| lntPae |
| ID: | 1488194872 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 511 (501) | ||
| Sequences: | 4385 (3347.8) | ||
| Seq/Len: | 8.752 | ||
| Nf(neff/√len): | 149.6 |
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: 8.752).
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 |
| 166_G | 170_L | 6.821 | 1.00 |
| 445_L | 466_G | 4.842 | 1.00 |
| 447_D | 451_R | 4.801 | 1.00 |
| 456_I | 462_G | 4.355 | 1.00 |
| 420_L | 444_G | 4.219 | 1.00 |
| 318_I | 404_V | 3.756 | 1.00 |
| 160_A | 428_L | 3.613 | 1.00 |
| 430_S | 478_L | 3.592 | 1.00 |
| 232_G | 252_Y | 3.181 | 1.00 |
| 317_G | 329_L | 3.151 | 1.00 |
| 426_R | 429_E | 3.108 | 1.00 |
| 18_A | 41_L | 3.001 | 1.00 |
| 405_S | 438_T | 2.802 | 1.00 |
| 55_L | 104_A | 2.788 | 1.00 |
| 124_A | 128_A | 2.736 | 1.00 |
| 151_G | 168_V | 2.725 | 1.00 |
| 256_S | 267_W | 2.623 | 1.00 |
| 156_Q | 424_Q | 2.530 | 1.00 |
| 427_A | 434_M | 2.492 | 1.00 |
| 228_V | 262_V | 2.426 | 1.00 |
| 228_V | 465_R | 2.420 | 1.00 |
| 477_Y | 482_V | 2.336 | 1.00 |
| 69_G | 148_L | 2.241 | 1.00 |
| 433_W | 448_P | 2.200 | 1.00 |
| 251_L | 461_Q | 2.198 | 1.00 |
| 377_I | 400_V | 2.184 | 1.00 |
| 343_Q | 359_D | 2.176 | 1.00 |
| 33_P | 36_I | 2.124 | 1.00 |
| 229_A | 443_T | 2.106 | 1.00 |
| 290_A | 297_L | 2.098 | 1.00 |
| 476_P | 480_Y | 2.048 | 1.00 |
| 229_A | 437_A | 2.042 | 1.00 |
| 250_D | 254_D | 2.019 | 1.00 |
| 16_L | 60_W | 2.017 | 1.00 |
| 59_W | 97_A | 2.011 | 1.00 |
| 227_V | 435_I | 2.009 | 1.00 |
| 226_R | 467_E | 2.001 | 1.00 |
| 163_V | 425_M | 1.972 | 1.00 |
| 12_H | 60_W | 1.957 | 1.00 |
| 433_W | 469_I | 1.940 | 1.00 |
| 154_Q | 175_I | 1.928 | 1.00 |
| 164_P | 431_G | 1.926 | 1.00 |
| 303_V | 329_L | 1.921 | 1.00 |
| 401_L | 434_M | 1.918 | 1.00 |
| 23_P | 68_A | 1.902 | 1.00 |
| 380_Y | 391_A | 1.894 | 1.00 |
| 162_L | 174_V | 1.885 | 1.00 |
| 58_G | 62_G | 1.883 | 1.00 |
| 431_G | 475_T | 1.872 | 1.00 |
| 434_M | 446_I | 1.844 | 1.00 |
| 302_P | 360_F | 1.843 | 1.00 |
| 164_P | 428_L | 1.835 | 1.00 |
| 392_A | 481_R | 1.831 | 1.00 |
| 246_R | 250_D | 1.813 | 1.00 |
| 447_D | 453_V | 1.775 | 1.00 |
| 164_P | 208_A | 1.758 | 1.00 |
| 58_G | 104_A | 1.743 | 1.00 |
| 132_L | 173_F | 1.743 | 1.00 |
| 400_V | 468_V | 1.742 | 1.00 |
| 22_T | 38_S | 1.727 | 1.00 |
| 136_L | 140_W | 1.724 | 1.00 |
| 233_N | 461_Q | 1.706 | 1.00 |
| 152_Y | 425_M | 1.703 | 1.00 |
| 318_I | 379_P | 1.703 | 1.00 |
| 44_L | 183_V | 1.693 | 1.00 |
| 417_L | 442_V | 1.666 | 1.00 |
| 15_A | 19_G | 1.662 | 1.00 |
| 347_R | 354_D | 1.659 | 1.00 |
| 35_A | 154_Q | 1.652 | 1.00 |
| 407_D | 419_H | 1.649 | 1.00 |
| 58_G | 107_A | 1.648 | 1.00 |
| 378_A | 401_L | 1.643 | 1.00 |
| 163_V | 171_S | 1.633 | 1.00 |
| 25_A | 35_A | 1.626 | 1.00 |
| 108_W | 112_R | 1.621 | 1.00 |
| 317_G | 327_T | 1.605 | 1.00 |
| 24_L | 29_F | 1.603 | 1.00 |
| 228_V | 463_I | 1.601 | 1.00 |
| 112_R | 115_R | 1.595 | 1.00 |
| 110_W | 127_F | 1.591 | 1.00 |
| 229_A | 435_I | 1.588 | 1.00 |
| 128_A | 177_L | 1.582 | 1.00 |
| 76_S | 410_F | 1.581 | 1.00 |
| 298_I | 320_V | 1.575 | 1.00 |
| 420_L | 452_I | 1.567 | 1.00 |
| 256_S | 265_I | 1.558 | 1.00 |
| 137_F | 141_F | 1.556 | 1.00 |
| 63_F | 100_A | 1.553 | 1.00 |
| 15_A | 45_G | 1.538 | 1.00 |
| 36_I | 179_A | 1.525 | 1.00 |
| 152_Y | 422_M | 1.523 | 1.00 |
| 376_Q | 399_Q | 1.519 | 1.00 |
| 385_V | 434_M | 1.515 | 1.00 |
| 75_V | 413_S | 1.514 | 1.00 |
| 70_T | 145_F | 1.512 | 1.00 |
| 443_T | 456_I | 1.512 | 1.00 |
| 54_A | 107_A | 1.511 | 1.00 |
| 378_A | 398_S | 1.502 | 1.00 |
| 208_A | 212_L | 1.464 | 1.00 |
| 165_V | 476_P | 1.458 | 0.99 |
| 262_V | 465_R | 1.446 | 0.99 |
| 350_I | 353_F | 1.442 | 0.99 |
| 63_F | 67_G | 1.430 | 0.99 |
| 423_A | 434_M | 1.427 | 0.99 |
| 15_A | 57_R | 1.417 | 0.99 |
| 266_V | 402_L | 1.407 | 0.99 |
| 454_R | 464_L | 1.404 | 0.99 |
| 385_V | 403_T | 1.399 | 0.99 |
| 46_L | 107_A | 1.395 | 0.99 |
| 342_L | 346_L | 1.392 | 0.99 |
| 60_W | 64_G | 1.384 | 0.99 |
| 35_A | 153_S | 1.382 | 0.99 |
| 375_Y | 399_Q | 1.370 | 0.99 |
| 66_F | 138_R | 1.363 | 0.99 |
| 36_I | 154_Q | 1.360 | 0.99 |
| 474_L | 479_Q | 1.355 | 0.99 |
| 38_S | 61_Y | 1.351 | 0.99 |
| 41_L | 179_A | 1.345 | 0.99 |
| 209_G | 213_K | 1.341 | 0.99 |
| 67_G | 96_T | 1.341 | 0.99 |
| 411_G | 459_F | 1.331 | 0.99 |
| 454_R | 466_G | 1.328 | 0.99 |
| 343_Q | 347_R | 1.326 | 0.99 |
| 298_I | 402_L | 1.324 | 0.99 |
| 40_A | 179_A | 1.318 | 0.99 |
| 399_Q | 470_P | 1.316 | 0.99 |
| 303_V | 317_G | 1.306 | 0.99 |
| 224_P | 467_E | 1.301 | 0.99 |
| 407_D | 436_R | 1.300 | 0.99 |
| 135_E | 172_S | 1.295 | 0.99 |
| 11_G | 57_R | 1.286 | 0.98 |
| 452_I | 455_Q | 1.281 | 0.98 |
| 54_A | 111_A | 1.275 | 0.98 |
| 95_F | 99_V | 1.273 | 0.98 |
| 371_K | 376_Q | 1.268 | 0.98 |
| 33_P | 37_L | 1.259 | 0.98 |
| 26_L | 65_A | 1.258 | 0.98 |
| 99_V | 103_F | 1.250 | 0.98 |
| 12_H | 56_W | 1.250 | 0.98 |
| 92_M | 95_F | 1.249 | 0.98 |
| 433_W | 468_V | 1.242 | 0.98 |
| 183_V | 187_R | 1.240 | 0.98 |
| 19_G | 64_G | 1.236 | 0.98 |
| 102_F | 106_P | 1.235 | 0.98 |
| 371_K | 374_G | 1.231 | 0.98 |
| 420_L | 446_I | 1.231 | 0.98 |
| 31_Y | 34_L | 1.228 | 0.98 |
| 332_K | 390_F | 1.227 | 0.98 |
| 154_Q | 171_S | 1.221 | 0.98 |
| 345_L | 349_L | 1.221 | 0.98 |
| 51_G | 108_W | 1.220 | 0.98 |
| 22_T | 61_Y | 1.217 | 0.98 |
| 301_V | 319_T | 1.212 | 0.97 |
| 42_L | 107_A | 1.210 | 0.97 |
| 71_S | 414_I | 1.210 | 0.97 |
| 111_A | 115_R | 1.208 | 0.97 |
| 244_Q | 248_Q | 1.206 | 0.97 |
| 474_L | 478_L | 1.204 | 0.97 |
| 435_I | 468_V | 1.200 | 0.97 |
| 248_Q | 252_Y | 1.195 | 0.97 |
| 244_Q | 247_A | 1.192 | 0.97 |
| 161_G | 164_P | 1.192 | 0.97 |
| 248_Q | 251_L | 1.188 | 0.97 |
| 95_F | 102_F | 1.185 | 0.97 |
| 45_G | 57_R | 1.178 | 0.97 |
| 315_F | 329_L | 1.177 | 0.97 |
| 318_I | 381_I | 1.177 | 0.97 |
| 132_L | 172_S | 1.175 | 0.97 |
| 252_Y | 271_A | 1.171 | 0.97 |
| 29_F | 414_I | 1.168 | 0.97 |
| 445_L | 468_V | 1.162 | 0.97 |
| 229_A | 464_L | 1.157 | 0.96 |
| 160_A | 425_M | 1.152 | 0.96 |
| 229_A | 445_L | 1.150 | 0.96 |
| 43_Y | 180_A | 1.150 | 0.96 |
| 98_G | 102_F | 1.150 | 0.96 |
| 54_A | 58_G | 1.147 | 0.96 |
| 128_A | 173_F | 1.143 | 0.96 |
| 287_G | 291_D | 1.139 | 0.96 |
| 43_Y | 127_F | 1.133 | 0.96 |
| 239_K | 270_T | 1.128 | 0.96 |
| 16_L | 64_G | 1.127 | 0.96 |
| 44_L | 186_P | 1.127 | 0.96 |
| 416_P | 458_Q | 1.115 | 0.95 |
| 227_V | 400_V | 1.111 | 0.95 |
| 226_R | 465_R | 1.111 | 0.95 |
| 270_T | 302_P | 1.110 | 0.95 |
| 264_L | 298_I | 1.109 | 0.95 |
| 101_F | 105_L | 1.107 | 0.95 |
| 91_L | 95_F | 1.104 | 0.95 |
| 233_N | 440_N | 1.100 | 0.95 |
| 22_T | 150_A | 1.099 | 0.95 |
| 490_G | 494_L | 1.094 | 0.95 |
| 18_A | 45_G | 1.090 | 0.95 |
| 67_G | 93_L | 1.090 | 0.95 |
| 448_P | 471_M | 1.088 | 0.94 |
| 502_L | 505_Q | 1.088 | 0.94 |
| 133_A | 489_A | 1.087 | 0.94 |
| 238_L | 241_D | 1.085 | 0.94 |
| 296_A | 320_V | 1.084 | 0.94 |
| 98_G | 101_F | 1.084 | 0.94 |
| 128_A | 180_A | 1.080 | 0.94 |
| 150_A | 176_A | 1.079 | 0.94 |
| 20_A | 24_L | 1.077 | 0.94 |
| 201_L | 205_P | 1.074 | 0.94 |
| 255_L | 463_I | 1.072 | 0.94 |
| 98_G | 103_F | 1.070 | 0.94 |
| 230_I | 267_W | 1.063 | 0.94 |
| 130_L | 492_L | 1.062 | 0.93 |
| 251_L | 255_L | 1.062 | 0.93 |
| 166_G | 174_V | 1.061 | 0.93 |
| 446_I | 452_I | 1.061 | 0.93 |
| 161_G | 212_L | 1.061 | 0.93 |
| 208_A | 213_K | 1.053 | 0.93 |
| 161_G | 428_L | 1.051 | 0.93 |
| 303_V | 327_T | 1.048 | 0.93 |
| 252_Y | 256_S | 1.047 | 0.93 |
| 400_V | 435_I | 1.047 | 0.93 |
| 49_L | 53_S | 1.045 | 0.93 |
| 238_L | 244_Q | 1.042 | 0.93 |
| 41_L | 45_G | 1.040 | 0.93 |
| 236_Q | 239_K | 1.039 | 0.92 |
| 53_S | 56_W | 1.039 | 0.92 |
| 111_A | 114_L | 1.036 | 0.92 |
| 270_T | 439_N | 1.035 | 0.92 |
| 99_V | 102_F | 1.035 | 0.92 |
| 417_L | 458_Q | 1.033 | 0.92 |
| 315_F | 361_A | 1.030 | 0.92 |
| 501_Q | 504_P | 1.029 | 0.92 |
| 106_P | 134_L | 1.028 | 0.92 |
| 52_K | 56_W | 1.027 | 0.92 |
| 165_V | 208_A | 1.024 | 0.92 |
| 129_A | 489_A | 1.022 | 0.92 |
| 78_H | 88_A | 1.022 | 0.92 |
| 224_P | 469_I | 1.022 | 0.92 |
| 501_Q | 505_Q | 1.021 | 0.92 |
| 147_W | 418_Q | 1.017 | 0.91 |
| 305_E | 315_F | 1.015 | 0.91 |
| 209_G | 212_L | 1.014 | 0.91 |
| 53_S | 57_R | 1.014 | 0.91 |
| 128_A | 176_A | 1.013 | 0.91 |
| 421_Q | 424_Q | 1.009 | 0.91 |
| 303_V | 315_F | 1.009 | 0.91 |
| 106_P | 110_W | 1.003 | 0.91 |
| 125_L | 177_L | 1.003 | 0.91 |
| 133_A | 137_F | 1.002 | 0.91 |
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 | |
| 1uf5A | 2 | 0.5068 | 100 | 0.656 | Contact Map |
| 2w1vA | 2 | 0.4834 | 100 | 0.684 | Contact Map |
| 3p8kA | 2 | 0.4775 | 100 | 0.687 | Contact Map |
| 4f4hA | 2 | 0.5108 | 100 | 0.69 | Contact Map |
| 1f89A | 2 | 0.4736 | 100 | 0.691 | Contact Map |
| 2e11A | 4 | 0.4618 | 100 | 0.692 | Contact Map |
| 3ivzA | 2 | 0.4521 | 100 | 0.692 | Contact Map |
| 4izuA | 1 | 0.4462 | 100 | 0.693 | Contact Map |
| 1emsA | 2 | 0.5205 | 100 | 0.697 | Contact Map |
| 4lf0A | 1 | 0.5323 | 100 | 0.699 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)