| feckin_FLCN -force run |
| ID: | 1469189396 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 579 (571) | ||
| Sequences: | 59 (41.5) | ||
| Seq/Len: | 0.103 | ||
| Nf(neff/√len): | 1.7 |
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: 0.103).
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 |
| 19_L | 26_H | 1.917 | 0.38 |
| 134_C | 170_Y | 1.801 | 0.33 |
| 406_S | 418_L | 1.786 | 0.32 |
| 140_P | 170_Y | 1.683 | 0.28 |
| 398_G | 558_S | 1.639 | 0.26 |
| 189_L | 483_L | 1.615 | 0.25 |
| 244_L | 406_S | 1.592 | 0.24 |
| 287_E | 558_S | 1.589 | 0.24 |
| 166_F | 200_L | 1.588 | 0.24 |
| 122_R | 244_L | 1.570 | 0.23 |
| 143_F | 171_S | 1.567 | 0.23 |
| 96_I | 107_V | 1.558 | 0.23 |
| 122_R | 258_F | 1.532 | 0.22 |
| 244_L | 372_N | 1.510 | 0.21 |
| 182_L | 260_W | 1.502 | 0.21 |
| 149_G | 254_L | 1.500 | 0.21 |
| 122_R | 418_L | 1.496 | 0.21 |
| 84_G | 259_A | 1.492 | 0.20 |
| 124_A | 204_A | 1.486 | 0.20 |
| 151_V | 260_W | 1.485 | 0.20 |
| 131_C | 201_Q | 1.477 | 0.20 |
| 1_M | 7_L | 1.463 | 0.20 |
| 153_S | 188_F | 1.461 | 0.19 |
| 128_S | 132_E | 1.453 | 0.19 |
| 112_P | 418_L | 1.449 | 0.19 |
| 281_D | 398_G | 1.446 | 0.19 |
| 124_A | 127_R | 1.445 | 0.19 |
| 124_A | 364_L | 1.437 | 0.19 |
| 287_E | 398_G | 1.436 | 0.19 |
| 129_L | 371_G | 1.431 | 0.19 |
| 139_G | 156_F | 1.429 | 0.18 |
| 139_G | 160_D | 1.429 | 0.18 |
| 156_F | 160_D | 1.429 | 0.18 |
| 125_C | 130_S | 1.413 | 0.18 |
| 368_V | 519_F | 1.402 | 0.18 |
| 391_L | 401_R | 1.394 | 0.17 |
| 119_S | 386_S | 1.390 | 0.17 |
| 112_P | 372_N | 1.385 | 0.17 |
| 260_W | 264_A | 1.374 | 0.17 |
| 346_F | 355_V | 1.369 | 0.17 |
| 122_R | 372_N | 1.357 | 0.16 |
| 406_S | 552_F | 1.356 | 0.16 |
| 139_G | 241_L | 1.352 | 0.16 |
| 156_F | 241_L | 1.352 | 0.16 |
| 160_D | 241_L | 1.352 | 0.16 |
| 163_A | 184_N | 1.347 | 0.16 |
| 504_L | 539_L | 1.343 | 0.16 |
| 1_M | 5_V | 1.343 | 0.16 |
| 281_D | 287_E | 1.339 | 0.16 |
| 515_V | 554_M | 1.339 | 0.16 |
| 186_W | 268_R | 1.337 | 0.16 |
| 185_S | 189_L | 1.333 | 0.16 |
| 207_V | 281_D | 1.332 | 0.16 |
| 137_R | 170_Y | 1.331 | 0.16 |
| 201_Q | 204_A | 1.330 | 0.16 |
| 96_I | 158_I | 1.329 | 0.16 |
| 179_R | 236_N | 1.327 | 0.16 |
| 239_R | 409_Y | 1.319 | 0.15 |
| 427_P | 553_W | 1.318 | 0.15 |
| 146_E | 221_R | 1.318 | 0.15 |
| 1_M | 6_A | 1.317 | 0.15 |
| 112_P | 122_R | 1.311 | 0.15 |
| 267_S | 413_Y | 1.309 | 0.15 |
| 377_K | 440_E | 1.303 | 0.15 |
| 171_S | 394_M | 1.292 | 0.15 |
| 144_G | 239_R | 1.291 | 0.15 |
| 125_C | 128_S | 1.285 | 0.14 |
| 125_C | 132_E | 1.285 | 0.14 |
| 125_C | 131_C | 1.280 | 0.14 |
| 18_T | 23_E | 1.277 | 0.14 |
| 273_L | 401_R | 1.277 | 0.14 |
| 122_R | 361_F | 1.274 | 0.14 |
| 281_D | 558_S | 1.270 | 0.14 |
| 21_C | 112_P | 1.269 | 0.14 |
| 134_C | 141_I | 1.268 | 0.14 |
| 144_G | 188_F | 1.267 | 0.14 |
| 207_V | 245_T | 1.265 | 0.14 |
| 133_V | 155_T | 1.263 | 0.14 |
| 144_G | 171_S | 1.263 | 0.14 |
| 145_D | 260_W | 1.258 | 0.14 |
| 185_S | 263_K | 1.257 | 0.14 |
| 135_P | 233_R | 1.256 | 0.14 |
| 415_C | 418_L | 1.255 | 0.14 |
| 186_W | 189_L | 1.255 | 0.14 |
| 233_R | 418_L | 1.251 | 0.14 |
| 110_Q | 155_T | 1.246 | 0.14 |
| 186_W | 521_F | 1.238 | 0.13 |
| 281_D | 395_L | 1.234 | 0.13 |
| 129_L | 373_Q | 1.234 | 0.13 |
| 107_V | 375_I | 1.232 | 0.13 |
| 521_F | 557_L | 1.230 | 0.13 |
| 417_F | 515_V | 1.230 | 0.13 |
| 258_F | 361_F | 1.225 | 0.13 |
| 137_R | 179_R | 1.222 | 0.13 |
| 166_F | 201_Q | 1.222 | 0.13 |
| 562_K | 566_M | 1.215 | 0.13 |
| 139_G | 255_H | 1.212 | 0.13 |
| 156_F | 255_H | 1.212 | 0.13 |
| 160_D | 255_H | 1.212 | 0.13 |
| 177_M | 287_E | 1.210 | 0.13 |
| 153_S | 255_H | 1.208 | 0.13 |
| 23_E | 394_M | 1.206 | 0.13 |
| 144_G | 260_W | 1.203 | 0.13 |
| 244_L | 418_L | 1.200 | 0.12 |
| 121_V | 130_S | 1.200 | 0.12 |
| 512_M | 520_K | 1.194 | 0.12 |
| 137_R | 140_P | 1.194 | 0.12 |
| 510_E | 513_N | 1.192 | 0.12 |
| 112_P | 233_R | 1.192 | 0.12 |
| 19_L | 391_L | 1.191 | 0.12 |
| 139_G | 144_G | 1.191 | 0.12 |
| 144_G | 156_F | 1.191 | 0.12 |
| 144_G | 160_D | 1.191 | 0.12 |
| 121_V | 201_Q | 1.191 | 0.12 |
| 143_F | 163_A | 1.190 | 0.12 |
| 519_F | 541_A | 1.189 | 0.12 |
| 179_R | 183_I | 1.189 | 0.12 |
| 185_S | 268_R | 1.184 | 0.12 |
| 104_I | 212_Q | 1.183 | 0.12 |
| 155_T | 177_M | 1.183 | 0.12 |
| 150_F | 257_S | 1.182 | 0.12 |
| 129_L | 132_E | 1.182 | 0.12 |
| 87_S | 108_S | 1.178 | 0.12 |
| 146_E | 215_C | 1.177 | 0.12 |
| 169_W | 229_F | 1.177 | 0.12 |
| 179_R | 531_D | 1.177 | 0.12 |
| 417_F | 549_L | 1.172 | 0.12 |
| 418_L | 552_F | 1.171 | 0.12 |
| 124_A | 130_S | 1.168 | 0.12 |
| 21_C | 240_S | 1.167 | 0.12 |
| 19_L | 104_I | 1.166 | 0.12 |
| 139_G | 182_L | 1.165 | 0.12 |
| 156_F | 182_L | 1.165 | 0.12 |
| 160_D | 182_L | 1.165 | 0.12 |
| 399_C | 416_N | 1.165 | 0.12 |
| 368_V | 437_V | 1.165 | 0.12 |
| 413_Y | 429_H | 1.165 | 0.12 |
| 244_L | 258_F | 1.164 | 0.12 |
| 136_G | 183_I | 1.164 | 0.12 |
| 287_E | 554_M | 1.162 | 0.12 |
| 211_E | 245_T | 1.160 | 0.12 |
| 134_C | 268_R | 1.157 | 0.12 |
| 117_L | 261_L | 1.157 | 0.12 |
| 302_S | 305_E | 1.155 | 0.12 |
| 23_E | 183_I | 1.155 | 0.12 |
| 144_G | 409_Y | 1.155 | 0.12 |
| 176_M | 535_L | 1.155 | 0.12 |
| 351_H | 391_L | 1.155 | 0.12 |
| 124_A | 131_C | 1.155 | 0.12 |
| 261_L | 369_L | 1.152 | 0.11 |
| 152_F | 157_F | 1.151 | 0.11 |
| 96_I | 425_Q | 1.147 | 0.11 |
| 112_P | 170_Y | 1.147 | 0.11 |
| 158_I | 244_L | 1.146 | 0.11 |
| 84_G | 368_V | 1.146 | 0.11 |
| 330_S | 333_S | 1.146 | 0.11 |
| 128_S | 371_G | 1.145 | 0.11 |
| 132_E | 371_G | 1.145 | 0.11 |
| 284_V | 413_Y | 1.144 | 0.11 |
| 24_V | 126_V | 1.144 | 0.11 |
| 144_G | 204_A | 1.140 | 0.11 |
| 170_Y | 508_K | 1.140 | 0.11 |
| 400_V | 562_K | 1.138 | 0.11 |
| 204_A | 553_W | 1.137 | 0.11 |
| 20_F | 508_K | 1.137 | 0.11 |
| 96_I | 375_I | 1.137 | 0.11 |
| 146_E | 190_L | 1.135 | 0.11 |
| 23_E | 390_V | 1.135 | 0.11 |
| 139_G | 211_E | 1.135 | 0.11 |
| 156_F | 211_E | 1.135 | 0.11 |
| 160_D | 211_E | 1.135 | 0.11 |
| 270_T | 287_E | 1.131 | 0.11 |
| 99_D | 406_S | 1.131 | 0.11 |
| 99_D | 244_L | 1.131 | 0.11 |
| 123_Q | 185_S | 1.130 | 0.11 |
| 138_E | 230_L | 1.129 | 0.11 |
| 263_K | 417_F | 1.127 | 0.11 |
| 190_L | 374_V | 1.127 | 0.11 |
| 241_L | 255_H | 1.126 | 0.11 |
| 124_A | 128_S | 1.125 | 0.11 |
| 124_A | 132_E | 1.125 | 0.11 |
| 19_L | 86_R | 1.125 | 0.11 |
| 143_F | 239_R | 1.123 | 0.11 |
| 140_P | 244_L | 1.123 | 0.11 |
| 183_I | 236_N | 1.122 | 0.11 |
| 112_P | 521_F | 1.120 | 0.11 |
| 305_E | 308_E | 1.118 | 0.11 |
| 141_I | 233_R | 1.117 | 0.11 |
| 146_E | 546_N | 1.117 | 0.11 |
| 205_L | 364_L | 1.115 | 0.11 |
| 110_Q | 130_S | 1.115 | 0.11 |
| 516_K | 556_G | 1.114 | 0.11 |
| 208_F | 535_L | 1.113 | 0.11 |
| 20_F | 86_R | 1.110 | 0.11 |
| 263_K | 519_F | 1.109 | 0.11 |
| 144_G | 241_L | 1.106 | 0.11 |
| 229_F | 250_L | 1.104 | 0.11 |
| 179_R | 251_W | 1.102 | 0.10 |
| 181_Y | 189_L | 1.100 | 0.10 |
| 84_G | 196_I | 1.099 | 0.10 |
| 140_P | 258_F | 1.099 | 0.10 |
| 188_F | 409_Y | 1.098 | 0.10 |
| 208_F | 365_A | 1.098 | 0.10 |
| 104_I | 166_F | 1.097 | 0.10 |
| 122_R | 406_S | 1.097 | 0.10 |
| 196_I | 516_K | 1.097 | 0.10 |
| 481_T | 531_D | 1.095 | 0.10 |
| 95_Y | 508_K | 1.094 | 0.10 |
| 149_G | 399_C | 1.093 | 0.10 |
| 176_M | 185_S | 1.091 | 0.10 |
| 130_S | 145_D | 1.091 | 0.10 |
| 172_I | 361_F | 1.091 | 0.10 |
| 115_P | 172_I | 1.090 | 0.10 |
| 519_F | 554_M | 1.090 | 0.10 |
| 63_P | 66_G | 1.089 | 0.10 |
| 244_L | 552_F | 1.088 | 0.10 |
| 112_P | 258_F | 1.087 | 0.10 |
| 154_H | 539_L | 1.084 | 0.10 |
| 122_R | 138_E | 1.084 | 0.10 |
| 139_G | 163_A | 1.083 | 0.10 |
| 156_F | 163_A | 1.083 | 0.10 |
| 160_D | 163_A | 1.083 | 0.10 |
| 417_F | 517_V | 1.081 | 0.10 |
| 183_I | 245_T | 1.078 | 0.10 |
| 365_A | 507_L | 1.077 | 0.10 |
| 136_G | 553_W | 1.076 | 0.10 |
| 366_W | 397_V | 1.075 | 0.10 |
| 26_H | 508_K | 1.073 | 0.10 |
| 554_M | 558_S | 1.073 | 0.10 |
| 182_L | 241_L | 1.072 | 0.10 |
| 143_F | 188_F | 1.071 | 0.10 |
| 23_E | 376_W | 1.070 | 0.10 |
| 466_V | 504_L | 1.068 | 0.10 |
| 221_R | 487_E | 1.067 | 0.10 |
| 145_D | 239_R | 1.067 | 0.10 |
| 356_L | 361_F | 1.065 | 0.10 |
| 2_N | 6_A | 1.065 | 0.10 |
| 172_I | 185_S | 1.064 | 0.10 |
| 148_H | 400_V | 1.061 | 0.10 |
| 133_V | 278_P | 1.061 | 0.10 |
| 197_I | 550_L | 1.061 | 0.10 |
| 116_Q | 504_L | 1.060 | 0.10 |
| 260_W | 409_Y | 1.060 | 0.10 |
| 215_C | 221_R | 1.059 | 0.10 |
| 146_E | 510_E | 1.058 | 0.10 |
| 23_E | 88_L | 1.056 | 0.10 |
| 184_N | 245_T | 1.055 | 0.10 |
| 417_F | 519_F | 1.053 | 0.10 |
| 295_E | 426_I | 1.051 | 0.10 |
| 390_V | 483_L | 1.049 | 0.10 |
| 438_I | 514_K | 1.048 | 0.09 |
| 151_V | 264_A | 1.047 | 0.09 |
| 233_R | 406_S | 1.047 | 0.09 |
| 123_Q | 263_K | 1.047 | 0.09 |
| 86_R | 93_P | 1.047 | 0.09 |
| 280_E | 287_E | 1.045 | 0.09 |
| 263_K | 269_L | 1.043 | 0.09 |
| 250_L | 376_W | 1.043 | 0.09 |
| 140_P | 211_E | 1.042 | 0.09 |
| 153_S | 161_S | 1.041 | 0.09 |
| 183_I | 250_L | 1.041 | 0.09 |
| 365_A | 512_M | 1.040 | 0.09 |
| 155_T | 271_E | 1.039 | 0.09 |
| 124_A | 553_W | 1.039 | 0.09 |
| 191_G | 408_Q | 1.039 | 0.09 |
| 134_C | 233_R | 1.038 | 0.09 |
| 576_E | 579_N | 1.038 | 0.09 |
| 201_Q | 271_E | 1.038 | 0.09 |
| 413_Y | 519_F | 1.038 | 0.09 |
| 99_D | 552_F | 1.037 | 0.09 |
| 141_I | 254_L | 1.037 | 0.09 |
| 186_W | 483_L | 1.036 | 0.09 |
| 139_G | 143_F | 1.036 | 0.09 |
| 143_F | 156_F | 1.036 | 0.09 |
| 143_F | 160_D | 1.036 | 0.09 |
| 183_I | 193_V | 1.034 | 0.09 |
| 515_V | 519_F | 1.034 | 0.09 |
| 184_N | 247_D | 1.034 | 0.09 |
| 22_T | 357_G | 1.033 | 0.09 |
| 124_A | 361_F | 1.033 | 0.09 |
| 170_Y | 258_F | 1.032 | 0.09 |
| 94_G | 110_Q | 1.031 | 0.09 |
| 527_R | 539_L | 1.031 | 0.09 |
| 211_E | 241_L | 1.030 | 0.09 |
| 261_L | 482_I | 1.029 | 0.09 |
| 101_E | 355_V | 1.028 | 0.09 |
| 404_P | 460_L | 1.027 | 0.09 |
| 278_P | 281_D | 1.026 | 0.09 |
| 531_D | 541_A | 1.024 | 0.09 |
| 515_V | 535_L | 1.024 | 0.09 |
| 166_F | 212_Q | 1.023 | 0.09 |
| 2_N | 254_L | 1.022 | 0.09 |
| 271_E | 516_K | 1.020 | 0.09 |
| 171_S | 239_R | 1.020 | 0.09 |
| 395_L | 400_V | 1.019 | 0.09 |
| 263_K | 268_R | 1.017 | 0.09 |
| 517_V | 541_A | 1.017 | 0.09 |
| 18_T | 84_G | 1.017 | 0.09 |
| 86_R | 364_L | 1.017 | 0.09 |
| 417_F | 541_A | 1.016 | 0.09 |
| 106_Y | 278_P | 1.016 | 0.09 |
| 93_P | 514_K | 1.015 | 0.09 |
| 135_P | 186_W | 1.014 | 0.09 |
| 273_L | 276_G | 1.013 | 0.09 |
| 371_G | 416_N | 1.013 | 0.09 |
| 138_E | 258_F | 1.013 | 0.09 |
| 168_R | 509_E | 1.009 | 0.09 |
| 145_D | 159_K | 1.009 | 0.09 |
| 162_L | 264_A | 1.009 | 0.09 |
| 112_P | 134_C | 1.008 | 0.09 |
| 22_T | 251_W | 1.006 | 0.09 |
| 131_C | 169_W | 1.006 | 0.09 |
| 23_E | 250_L | 1.005 | 0.09 |
| 126_V | 390_V | 1.005 | 0.09 |
| 173_I | 212_Q | 1.001 | 0.09 |
| 177_M | 274_L | 1.001 | 0.09 |
| 128_S | 373_Q | 1.001 | 0.09 |
| 132_E | 373_Q | 1.001 | 0.09 |
| 112_P | 244_L | 1.001 | 0.09 |
| 507_L | 556_G | 1.000 | 0.09 |
| 133_V | 245_T | 1.000 | 0.09 |
| 258_F | 372_N | 1.000 | 0.09 |
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 | |
| 3v42A | 2 | 0.3489 | 100 | 0.708 | Contact Map |
| 3r45C | 1 | 0.0829 | 12.9 | 0.988 | Contact Map |
| 2etsA | 1 | 0.0639 | 7.5 | 0.989 | Contact Map |
| 1wq6A | 2 | 0.1019 | 5.7 | 0.99 | Contact Map |
| 4ci2B | 1 | 0.0691 | 5.3 | 0.99 | Contact Map |
| 2p1hA | 1 | 0.1468 | 5.1 | 0.99 | Contact Map |
| 5amhA | 1 | 0 | 4.9 | 0.99 | Contact Map |
| 4ps2A | 1 | 0.1226 | 4.6 | 0.99 | Contact Map |
| 3mseB | 1 | 0.1675 | 3.8 | 0.991 | Contact Map |
| 2lnzA | 2 | 0.0656 | 3.7 | 0.991 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)