| Cat_L |
| ID: | 1519070785 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 317 (311) | ||
| Sequences: | 2917 (1918.7) | ||
| Seq/Len: | 9.379 | ||
| Nf(neff/√len): | 108.8 |
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: 9.379).
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 |
| 294_E | 299_K | 5.795 | 1.00 |
| 112_A | 139_F | 3.295 | 1.00 |
| 129_S | 234_S | 3.247 | 1.00 |
| 64_S | 246_F | 3.018 | 1.00 |
| 59_G | 248_S | 3.001 | 1.00 |
| 157_S | 162_N | 2.944 | 1.00 |
| 132_G | 267_L | 2.822 | 1.00 |
| 267_L | 285_K | 2.801 | 1.00 |
| 273_T | 280_D | 2.703 | 1.00 |
| 223_L | 233_V | 2.661 | 1.00 |
| 171_D | 214_D | 2.631 | 1.00 |
| 108_R | 283_L | 2.539 | 1.00 |
| 283_L | 299_K | 2.417 | 1.00 |
| 134_L | 177_V | 2.356 | 1.00 |
| 114_T | 285_K | 2.319 | 1.00 |
| 284_V | 298_I | 2.243 | 1.00 |
| 124_S | 191_Y | 2.228 | 1.00 |
| 235_V | 310_I | 2.149 | 1.00 |
| 227_V | 233_V | 2.145 | 1.00 |
| 131_T | 183_L | 2.118 | 1.00 |
| 68_H | 245_Q | 2.070 | 1.00 |
| 274_D | 299_K | 2.026 | 1.00 |
| 32_M | 36_L | 2.021 | 1.00 |
| 62_K | 118_D | 2.014 | 1.00 |
| 62_K | 291_T | 1.995 | 1.00 |
| 15_K | 28_E | 1.973 | 1.00 |
| 219_N | 222_K | 1.938 | 1.00 |
| 126_W | 173_A | 1.938 | 1.00 |
| 42_I | 46_N | 1.921 | 1.00 |
| 57_K | 249_E | 1.914 | 1.00 |
| 152_N | 176_Y | 1.913 | 1.00 |
| 125_C | 264_H | 1.905 | 1.00 |
| 27_E | 31_R | 1.864 | 1.00 |
| 253_F | 301_A | 1.751 | 1.00 |
| 123_G | 167_G | 1.720 | 1.00 |
| 224_K | 302_R | 1.702 | 1.00 |
| 113_V | 136_G | 1.701 | 1.00 |
| 306_N | 312_S | 1.696 | 1.00 |
| 11_W | 22_Y | 1.685 | 1.00 |
| 237_I | 244_F | 1.678 | 1.00 |
| 236_A | 265_G | 1.672 | 1.00 |
| 284_V | 310_I | 1.659 | 1.00 |
| 126_W | 153_L | 1.629 | 1.00 |
| 71_F | 245_Q | 1.593 | 1.00 |
| 170_M | 265_G | 1.573 | 1.00 |
| 243_S | 252_Y | 1.571 | 1.00 |
| 306_N | 311_A | 1.569 | 1.00 |
| 280_D | 303_N | 1.560 | 1.00 |
| 157_S | 161_G | 1.549 | 1.00 |
| 35_F | 60_M | 1.517 | 1.00 |
| 105_V | 228_A | 1.517 | 1.00 |
| 138_H | 207_A | 1.486 | 1.00 |
| 11_W | 15_K | 1.485 | 1.00 |
| 39_K | 60_M | 1.467 | 1.00 |
| 124_S | 154_I | 1.465 | 1.00 |
| 155_D | 189_Y | 1.461 | 1.00 |
| 137_Q | 231_G | 1.457 | 1.00 |
| 12_F | 28_E | 1.455 | 1.00 |
| 39_K | 42_I | 1.452 | 1.00 |
| 235_V | 268_I | 1.446 | 1.00 |
| 67_L | 70_E | 1.442 | 1.00 |
| 237_I | 298_I | 1.431 | 0.99 |
| 31_R | 34_I | 1.426 | 0.99 |
| 114_T | 145_L | 1.418 | 0.99 |
| 227_V | 268_I | 1.411 | 0.99 |
| 60_M | 64_S | 1.400 | 0.99 |
| 42_I | 246_F | 1.399 | 0.99 |
| 22_Y | 27_E | 1.396 | 0.99 |
| 151_Q | 155_D | 1.379 | 0.99 |
| 239_A | 263_D | 1.374 | 0.99 |
| 285_K | 297_Y | 1.353 | 0.99 |
| 117_K | 150_E | 1.349 | 0.99 |
| 268_I | 284_V | 1.347 | 0.99 |
| 66_M | 71_F | 1.345 | 0.99 |
| 235_V | 266_V | 1.343 | 0.99 |
| 103_K | 273_T | 1.340 | 0.99 |
| 41_K | 243_S | 1.337 | 0.99 |
| 170_M | 236_A | 1.322 | 0.99 |
| 55_P | 253_F | 1.315 | 0.99 |
| 45_H | 58_L | 1.312 | 0.99 |
| 233_V | 268_I | 1.284 | 0.99 |
| 192_E | 199_R | 1.275 | 0.99 |
| 272_G | 302_R | 1.274 | 0.99 |
| 134_L | 209_D | 1.268 | 0.99 |
| 138_H | 148_L | 1.261 | 0.98 |
| 228_A | 271_Y | 1.256 | 0.98 |
| 269_V | 297_Y | 1.256 | 0.98 |
| 8_D | 32_M | 1.241 | 0.98 |
| 132_G | 135_E | 1.235 | 0.98 |
| 129_S | 170_M | 1.231 | 0.98 |
| 119_Q | 125_C | 1.231 | 0.98 |
| 184_D | 188_S | 1.226 | 0.98 |
| 266_V | 284_V | 1.216 | 0.98 |
| 112_A | 136_G | 1.215 | 0.98 |
| 301_A | 307_H | 1.212 | 0.98 |
| 105_V | 110_H | 1.206 | 0.98 |
| 272_G | 281_Y | 1.202 | 0.98 |
| 34_I | 67_L | 1.200 | 0.98 |
| 41_K | 58_L | 1.199 | 0.98 |
| 293_G | 296_G | 1.193 | 0.98 |
| 10_E | 39_K | 1.193 | 0.98 |
| 31_R | 70_E | 1.191 | 0.98 |
| 42_I | 64_S | 1.189 | 0.97 |
| 221_E | 224_K | 1.188 | 0.97 |
| 14_F | 60_M | 1.182 | 0.97 |
| 40_H | 44_E | 1.179 | 0.97 |
| 244_F | 298_I | 1.175 | 0.97 |
| 268_I | 282_W | 1.174 | 0.97 |
| 244_F | 252_Y | 1.172 | 0.97 |
| 57_K | 248_S | 1.169 | 0.97 |
| 102_P | 228_A | 1.168 | 0.97 |
| 116_V | 285_K | 1.159 | 0.97 |
| 153_L | 173_A | 1.149 | 0.97 |
| 122_C | 165_C | 1.145 | 0.97 |
| 252_Y | 298_I | 1.144 | 0.97 |
| 101_L | 224_K | 1.140 | 0.97 |
| 138_H | 142_T | 1.131 | 0.96 |
| 112_A | 140_R | 1.126 | 0.96 |
| 104_E | 109_K | 1.122 | 0.96 |
| 301_A | 305_D | 1.117 | 0.96 |
| 137_Q | 141_Q | 1.117 | 0.96 |
| 192_E | 196_D | 1.116 | 0.96 |
| 44_E | 48_K | 1.113 | 0.96 |
| 45_H | 56_Y | 1.111 | 0.96 |
| 128_F | 132_G | 1.109 | 0.96 |
| 132_G | 285_K | 1.108 | 0.96 |
| 119_Q | 122_C | 1.102 | 0.96 |
| 155_D | 193_A | 1.099 | 0.95 |
| 13_S | 17_N | 1.098 | 0.95 |
| 42_I | 59_G | 1.086 | 0.95 |
| 241_H | 252_Y | 1.083 | 0.95 |
| 7_L | 10_E | 1.066 | 0.94 |
| 253_F | 307_H | 1.063 | 0.94 |
| 39_K | 43_I | 1.060 | 0.94 |
| 292_W | 296_G | 1.054 | 0.94 |
| 236_A | 313_S | 1.052 | 0.94 |
| 7_L | 39_K | 1.044 | 0.94 |
| 63_Y | 70_E | 1.027 | 0.93 |
| 274_D | 277_T | 1.026 | 0.93 |
| 174_F | 315_S | 1.022 | 0.93 |
| 15_K | 22_Y | 1.018 | 0.92 |
| 38_N | 246_F | 1.016 | 0.92 |
| 131_T | 150_E | 1.013 | 0.92 |
| 125_C | 128_F | 1.012 | 0.92 |
| 165_C | 168_G | 1.008 | 0.92 |
| 107_W | 113_V | 1.008 | 0.92 |
| 290_E | 295_K | 1.004 | 0.92 |
| 264_H | 286_N | 1.004 | 0.92 |
| 114_T | 135_E | 1.001 | 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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 1by8A | 1 | 0.9716 | 100 | 0.072 | Contact Map |
| 2c0yA | 1 | 0.9621 | 100 | 0.073 | Contact Map |
| 3qj3A | 2 | 0.9748 | 100 | 0.079 | Contact Map |
| 1cs8A | 1 | 0.9779 | 100 | 0.082 | Contact Map |
| 3qt4A | 1 | 0.9495 | 100 | 0.082 | Contact Map |
| 2o6xA | 1 | 0.9464 | 100 | 0.085 | Contact Map |
| 1pciA | 3 | 0.959 | 100 | 0.106 | Contact Map |
| 4qrgA | 2 | 0 | 100 | 0.126 | Contact Map |
| 1xkgA | 1 | 0.9117 | 100 | 0.135 | Contact Map |
| 3pdfA | 1 | 0.7224 | 100 | 0.184 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)