
| 92_M | 110_D | 1.075 | 0.57 |
| 134_H | 172_E | 1.075 | 0.57 |
| 231_V | 243_V | 1.069 | 0.56 |
| 228_V | 259_D | 1.068 | 0.56 |
| 89_I | 261_M | 1.061 | 0.56 |
| 144_G | 178_S | 1.058 | 0.55 |
| 94_P | 107_P | 1.058 | 0.55 |
| 7_S | 13_H | 1.057 | 0.55 |
| 61_A | 258_I | 1.057 | 0.55 |
| 107_P | 182_P | 1.054 | 0.55 |
| 162_Q | 263_E | 1.049 | 0.54 |
| 124_A | 232_F | 1.040 | 0.53 |
| 92_M | 229_S | 1.039 | 0.53 |
| 182_P | 186_I | 1.036 | 0.53 |
| 144_G | 230_M | 1.031 | 0.52 |
| 24_M | 225_E | 1.028 | 0.52 |
| 2_H | 63_D | 1.026 | 0.52 |
| 143_L | 175_L | 1.023 | 0.51 |
| 12_G | 16_Q | 1.019 | 0.51 |
| 19_G | 92_M | 1.019 | 0.51 |
| 102_N | 117_R | 1.017 | 0.51 |
| 20_L | 105_V | 1.017 | 0.51 |
| 12_G | 230_M | 1.014 | 0.50 |
| 75_R | 103_Y | 1.013 | 0.50 |
| 180_R | 224_T | 1.013 | 0.50 |
| 161_V | 182_P | 1.007 | 0.50 |
| 157_V | 160_S | 1.005 | 0.49 |
| 290_T | 295_K | 1.003 | 0.49 |
| 161_V | 192_Q | 1.003 | 0.49 |
| 231_V | 267_I | 1.001 | 0.49 |
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 | |
| 3s2uA | 1 | 0.9054 | 99.1 | 0.847 | Contact Map |
| 3hbmA | 1 | 0.8412 | 99 | 0.856 | Contact Map |
| 1f0kA | 2 | 0.9257 | 99 | 0.856 | Contact Map |
| 3ot5A | 4 | 0.8953 | 98.6 | 0.872 | Contact Map |
| 4nesA | 1 | 0.9155 | 98.6 | 0.873 | Contact Map |
| 3dzcA | 2 | 0.9392 | 98.5 | 0.876 | Contact Map |
| 3otgA | 1 | 0.9189 | 98.5 | 0.876 | Contact Map |
| 3froA | 3 | 0.8986 | 98.5 | 0.877 | Contact Map |
| 3c48A | 2 | 0.8784 | 98.5 | 0.877 | Contact Map |
| 3h4tA | 1 | 0.875 | 98.5 | 0.878 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)