| FliFst |
| ID: | 1572969959 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 560 (539) | ||
| Sequences: | 2760 (2120.9) | ||
| Seq/Len: | 5.121 | ||
| Nf(neff/√len): | 91.4 |
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: 5.121).
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 |
| 261_N | 392_N | 5.826 | 1.00 |
| 301_S | 359_Q | 3.690 | 1.00 |
| 280_E | 370_R | 3.628 | 1.00 |
| 406_A | 410_K | 3.378 | 1.00 |
| 268_A | 385_L | 3.323 | 1.00 |
| 75_I | 96_L | 3.296 | 1.00 |
| 195_V | 212_L | 3.240 | 1.00 |
| 269_Q | 383_E | 3.212 | 1.00 |
| 92_K | 95_E | 3.082 | 1.00 |
| 271_D | 383_E | 2.946 | 1.00 |
| 214_D | 218_H | 2.935 | 1.00 |
| 51_Y | 78_R | 2.930 | 1.00 |
| 295_S | 365_N | 2.882 | 1.00 |
| 294_R | 367_E | 2.786 | 1.00 |
| 145_E | 153_A | 2.664 | 1.00 |
| 151_K | 181_E | 2.649 | 1.00 |
| 473_W | 477_R | 2.577 | 1.00 |
| 151_K | 179_T | 2.494 | 1.00 |
| 413_E | 417_R | 2.419 | 1.00 |
| 299_N | 361_N | 2.398 | 1.00 |
| 296_R | 364_S | 2.346 | 1.00 |
| 145_E | 152_S | 2.334 | 1.00 |
| 462_A | 466_L | 2.325 | 1.00 |
| 298_L | 362_E | 2.304 | 1.00 |
| 410_K | 413_E | 2.279 | 1.00 |
| 117_D | 134_R | 2.224 | 1.00 |
| 276_E | 374_H | 2.213 | 1.00 |
| 387_V | 420_M | 2.193 | 1.00 |
| 297_Q | 363_T | 2.174 | 1.00 |
| 412_I | 432_V | 2.139 | 1.00 |
| 274_N | 376_K | 2.115 | 1.00 |
| 283_S | 369_D | 2.090 | 1.00 |
| 50_D | 90_A | 2.090 | 1.00 |
| 477_R | 481_R | 2.090 | 1.00 |
| 234_Q | 272_F | 2.035 | 1.00 |
| 474_I | 478_K | 2.025 | 1.00 |
| 316_L | 320_P | 2.019 | 1.00 |
| 69_Q | 72_Q | 2.011 | 1.00 |
| 171_S | 209_N | 2.009 | 1.00 |
| 417_R | 422_F | 1.990 | 1.00 |
| 478_K | 482_P | 1.957 | 1.00 |
| 14_L | 18_N | 1.924 | 1.00 |
| 315_A | 319_Q | 1.901 | 1.00 |
| 294_R | 368_V | 1.890 | 1.00 |
| 40_V | 44_L | 1.890 | 1.00 |
| 278_T | 372_I | 1.880 | 1.00 |
| 458_Q | 462_A | 1.870 | 1.00 |
| 250_E | 254_S | 1.860 | 1.00 |
| 143_T | 177_T | 1.856 | 1.00 |
| 405_T | 408_Q | 1.856 | 1.00 |
| 404_L | 408_Q | 1.845 | 1.00 |
| 538_E | 542_N | 1.833 | 1.00 |
| 472_A | 476_W | 1.831 | 1.00 |
| 241_V | 270_L | 1.811 | 1.00 |
| 315_A | 321_A | 1.794 | 1.00 |
| 180_L | 186_L | 1.773 | 1.00 |
| 273_A | 378_N | 1.766 | 1.00 |
| 176_V | 198_V | 1.749 | 1.00 |
| 21_R | 24_P | 1.747 | 1.00 |
| 396_L | 402_L | 1.741 | 1.00 |
| 173_S | 209_N | 1.736 | 1.00 |
| 26_I | 30_V | 1.735 | 1.00 |
| 172_P | 205_L | 1.734 | 1.00 |
| 315_A | 320_P | 1.723 | 1.00 |
| 69_Q | 103_Q | 1.710 | 1.00 |
| 293_L | 364_S | 1.698 | 1.00 |
| 463_G | 467_L | 1.693 | 1.00 |
| 300_I | 360_R | 1.676 | 0.99 |
| 73_M | 99_R | 1.674 | 0.99 |
| 303_Q | 357_S | 1.671 | 0.99 |
| 80_A | 87_E | 1.657 | 0.99 |
| 112_G | 138_G | 1.646 | 0.99 |
| 134_R | 138_G | 1.644 | 0.99 |
| 88_V | 96_L | 1.643 | 0.99 |
| 316_L | 319_Q | 1.640 | 0.99 |
| 33_S | 37_A | 1.633 | 0.99 |
| 71_T | 95_E | 1.622 | 0.99 |
| 477_R | 482_P | 1.617 | 0.99 |
| 114_E | 142_R | 1.617 | 0.99 |
| 389_V | 416_T | 1.553 | 0.99 |
| 206_P | 209_N | 1.548 | 0.99 |
| 455_F | 459_L | 1.545 | 0.99 |
| 171_S | 206_P | 1.540 | 0.99 |
| 302_E | 358_T | 1.534 | 0.99 |
| 391_V | 412_I | 1.534 | 0.99 |
| 394_K | 408_Q | 1.531 | 0.99 |
| 106_P | 196_H | 1.505 | 0.99 |
| 254_S | 262_V | 1.505 | 0.99 |
| 114_E | 138_G | 1.500 | 0.99 |
| 465_W | 469_L | 1.483 | 0.98 |
| 292_T | 368_V | 1.482 | 0.98 |
| 69_Q | 73_M | 1.481 | 0.98 |
| 254_S | 260_G | 1.477 | 0.98 |
| 478_K | 481_R | 1.471 | 0.98 |
| 152_S | 179_T | 1.471 | 0.98 |
| 464_R | 482_P | 1.464 | 0.98 |
| 459_L | 463_G | 1.456 | 0.98 |
| 417_R | 430_L | 1.456 | 0.98 |
| 243_S | 247_R | 1.455 | 0.98 |
| 159_M | 172_P | 1.455 | 0.98 |
| 461_A | 465_W | 1.448 | 0.98 |
| 253_L | 257_V | 1.442 | 0.98 |
| 80_A | 83_S | 1.441 | 0.98 |
| 238_A | 270_L | 1.437 | 0.98 |
| 314_G | 320_P | 1.434 | 0.98 |
| 237_F | 270_L | 1.433 | 0.98 |
| 73_M | 96_L | 1.431 | 0.98 |
| 460_L | 478_K | 1.423 | 0.98 |
| 477_R | 485_T | 1.418 | 0.98 |
| 71_T | 77_Y | 1.415 | 0.98 |
| 100_L | 106_P | 1.404 | 0.98 |
| 410_K | 414_D | 1.398 | 0.97 |
| 294_R | 365_N | 1.397 | 0.97 |
| 95_E | 99_R | 1.394 | 0.97 |
| 241_V | 268_A | 1.394 | 0.97 |
| 68_A | 71_T | 1.391 | 0.97 |
| 200_S | 211_T | 1.390 | 0.97 |
| 22_A | 25_R | 1.385 | 0.97 |
| 11_P | 15_E | 1.384 | 0.97 |
| 150_V | 180_L | 1.376 | 0.97 |
| 316_L | 321_A | 1.375 | 0.97 |
| 10_Q | 14_L | 1.373 | 0.97 |
| 480_V | 484_L | 1.367 | 0.97 |
| 456_I | 459_L | 1.367 | 0.97 |
| 422_F | 430_L | 1.360 | 0.97 |
| 250_E | 262_V | 1.353 | 0.97 |
| 244_R | 248_R | 1.345 | 0.97 |
| 279_E | 371_T | 1.331 | 0.96 |
| 243_S | 246_Q | 1.331 | 0.96 |
| 115_L | 134_R | 1.328 | 0.96 |
| 466_L | 470_V | 1.322 | 0.96 |
| 62_D | 65_A | 1.318 | 0.96 |
| 464_R | 468_V | 1.313 | 0.96 |
| 475_L | 478_K | 1.308 | 0.96 |
| 314_G | 317_S | 1.307 | 0.96 |
| 53_T | 85_A | 1.305 | 0.96 |
| 418_E | 429_T | 1.303 | 0.96 |
| 502_Q | 505_E | 1.302 | 0.96 |
| 238_A | 242_E | 1.301 | 0.96 |
| 397_A | 401_P | 1.301 | 0.96 |
| 398_D | 401_P | 1.294 | 0.96 |
| 313_P | 317_S | 1.289 | 0.95 |
| 293_L | 296_R | 1.281 | 0.95 |
| 44_L | 48_T | 1.267 | 0.95 |
| 76_P | 89_P | 1.265 | 0.95 |
| 278_T | 374_H | 1.261 | 0.95 |
| 241_V | 245_I | 1.251 | 0.94 |
| 33_S | 40_V | 1.251 | 0.94 |
| 311_G | 314_G | 1.249 | 0.94 |
| 53_T | 87_E | 1.248 | 0.94 |
| 465_W | 472_A | 1.248 | 0.94 |
| 97_R | 154_R | 1.245 | 0.94 |
| 46_A | 49_P | 1.243 | 0.94 |
| 53_T | 56_S | 1.239 | 0.94 |
| 447_L | 451_Q | 1.238 | 0.94 |
| 295_S | 367_E | 1.232 | 0.94 |
| 89_P | 96_L | 1.228 | 0.94 |
| 58_L | 66_I | 1.227 | 0.94 |
| 276_E | 376_K | 1.226 | 0.93 |
| 275_K | 377_M | 1.222 | 0.93 |
| 273_A | 377_M | 1.217 | 0.93 |
| 462_A | 470_V | 1.215 | 0.93 |
| 314_G | 321_A | 1.213 | 0.93 |
| 460_L | 464_R | 1.210 | 0.93 |
| 41_A | 45_W | 1.209 | 0.93 |
| 66_I | 86_I | 1.208 | 0.93 |
| 462_A | 469_L | 1.201 | 0.93 |
| 279_E | 373_R | 1.193 | 0.92 |
| 280_E | 372_I | 1.192 | 0.92 |
| 504_T | 507_A | 1.192 | 0.92 |
| 68_A | 72_Q | 1.187 | 0.92 |
| 482_P | 488_V | 1.184 | 0.92 |
| 17_L | 29_I | 1.180 | 0.92 |
| 133_Q | 137_E | 1.179 | 0.92 |
| 67_V | 77_Y | 1.179 | 0.92 |
| 277_Q | 377_M | 1.179 | 0.92 |
| 149_P | 181_E | 1.175 | 0.91 |
| 236_K | 240_D | 1.175 | 0.91 |
| 27_P | 31_A | 1.167 | 0.91 |
| 313_P | 320_P | 1.165 | 0.91 |
| 59_S | 62_D | 1.164 | 0.91 |
| 143_T | 156_H | 1.161 | 0.91 |
| 296_R | 362_E | 1.160 | 0.91 |
| 54_L | 96_L | 1.159 | 0.91 |
| 52_R | 90_A | 1.158 | 0.91 |
| 115_L | 138_G | 1.158 | 0.91 |
| 114_E | 134_R | 1.154 | 0.90 |
| 493_A | 497_Q | 1.154 | 0.90 |
| 78_R | 87_E | 1.150 | 0.90 |
| 480_V | 483_Q | 1.150 | 0.90 |
| 282_Y | 294_R | 1.149 | 0.90 |
| 81_N | 85_A | 1.137 | 0.90 |
| 141_A | 153_A | 1.135 | 0.90 |
| 275_K | 373_R | 1.130 | 0.89 |
| 299_N | 359_Q | 1.128 | 0.89 |
| 42_M | 46_A | 1.127 | 0.89 |
| 117_D | 138_G | 1.122 | 0.89 |
| 22_A | 26_I | 1.121 | 0.89 |
| 463_G | 466_L | 1.116 | 0.88 |
| 116_L | 135_A | 1.115 | 0.88 |
| 275_K | 375_T | 1.113 | 0.88 |
| 113_F | 132_Y | 1.111 | 0.88 |
| 71_T | 74_N | 1.109 | 0.88 |
| 16_W | 19_R | 1.106 | 0.88 |
| 384_R | 423_S | 1.106 | 0.88 |
| 112_G | 139_E | 1.103 | 0.88 |
| 39_V | 43_V | 1.096 | 0.87 |
| 305_G | 355_P | 1.091 | 0.87 |
| 140_L | 144_I | 1.089 | 0.87 |
| 458_Q | 465_W | 1.087 | 0.87 |
| 461_A | 464_R | 1.087 | 0.87 |
| 131_N | 134_R | 1.087 | 0.87 |
| 543_D | 546_V | 1.083 | 0.86 |
| 15_E | 18_N | 1.080 | 0.86 |
| 501_R | 505_E | 1.080 | 0.86 |
| 61_Q | 65_A | 1.076 | 0.86 |
| 418_E | 431_N | 1.074 | 0.86 |
| 130_V | 134_R | 1.072 | 0.86 |
| 500_V | 504_T | 1.069 | 0.85 |
| 114_E | 139_E | 1.068 | 0.85 |
| 247_R | 251_A | 1.068 | 0.85 |
| 407_D | 411_Q | 1.064 | 0.85 |
| 507_A | 510_V | 1.058 | 0.85 |
| 56_S | 85_A | 1.054 | 0.84 |
| 256_I | 390_V | 1.053 | 0.84 |
| 105_L | 196_H | 1.051 | 0.84 |
| 112_G | 115_L | 1.050 | 0.84 |
| 423_S | 426_R | 1.050 | 0.84 |
| 408_Q | 411_Q | 1.048 | 0.84 |
| 510_V | 514_K | 1.047 | 0.84 |
| 113_F | 139_E | 1.043 | 0.83 |
| 55_F | 197_L | 1.043 | 0.83 |
| 245_I | 420_M | 1.041 | 0.83 |
| 250_E | 264_A | 1.041 | 0.83 |
| 269_Q | 384_R | 1.040 | 0.83 |
| 94_H | 143_T | 1.038 | 0.83 |
| 298_L | 364_S | 1.028 | 0.82 |
| 241_V | 382_I | 1.025 | 0.82 |
| 464_R | 477_R | 1.024 | 0.82 |
| 136_L | 140_L | 1.021 | 0.82 |
| 229_D | 232_D | 1.019 | 0.81 |
| 112_G | 134_R | 1.019 | 0.81 |
| 476_W | 480_V | 1.016 | 0.81 |
| 416_T | 430_L | 1.014 | 0.81 |
| 187_D | 190_Q | 1.012 | 0.81 |
| 186_L | 214_D | 1.012 | 0.81 |
| 67_V | 71_T | 1.012 | 0.81 |
| 470_V | 474_I | 1.009 | 0.81 |
| 499_Q | 503_E | 1.006 | 0.80 |
| 301_S | 357_S | 1.005 | 0.80 |
| 464_R | 471_V | 1.005 | 0.80 |
| 281_H | 373_R | 1.004 | 0.80 |
| 186_L | 190_Q | 1.004 | 0.80 |
| 277_Q | 371_T | 1.004 | 0.80 |
| 126_F | 131_N | 1.003 | 0.80 |
| 193_A | 219_L | 1.003 | 0.80 |
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 | |
| 3j6da | 24 | 0.2589 | 100 | 0.626 | Contact Map |
| 2y9jY | 24 | 0.2946 | 100 | 0.637 | Contact Map |
| 1yj7A | 4 | 0.2768 | 100 | 0.643 | Contact Map |
| 4oycA | 2 | 0.1607 | 100 | 0.758 | Contact Map |
| 4w4mA | 14 | 0.1089 | 99.7 | 0.864 | Contact Map |
| 2hfvA | 1 | 0.1518 | 73.6 | 0.968 | Contact Map |
| 3j6dA | 24 | 0.3089 | 66.7 | 0.97 | Contact Map |
| 2kncA | 1 | 0.0875 | 63.7 | 0.971 | Contact Map |
| 3hd7A | 2 | 0.1446 | 58.4 | 0.971 | Contact Map |
| 4hddA | 1 | 0.1143 | 45.4 | 0.974 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)