| 12006_1 |
| ID: | 1433411792 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 333 (327) | ||
| Sequences: | 394 (301) | ||
| Seq/Len: | 1.205 | ||
| Nf(neff/√len): | 16.6 |
Jackhmmer Results: (2015_01_07)
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: 1.205).
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 |
| 233_V | 244_I | 3.796 | 1.00 |
| 18_K | 63_T | 2.888 | 1.00 |
| 12_A | 67_V | 2.885 | 1.00 |
| 231_I | 236_M | 2.754 | 1.00 |
| 23_Q | 51_L | 2.074 | 0.98 |
| 182_A | 240_Q | 2.029 | 0.97 |
| 14_N | 17_S | 1.993 | 0.97 |
| 177_S | 240_Q | 1.989 | 0.97 |
| 185_S | 235_S | 1.962 | 0.96 |
| 245_L | 271_F | 1.941 | 0.96 |
| 80_A | 128_L | 1.939 | 0.96 |
| 179_P | 182_A | 1.818 | 0.94 |
| 289_Y | 300_E | 1.765 | 0.92 |
| 198_L | 204_K | 1.658 | 0.89 |
| 15_V | 60_I | 1.622 | 0.88 |
| 68_L | 123_M | 1.572 | 0.85 |
| 162_A | 169_D | 1.572 | 0.85 |
| 236_M | 241_Q | 1.549 | 0.84 |
| 31_M | 133_F | 1.531 | 0.83 |
| 73_S | 76_G | 1.498 | 0.81 |
| 248_A | 292_I | 1.493 | 0.81 |
| 15_V | 64_I | 1.486 | 0.81 |
| 16_L | 27_V | 1.482 | 0.80 |
| 237_A | 240_Q | 1.478 | 0.80 |
| 156_G | 160_G | 1.477 | 0.80 |
| 8_I | 71_T | 1.465 | 0.79 |
| 195_P | 198_L | 1.457 | 0.79 |
| 68_L | 93_V | 1.453 | 0.78 |
| 237_A | 241_Q | 1.441 | 0.78 |
| 62_Q | 81_V | 1.435 | 0.77 |
| 23_Q | 60_I | 1.432 | 0.77 |
| 124_Y | 129_C | 1.430 | 0.77 |
| 145_F | 149_E | 1.427 | 0.77 |
| 217_C | 223_N | 1.425 | 0.77 |
| 188_I | 277_S | 1.413 | 0.76 |
| 195_P | 204_K | 1.400 | 0.75 |
| 149_E | 222_D | 1.388 | 0.74 |
| 100_L | 149_E | 1.372 | 0.73 |
| 162_A | 168_G | 1.368 | 0.72 |
| 29_N | 35_K | 1.363 | 0.72 |
| 78_Q | 82_S | 1.354 | 0.71 |
| 241_Q | 272_D | 1.353 | 0.71 |
| 75_E | 257_D | 1.349 | 0.71 |
| 20_T | 57_P | 1.335 | 0.70 |
| 24_K | 184_N | 1.335 | 0.70 |
| 29_N | 241_Q | 1.328 | 0.69 |
| 96_V | 99_I | 1.328 | 0.69 |
| 18_K | 292_I | 1.317 | 0.68 |
| 205_V | 210_Q | 1.309 | 0.68 |
| 8_I | 134_L | 1.307 | 0.67 |
| 274_T | 331_Y | 1.299 | 0.67 |
| 134_L | 236_M | 1.293 | 0.66 |
| 56_L | 272_D | 1.268 | 0.64 |
| 324_R | 330_D | 1.264 | 0.64 |
| 174_L | 177_S | 1.262 | 0.63 |
| 213_Q | 305_S | 1.261 | 0.63 |
| 21_L | 269_E | 1.259 | 0.63 |
| 251_F | 299_F | 1.258 | 0.63 |
| 64_I | 83_A | 1.254 | 0.63 |
| 126_H | 318_H | 1.247 | 0.62 |
| 209_N | 213_Q | 1.247 | 0.62 |
| 124_Y | 149_E | 1.238 | 0.61 |
| 13_N | 112_E | 1.237 | 0.61 |
| 235_S | 239_D | 1.231 | 0.61 |
| 59_E | 63_T | 1.209 | 0.58 |
| 142_S | 325_T | 1.207 | 0.58 |
| 21_L | 24_K | 1.204 | 0.58 |
| 18_K | 255_H | 1.203 | 0.58 |
| 208_W | 213_Q | 1.199 | 0.58 |
| 225_V | 293_Q | 1.197 | 0.57 |
| 36_W | 110_F | 1.189 | 0.57 |
| 87_N | 101_N | 1.185 | 0.56 |
| 110_F | 129_C | 1.179 | 0.56 |
| 72_F | 278_W | 1.172 | 0.55 |
| 121_W | 302_D | 1.171 | 0.55 |
| 171_G | 247_I | 1.167 | 0.54 |
| 178_L | 186_A | 1.163 | 0.54 |
| 174_L | 243_T | 1.163 | 0.54 |
| 43_E | 87_N | 1.162 | 0.54 |
| 164_L | 169_D | 1.158 | 0.54 |
| 219_A | 223_N | 1.154 | 0.53 |
| 14_N | 63_T | 1.152 | 0.53 |
| 51_L | 234_S | 1.148 | 0.53 |
| 79_K | 167_E | 1.147 | 0.52 |
| 118_A | 136_G | 1.144 | 0.52 |
| 19_L | 27_V | 1.140 | 0.52 |
| 157_P | 160_G | 1.137 | 0.52 |
| 33_S | 272_D | 1.132 | 0.51 |
| 22_Q | 112_E | 1.130 | 0.51 |
| 109_I | 297_I | 1.126 | 0.50 |
| 182_A | 237_A | 1.126 | 0.50 |
| 87_N | 100_L | 1.126 | 0.50 |
| 41_N | 87_N | 1.123 | 0.50 |
| 181_D | 242_N | 1.122 | 0.50 |
| 54_E | 220_F | 1.119 | 0.50 |
| 281_G | 332_G | 1.119 | 0.50 |
| 132_V | 141_I | 1.116 | 0.49 |
| 20_T | 62_Q | 1.112 | 0.49 |
| 72_F | 90_L | 1.111 | 0.49 |
| 127_H | 318_H | 1.109 | 0.49 |
| 94_C | 100_L | 1.103 | 0.48 |
| 179_P | 240_Q | 1.102 | 0.48 |
| 51_L | 151_N | 1.102 | 0.48 |
| 28_Q | 112_E | 1.097 | 0.48 |
| 112_E | 185_S | 1.097 | 0.48 |
| 87_N | 91_G | 1.097 | 0.48 |
| 24_K | 173_K | 1.096 | 0.48 |
| 15_V | 27_V | 1.092 | 0.47 |
| 14_N | 57_P | 1.087 | 0.47 |
| 233_V | 236_M | 1.087 | 0.47 |
| 102_Q | 105_Y | 1.082 | 0.46 |
| 30_P | 123_M | 1.078 | 0.46 |
| 68_L | 167_E | 1.078 | 0.46 |
| 61_I | 117_K | 1.076 | 0.46 |
| 14_N | 59_E | 1.072 | 0.45 |
| 67_V | 107_F | 1.070 | 0.45 |
| 265_Q | 268_Q | 1.068 | 0.45 |
| 28_Q | 246_A | 1.066 | 0.45 |
| 132_V | 321_T | 1.065 | 0.45 |
| 13_N | 25_T | 1.063 | 0.44 |
| 71_T | 134_L | 1.057 | 0.44 |
| 21_L | 28_Q | 1.057 | 0.44 |
| 287_P | 316_K | 1.056 | 0.44 |
| 233_V | 241_Q | 1.052 | 0.43 |
| 16_L | 64_I | 1.050 | 0.43 |
| 9_C | 231_I | 1.049 | 0.43 |
| 100_L | 192_M | 1.049 | 0.43 |
| 34_E | 245_L | 1.049 | 0.43 |
| 67_V | 290_Y | 1.048 | 0.43 |
| 167_E | 209_N | 1.045 | 0.43 |
| 270_Y | 296_V | 1.041 | 0.42 |
| 63_T | 182_A | 1.036 | 0.42 |
| 51_L | 173_K | 1.035 | 0.42 |
| 16_L | 28_Q | 1.034 | 0.42 |
| 44_F | 110_F | 1.033 | 0.41 |
| 58_E | 184_N | 1.033 | 0.41 |
| 207_R | 212_D | 1.032 | 0.41 |
| 22_Q | 267_I | 1.028 | 0.41 |
| 205_V | 209_N | 1.028 | 0.41 |
| 126_H | 320_H | 1.027 | 0.41 |
| 289_Y | 302_D | 1.027 | 0.41 |
| 182_A | 319_T | 1.026 | 0.41 |
| 42_P | 194_D | 1.024 | 0.41 |
| 59_E | 265_Q | 1.022 | 0.40 |
| 43_E | 303_H | 1.018 | 0.40 |
| 162_A | 165_H | 1.017 | 0.40 |
| 278_W | 288_F | 1.015 | 0.40 |
| 190_E | 257_D | 1.014 | 0.40 |
| 15_V | 19_L | 1.014 | 0.40 |
| 120_G | 288_F | 1.014 | 0.40 |
| 179_P | 237_A | 1.012 | 0.39 |
| 182_A | 231_I | 1.011 | 0.39 |
| 118_A | 138_Q | 1.009 | 0.39 |
| 40_S | 44_F | 1.009 | 0.39 |
| 126_H | 150_P | 1.008 | 0.39 |
| 288_F | 303_H | 1.008 | 0.39 |
| 24_K | 28_Q | 1.005 | 0.39 |
| 16_L | 251_F | 1.004 | 0.39 |
| 29_N | 108_L | 1.003 | 0.39 |
| 149_E | 314_P | 1.001 | 0.38 |
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 | |
| 3ubyA | 2 | 0.5405 | 46.7 | 0.969 | Contact Map |
| 4mx6A | 1 | 0.2523 | 43.5 | 0.97 | Contact Map |
| 3o39A | 2 | 0.1081 | 41.8 | 0.97 | Contact Map |
| 3u65B | 2 | 0.2853 | 39.7 | 0.971 | Contact Map |
| 4nguA | 1 | 0.2973 | 37.8 | 0.971 | Contact Map |
| 2pfyA | 4 | 0.2763 | 34.2 | 0.972 | Contact Map |
| 4n8gA | 4 | 0.3123 | 33.9 | 0.972 | Contact Map |
| 4nhbA | 2 | 0.3003 | 33.8 | 0.972 | Contact Map |
| 4n4uA | 2 | 0.2763 | 33.5 | 0.972 | Contact Map |
| 2hpgA | 4 | 0.2613 | 29.8 | 0.973 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)