| ctaa |
| ID: | 1500395164 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 306 (296) | ||
| Sequences: | 2308 (1536.3) | ||
| Seq/Len: | 7.797 | ||
| Nf(neff/√len): | 89.3 |
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: 7.797).
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 |
| 121_A | 180_A | 3.007 | 1.00 |
| 65_G | 104_A | 2.601 | 1.00 |
| 21_I | 280_F | 2.476 | 1.00 |
| 171_Y | 226_W | 2.360 | 1.00 |
| 106_L | 122_L | 2.317 | 1.00 |
| 178_T | 219_A | 2.311 | 1.00 |
| 71_V | 100_L | 2.286 | 1.00 |
| 75_A | 97_I | 2.284 | 1.00 |
| 196_L | 203_G | 2.238 | 1.00 |
| 10_V | 138_T | 2.199 | 1.00 |
| 125_G | 177_Y | 2.132 | 1.00 |
| 22_G | 63_A | 2.123 | 1.00 |
| 254_F | 288_V | 2.102 | 1.00 |
| 35_C | 42_C | 2.081 | 1.00 |
| 69_I | 73_S | 1.994 | 1.00 |
| 168_I | 226_W | 1.993 | 1.00 |
| 17_L | 280_F | 1.933 | 1.00 |
| 29_T | 56_I | 1.876 | 1.00 |
| 102_L | 106_L | 1.873 | 1.00 |
| 8_L | 73_S | 1.832 | 1.00 |
| 196_L | 199_P | 1.820 | 1.00 |
| 247_G | 291_Y | 1.814 | 1.00 |
| 15_V | 70_L | 1.795 | 1.00 |
| 13_T | 138_T | 1.782 | 1.00 |
| 131_F | 287_G | 1.776 | 1.00 |
| 75_A | 94_I | 1.755 | 1.00 |
| 231_A | 252_L | 1.730 | 1.00 |
| 193_N | 198_S | 1.729 | 1.00 |
| 194_V | 221_L | 1.718 | 1.00 |
| 273_G | 277_A | 1.699 | 1.00 |
| 260_L | 264_M | 1.692 | 1.00 |
| 135_L | 287_G | 1.674 | 1.00 |
| 171_Y | 223_L | 1.664 | 1.00 |
| 213_Q | 217_R | 1.658 | 1.00 |
| 20_L | 283_A | 1.654 | 1.00 |
| 13_T | 135_L | 1.636 | 1.00 |
| 268_S | 271_A | 1.632 | 1.00 |
| 72_L | 97_I | 1.622 | 1.00 |
| 256_T | 260_L | 1.619 | 1.00 |
| 231_A | 235_I | 1.614 | 1.00 |
| 227_I | 255_I | 1.595 | 1.00 |
| 261_S | 281_F | 1.582 | 1.00 |
| 77_W | 81_K | 1.578 | 1.00 |
| 106_L | 126_I | 1.543 | 1.00 |
| 250_S | 288_V | 1.532 | 1.00 |
| 249_I | 253_I | 1.531 | 1.00 |
| 20_L | 24_A | 1.523 | 1.00 |
| 68_I | 104_A | 1.521 | 1.00 |
| 254_F | 284_C | 1.469 | 0.99 |
| 251_C | 285_L | 1.459 | 0.99 |
| 214_M | 218_A | 1.452 | 0.99 |
| 87_R | 91_F | 1.450 | 0.99 |
| 264_M | 268_S | 1.443 | 0.99 |
| 224_F | 259_A | 1.441 | 0.99 |
| 79_W | 94_I | 1.420 | 0.99 |
| 213_Q | 266_V | 1.416 | 0.99 |
| 229_V | 233_H | 1.413 | 0.99 |
| 40_P | 43_H | 1.408 | 0.99 |
| 75_A | 79_W | 1.405 | 0.99 |
| 165_M | 293_L | 1.390 | 0.99 |
| 172_S | 289_L | 1.388 | 0.99 |
| 58_W | 62_F | 1.362 | 0.99 |
| 76_F | 80_R | 1.338 | 0.99 |
| 175_V | 223_L | 1.333 | 0.99 |
| 72_L | 104_A | 1.327 | 0.98 |
| 96_S | 133_S | 1.323 | 0.98 |
| 191_C | 197_C | 1.322 | 0.98 |
| 19_V | 64_S | 1.317 | 0.98 |
| 92_L | 137_L | 1.306 | 0.98 |
| 3_K | 7_A | 1.288 | 0.98 |
| 168_I | 227_I | 1.277 | 0.98 |
| 12_T | 70_L | 1.272 | 0.98 |
| 25_L | 29_T | 1.268 | 0.98 |
| 259_A | 263_I | 1.268 | 0.98 |
| 166_I | 293_L | 1.265 | 0.98 |
| 261_S | 277_A | 1.262 | 0.98 |
| 105_L | 108_A | 1.253 | 0.98 |
| 159_K | 163_F | 1.252 | 0.98 |
| 98_I | 102_L | 1.252 | 0.98 |
| 35_C | 40_P | 1.250 | 0.97 |
| 291_Y | 295_L | 1.247 | 0.97 |
| 24_A | 279_S | 1.243 | 0.97 |
| 105_L | 109_L | 1.243 | 0.97 |
| 132_A | 286_F | 1.239 | 0.97 |
| 247_G | 288_V | 1.237 | 0.97 |
| 64_S | 68_I | 1.232 | 0.97 |
| 106_L | 109_L | 1.231 | 0.97 |
| 31_S | 56_I | 1.228 | 0.97 |
| 128_L | 283_A | 1.224 | 0.97 |
| 108_A | 112_V | 1.223 | 0.97 |
| 228_I | 232_V | 1.221 | 0.97 |
| 164_H | 226_W | 1.221 | 0.97 |
| 15_V | 67_S | 1.219 | 0.97 |
| 221_L | 225_V | 1.217 | 0.97 |
| 55_I | 59_S | 1.216 | 0.97 |
| 234_A | 248_W | 1.209 | 0.97 |
| 91_F | 95_M | 1.191 | 0.96 |
| 5_L | 141_I | 1.184 | 0.96 |
| 262_G | 278_H | 1.182 | 0.96 |
| 8_L | 77_W | 1.173 | 0.96 |
| 164_H | 168_I | 1.171 | 0.96 |
| 224_F | 256_T | 1.166 | 0.96 |
| 247_G | 295_L | 1.161 | 0.96 |
| 286_F | 290_C | 1.158 | 0.96 |
| 224_F | 255_I | 1.156 | 0.95 |
| 65_G | 69_I | 1.143 | 0.95 |
| 28_K | 33_Q | 1.141 | 0.95 |
| 170_I | 174_I | 1.139 | 0.95 |
| 57_E | 111_V | 1.131 | 0.95 |
| 111_V | 123_H | 1.129 | 0.95 |
| 163_F | 167_G | 1.127 | 0.95 |
| 110_A | 120_M | 1.126 | 0.95 |
| 6_K | 142_F | 1.123 | 0.94 |
| 76_F | 79_W | 1.123 | 0.94 |
| 251_C | 292_F | 1.123 | 0.94 |
| 125_G | 173_Y | 1.122 | 0.94 |
| 165_M | 292_F | 1.121 | 0.94 |
| 255_I | 259_A | 1.121 | 0.94 |
| 254_F | 281_F | 1.114 | 0.94 |
| 218_A | 222_L | 1.110 | 0.94 |
| 131_F | 283_A | 1.100 | 0.94 |
| 30_G | 186_E | 1.096 | 0.94 |
| 91_F | 94_I | 1.093 | 0.93 |
| 132_A | 290_C | 1.089 | 0.93 |
| 23_G | 26_V | 1.083 | 0.93 |
| 66_I | 70_L | 1.080 | 0.93 |
| 22_G | 56_I | 1.076 | 0.93 |
| 18_I | 63_A | 1.060 | 0.92 |
| 82_I | 90_T | 1.058 | 0.92 |
| 235_I | 249_I | 1.056 | 0.92 |
| 232_V | 235_I | 1.053 | 0.92 |
| 110_A | 119_I | 1.051 | 0.92 |
| 175_V | 178_T | 1.051 | 0.92 |
| 264_M | 274_F | 1.046 | 0.91 |
| 102_L | 126_I | 1.043 | 0.91 |
| 252_L | 256_T | 1.041 | 0.91 |
| 104_A | 108_A | 1.036 | 0.91 |
| 135_L | 139_L | 1.036 | 0.91 |
| 25_L | 276_L | 1.035 | 0.91 |
| 9_G | 74_L | 1.028 | 0.90 |
| 246_W | 249_I | 1.027 | 0.90 |
| 261_S | 274_F | 1.025 | 0.90 |
| 242_K | 246_W | 1.022 | 0.90 |
| 43_H | 54_S | 1.010 | 0.89 |
| 231_A | 248_W | 1.009 | 0.89 |
| 109_L | 113_F | 1.009 | 0.89 |
| 284_C | 288_V | 1.003 | 0.89 |
| 52_P | 56_I | 1.000 | 0.89 |
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 | |
| 2jwaA | 2 | 0.1373 | 21.4 | 0.954 | Contact Map |
| 1kqfC | 1 | 0.4771 | 15.6 | 0.957 | Contact Map |
| 2ks1B | 1 | 0.1438 | 10.4 | 0.961 | Contact Map |
| 3cx5C | 2 | 0.5261 | 9.8 | 0.961 | Contact Map |
| 4i0uA | 10 | 0.2059 | 8 | 0.962 | Contact Map |
| 4gd3A | 2 | 0.4412 | 7.2 | 0.963 | Contact Map |
| 1wqbA | 1 | 0.1013 | 5.4 | 0.965 | Contact Map |
| 4ogqA | 1 | 0.5458 | 4.7 | 0.966 | Contact Map |
| 4o6yA | 2 | 0.5196 | 4.2 | 0.967 | Contact Map |
| 1pp9C | 2 | 0.5 | 4 | 0.967 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)