| lxj |
| ID: | 1702653655 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 263 (233) | ||
| Sequences: | 3487 (2412.6) | ||
| Seq/Len: | 14.966 | ||
| Nf(neff/√len): | 158.1 |
HHblits Results: (2016_02)
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 |
| 128_G | 231_M | 4.306 | 1.00 |
| 123_D | 126_R | 4.006 | 1.00 |
| 79_F | 232_K | 3.971 | 1.00 |
| 143_A | 152_A | 3.234 | 1.00 |
| 129_V | 139_S | 2.882 | 1.00 |
| 153_A | 227_G | 2.870 | 1.00 |
| 133_S | 210_H | 2.745 | 1.00 |
| 128_G | 151_A | 2.661 | 1.00 |
| 53_A | 122_V | 2.510 | 1.00 |
| 53_A | 82_I | 2.452 | 1.00 |
| 128_G | 235_M | 2.437 | 1.00 |
| 232_K | 236_D | 2.326 | 1.00 |
| 154_P | 157_P | 2.314 | 1.00 |
| 59_G | 133_S | 2.254 | 1.00 |
| 77_H | 228_V | 2.251 | 1.00 |
| 106_Q | 109_S | 2.173 | 1.00 |
| 126_R | 150_K | 2.109 | 1.00 |
| 105_R | 148_S | 2.093 | 1.00 |
| 71_G | 83_T | 2.089 | 1.00 |
| 39_G | 82_I | 2.030 | 1.00 |
| 43_Y | 80_V | 2.030 | 1.00 |
| 139_S | 152_A | 1.992 | 1.00 |
| 153_A | 231_M | 1.917 | 1.00 |
| 53_A | 107_V | 1.852 | 1.00 |
| 142_S | 149_L | 1.844 | 1.00 |
| 21_G | 76_S | 1.805 | 1.00 |
| 156_A | 179_D | 1.771 | 1.00 |
| 64_Q | 85_D | 1.739 | 1.00 |
| 51_V | 80_V | 1.730 | 1.00 |
| 177_E | 206_K | 1.724 | 1.00 |
| 192_Y | 200_K | 1.672 | 1.00 |
| 151_A | 230_W | 1.663 | 1.00 |
| 203_L | 226_K | 1.650 | 1.00 |
| 104_L | 127_M | 1.605 | 1.00 |
| 56_I | 130_M | 1.603 | 1.00 |
| 80_V | 122_V | 1.587 | 1.00 |
| 56_I | 71_G | 1.577 | 1.00 |
| 82_I | 103_A | 1.519 | 1.00 |
| 73_R | 77_H | 1.480 | 1.00 |
| 152_A | 169_V | 1.467 | 1.00 |
| 136_G | 157_P | 1.465 | 1.00 |
| 153_A | 172_L | 1.450 | 1.00 |
| 176_C | 179_D | 1.434 | 1.00 |
| 56_I | 67_I | 1.417 | 1.00 |
| 199_A | 234_F | 1.411 | 1.00 |
| 232_K | 238_D | 1.406 | 0.99 |
| 151_A | 234_F | 1.404 | 0.99 |
| 101_M | 142_S | 1.397 | 0.99 |
| 73_R | 228_V | 1.393 | 0.99 |
| 104_L | 149_L | 1.389 | 0.99 |
| 132_W | 156_A | 1.379 | 0.99 |
| 87_N | 99_Q | 1.372 | 0.99 |
| 130_M | 231_M | 1.371 | 0.99 |
| 100_Q | 129_V | 1.369 | 0.99 |
| 75_A | 78_G | 1.365 | 0.99 |
| 105_R | 146_N | 1.349 | 0.99 |
| 177_E | 207_G | 1.338 | 0.99 |
| 54_I | 74_L | 1.324 | 0.99 |
| 231_M | 235_M | 1.322 | 0.99 |
| 52_G | 123_D | 1.317 | 0.99 |
| 41_V | 80_V | 1.303 | 0.99 |
| 54_I | 231_M | 1.301 | 0.99 |
| 110_L | 113_T | 1.301 | 0.99 |
| 172_L | 226_K | 1.294 | 0.99 |
| 55_A | 100_Q | 1.287 | 0.99 |
| 57_V | 86_T | 1.271 | 0.99 |
| 106_Q | 110_L | 1.259 | 0.99 |
| 71_G | 75_A | 1.252 | 0.99 |
| 130_M | 153_A | 1.239 | 0.98 |
| 79_F | 236_D | 1.228 | 0.98 |
| 42_Y | 83_T | 1.228 | 0.98 |
| 201_Q | 230_W | 1.225 | 0.98 |
| 38_A | 85_D | 1.222 | 0.98 |
| 40_T | 64_Q | 1.209 | 0.98 |
| 108_A | 124_T | 1.207 | 0.98 |
| 156_A | 176_C | 1.194 | 0.98 |
| 172_L | 203_L | 1.192 | 0.98 |
| 140_L | 171_T | 1.189 | 0.98 |
| 190_P | 194_S | 1.182 | 0.98 |
| 56_I | 74_L | 1.179 | 0.98 |
| 130_M | 227_G | 1.161 | 0.97 |
| 71_G | 81_V | 1.152 | 0.97 |
| 175_A | 188_A | 1.143 | 0.97 |
| 146_N | 149_L | 1.143 | 0.97 |
| 155_Q | 174_F | 1.141 | 0.97 |
| 126_R | 237_N | 1.132 | 0.97 |
| 151_A | 235_M | 1.127 | 0.97 |
| 77_H | 232_K | 1.119 | 0.96 |
| 152_A | 171_T | 1.119 | 0.96 |
| 26_R | 43_Y | 1.117 | 0.96 |
| 150_K | 235_M | 1.109 | 0.96 |
| 67_I | 132_W | 1.107 | 0.96 |
| 100_Q | 138_G | 1.101 | 0.96 |
| 143_A | 169_V | 1.097 | 0.96 |
| 101_M | 105_R | 1.092 | 0.96 |
| 58_P | 84_I | 1.088 | 0.96 |
| 225_K | 229_A | 1.086 | 0.96 |
| 53_A | 124_T | 1.083 | 0.96 |
| 54_I | 79_F | 1.082 | 0.96 |
| 24_T | 45_T | 1.075 | 0.95 |
| 56_I | 83_T | 1.068 | 0.95 |
| 41_V | 82_I | 1.062 | 0.95 |
| 64_Q | 83_T | 1.056 | 0.95 |
| 224_G | 228_V | 1.055 | 0.95 |
| 111_N | 120_G | 1.052 | 0.95 |
| 243_T | 248_N | 1.050 | 0.94 |
| 189_L | 202_F | 1.045 | 0.94 |
| 44_P | 80_V | 1.045 | 0.94 |
| 172_L | 230_W | 1.043 | 0.94 |
| 151_A | 231_M | 1.033 | 0.94 |
| 59_G | 210_H | 1.032 | 0.94 |
| 58_P | 86_T | 1.023 | 0.93 |
| 55_A | 127_M | 1.023 | 0.93 |
| 32_R | 36_Y | 1.016 | 0.93 |
| 53_A | 127_M | 1.014 | 0.93 |
| 153_A | 174_F | 1.010 | 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 | |
| 4cg1A | 1 | 0.962 | 100 | 0.34 | Contact Map |
| 1jfrA | 2 | 0.962 | 100 | 0.357 | Contact Map |
| 4eb0A | 1 | 0.9582 | 100 | 0.385 | Contact Map |
| 4wfiA | 1 | 0.9658 | 100 | 0.39 | Contact Map |
| 3wynA | 2 | 0.9696 | 100 | 0.397 | Contact Map |
| 2fx5A | 1 | 0.9278 | 100 | 0.447 | Contact Map |
| 3d59A | 2 | 0.9316 | 100 | 0.456 | Contact Map |
| 1l7aA | 2 | 0.8289 | 100 | 0.499 | Contact Map |
| 2hdwA | 2 | 0.8213 | 100 | 0.502 | Contact Map |
| 2ecfA | 1 | 0.8517 | 100 | 0.503 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)