| ant |
| ID: | 1518378913 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 298 (288) | ||
| Sequences: | 12278 (7165) | ||
| Seq/Len: | 42.632 | ||
| Nf(neff/√len): | 422.2 |
Jackhmmer Results: (2016_04)
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: 42.632).
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 |
| 262_A | 270_F | 3.369 | 1.00 |
| 165_F | 173_L | 3.120 | 1.00 |
| 62_P | 70_F | 3.082 | 1.00 |
| 162_T | 166_K | 2.955 | 1.00 |
| 256_D | 260_K | 2.898 | 1.00 |
| 159_N | 163_K | 2.681 | 1.00 |
| 260_K | 264_D | 2.660 | 1.00 |
| 259_R | 263_K | 2.638 | 1.00 |
| 95_Y | 126_T | 2.633 | 1.00 |
| 261_I | 269_A | 2.566 | 1.00 |
| 155_T | 159_N | 2.563 | 1.00 |
| 59_V | 63_K | 2.561 | 1.00 |
| 163_K | 167_S | 2.431 | 1.00 |
| 258_W | 270_F | 2.428 | 1.00 |
| 56_D | 60_R | 2.366 | 1.00 |
| 164_I | 172_G | 2.276 | 1.00 |
| 234_V | 258_W | 2.222 | 1.00 |
| 251_Y | 257_C | 2.143 | 1.00 |
| 38_V | 143_A | 2.059 | 1.00 |
| 60_R | 64_E | 2.056 | 1.00 |
| 226_L | 274_A | 2.037 | 1.00 |
| 154_F | 160_C | 2.008 | 1.00 |
| 95_Y | 122_A | 1.991 | 1.00 |
| 121_G | 185_I | 1.986 | 1.00 |
| 265_E | 269_A | 1.971 | 1.00 |
| 262_A | 267_P | 1.970 | 1.00 |
| 251_Y | 256_D | 1.964 | 1.00 |
| 253_G | 256_D | 1.949 | 1.00 |
| 91_F | 95_Y | 1.927 | 1.00 |
| 286_F | 290_L | 1.925 | 1.00 |
| 156_G | 159_N | 1.923 | 1.00 |
| 168_D | 172_G | 1.879 | 1.00 |
| 237_R | 265_E | 1.865 | 1.00 |
| 161_I | 173_L | 1.850 | 1.00 |
| 154_F | 159_N | 1.840 | 1.00 |
| 117_L | 189_A | 1.836 | 1.00 |
| 33_K | 37_Q | 1.806 | 1.00 |
| 51_Y | 57_C | 1.784 | 1.00 |
| 202_L | 216_I | 1.777 | 1.00 |
| 58_V | 70_F | 1.748 | 1.00 |
| 140_R | 168_D | 1.729 | 1.00 |
| 252_T | 256_D | 1.700 | 1.00 |
| 35_L | 65_Q | 1.685 | 1.00 |
| 194_V | 223_V | 1.680 | 1.00 |
| 159_N | 162_T | 1.607 | 1.00 |
| 265_E | 272_K | 1.574 | 1.00 |
| 61_I | 69_S | 1.574 | 1.00 |
| 32_V | 58_V | 1.570 | 1.00 |
| 94_K | 98_I | 1.559 | 1.00 |
| 17_V | 294_I | 1.555 | 1.00 |
| 95_Y | 119_S | 1.542 | 1.00 |
| 170_L | 174_Y | 1.537 | 1.00 |
| 198_A | 219_T | 1.537 | 1.00 |
| 30_E | 33_K | 1.537 | 1.00 |
| 27_A | 31_R | 1.524 | 1.00 |
| 52_K | 56_D | 1.506 | 1.00 |
| 51_Y | 56_D | 1.498 | 1.00 |
| 87_L | 91_F | 1.498 | 1.00 |
| 190_A | 227_V | 1.489 | 1.00 |
| 255_V | 259_R | 1.480 | 1.00 |
| 114_A | 118_A | 1.466 | 1.00 |
| 99_F | 119_S | 1.450 | 1.00 |
| 195_Y | 292_D | 1.446 | 1.00 |
| 21_I | 290_L | 1.436 | 1.00 |
| 103_V | 115_G | 1.428 | 1.00 |
| 290_L | 294_I | 1.426 | 1.00 |
| 65_Q | 72_R | 1.412 | 1.00 |
| 165_F | 170_L | 1.406 | 0.99 |
| 31_R | 35_L | 1.404 | 0.99 |
| 24_T | 74_N | 1.404 | 0.99 |
| 198_A | 216_I | 1.402 | 0.99 |
| 65_Q | 69_S | 1.400 | 0.99 |
| 197_T | 201_M | 1.355 | 0.99 |
| 16_G | 82_F | 1.331 | 0.99 |
| 168_D | 175_Q | 1.315 | 0.99 |
| 137_A | 161_I | 1.313 | 0.99 |
| 215_M | 219_T | 1.308 | 0.99 |
| 20_A | 78_V | 1.287 | 0.99 |
| 87_L | 130_F | 1.284 | 0.99 |
| 138_R | 142_A | 1.283 | 0.99 |
| 208_V | 212_V | 1.279 | 0.99 |
| 91_F | 126_T | 1.278 | 0.99 |
| 96_K | 196_D | 1.278 | 0.99 |
| 255_V | 258_W | 1.275 | 0.99 |
| 56_D | 59_V | 1.274 | 0.99 |
| 251_Y | 260_K | 1.270 | 0.99 |
| 197_T | 200_G | 1.248 | 0.99 |
| 121_G | 189_A | 1.241 | 0.98 |
| 11_D | 93_D | 1.237 | 0.98 |
| 125_A | 181_V | 1.235 | 0.98 |
| 158_G | 162_T | 1.225 | 0.98 |
| 14_A | 294_I | 1.225 | 0.98 |
| 13_L | 16_G | 1.204 | 0.98 |
| 234_V | 270_F | 1.183 | 0.98 |
| 191_Y | 288_L | 1.163 | 0.97 |
| 74_N | 78_V | 1.159 | 0.97 |
| 235_R | 239_M | 1.157 | 0.97 |
| 132_Y | 136_F | 1.154 | 0.97 |
| 122_A | 126_T | 1.148 | 0.97 |
| 25_A | 286_F | 1.147 | 0.97 |
| 194_V | 198_A | 1.144 | 0.97 |
| 218_Q | 282_M | 1.142 | 0.97 |
| 232_D | 235_R | 1.133 | 0.97 |
| 93_D | 96_K | 1.130 | 0.97 |
| 187_Y | 224_A | 1.123 | 0.97 |
| 99_F | 122_A | 1.111 | 0.96 |
| 136_F | 140_R | 1.108 | 0.96 |
| 17_V | 21_I | 1.107 | 0.96 |
| 129_C | 177_F | 1.107 | 0.96 |
| 112_Y | 115_G | 1.104 | 0.96 |
| 55_I | 59_V | 1.099 | 0.96 |
| 120_G | 189_A | 1.097 | 0.96 |
| 177_F | 181_V | 1.087 | 0.96 |
| 27_A | 71_W | 1.081 | 0.95 |
| 51_Y | 60_R | 1.075 | 0.95 |
| 15_G | 19_A | 1.073 | 0.95 |
| 169_G | 172_G | 1.073 | 0.95 |
| 209_H | 212_V | 1.066 | 0.95 |
| 213_S | 292_D | 1.066 | 0.95 |
| 256_D | 259_R | 1.064 | 0.95 |
| 61_I | 65_Q | 1.063 | 0.95 |
| 210_I | 293_E | 1.062 | 0.95 |
| 274_A | 278_V | 1.061 | 0.95 |
| 163_K | 166_K | 1.059 | 0.95 |
| 111_R | 115_G | 1.055 | 0.95 |
| 266_G | 269_A | 1.050 | 0.94 |
| 215_M | 218_Q | 1.049 | 0.94 |
| 120_G | 124_G | 1.041 | 0.94 |
| 217_A | 285_A | 1.030 | 0.94 |
| 154_F | 163_K | 1.028 | 0.94 |
| 84_T | 88_N | 1.024 | 0.93 |
| 181_V | 185_I | 1.019 | 0.93 |
| 122_A | 125_A | 1.018 | 0.93 |
| 259_R | 262_A | 1.016 | 0.93 |
| 164_I | 168_D | 1.014 | 0.93 |
| 80_R | 84_T | 1.014 | 0.93 |
| 94_K | 97_Q | 1.013 | 0.93 |
| 267_P | 271_F | 1.012 | 0.93 |
| 39_Q | 51_Y | 1.010 | 0.93 |
| 66_G | 69_S | 1.009 | 0.93 |
| 62_P | 67_F | 1.008 | 0.93 |
| 30_E | 138_R | 1.008 | 0.93 |
| 137_A | 160_C | 1.004 | 0.93 |
| 143_A | 240_M | 1.003 | 0.93 |
| 92_K | 196_D | 1.002 | 0.92 |
| 21_I | 24_T | 1.000 | 0.92 |
| 160_C | 164_I | 1.000 | 0.92 |
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 | |
| 1okcA | 1 | 0.9799 | 100 | 0.113 | Contact Map |
| 4c9gA | 1 | 0.8859 | 100 | 0.166 | Contact Map |
| 2lckA | 1 | 0.9396 | 100 | 0.183 | Contact Map |
| 4i5lB | 2 | 0.2383 | 21.3 | 0.953 | Contact Map |
| 2b0jA | 1 | 0.349 | 8 | 0.961 | Contact Map |
| 4jjfA | 2 | 0.3087 | 7.3 | 0.962 | Contact Map |
| 2jvwA | 1 | 0.2047 | 4.2 | 0.966 | Contact Map |
| 1t10A | 1 | 0.1711 | 3.6 | 0.967 | Contact Map |
| 3j9xA | 58 | 0 | 3.4 | 0.967 | Contact Map |
| 1l3lA | 4 | 0.2047 | 2.8 | 0.969 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)