| BuA3 |
| ID: | 1515265656 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 793 (749) | ||
| Sequences: | 1717 (1239.7) | ||
| Seq/Len: | 2.292 | ||
| Nf(neff/√len): | 45.3 |
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: 2.292).
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 |
| 635_V | 668_I | 4.960 | 1.00 |
| 632_E | 639_S | 4.620 | 1.00 |
| 101_V | 143_I | 4.620 | 1.00 |
| 339_F | 553_L | 4.349 | 1.00 |
| 326_R | 357_E | 3.976 | 1.00 |
| 249_L | 284_F | 3.879 | 1.00 |
| 634_F | 639_S | 3.823 | 1.00 |
| 11_T | 172_Y | 3.791 | 1.00 |
| 44_Q | 55_E | 3.610 | 1.00 |
| 93_A | 169_L | 3.589 | 1.00 |
| 635_V | 640_Q | 3.569 | 1.00 |
| 98_E | 105_R | 3.564 | 1.00 |
| 10_L | 75_L | 3.523 | 1.00 |
| 631_V | 670_A | 3.458 | 1.00 |
| 478_T | 546_M | 3.432 | 1.00 |
| 256_S | 300_E | 3.252 | 1.00 |
| 270_I | 275_T | 3.242 | 1.00 |
| 604_I | 624_V | 3.023 | 1.00 |
| 101_V | 106_I | 2.954 | 1.00 |
| 74_M | 140_K | 2.934 | 1.00 |
| 731_I | 778_D | 2.917 | 1.00 |
| 107_A | 118_A | 2.916 | 1.00 |
| 293_G | 296_Y | 2.886 | 1.00 |
| 221_S | 268_E | 2.827 | 1.00 |
| 224_V | 282_F | 2.780 | 1.00 |
| 281_H | 357_E | 2.774 | 1.00 |
| 181_V | 218_K | 2.741 | 1.00 |
| 227_P | 261_A | 2.704 | 1.00 |
| 225_F | 266_V | 2.696 | 1.00 |
| 630_E | 642_R | 2.657 | 1.00 |
| 628_C | 672_G | 2.631 | 1.00 |
| 268_E | 277_R | 2.568 | 1.00 |
| 265_C | 282_F | 2.543 | 1.00 |
| 84_G | 179_P | 2.530 | 1.00 |
| 329_M | 360_L | 2.491 | 1.00 |
| 222_L | 267_A | 2.484 | 1.00 |
| 10_L | 73_T | 2.468 | 1.00 |
| 223_R | 268_E | 2.438 | 1.00 |
| 391_E | 436_L | 2.419 | 1.00 |
| 323_E | 708_E | 2.397 | 1.00 |
| 593_Q | 601_M | 2.372 | 1.00 |
| 93_A | 147_C | 2.325 | 1.00 |
| 741_L | 763_I | 2.322 | 1.00 |
| 106_I | 123_A | 2.318 | 1.00 |
| 642_R | 673_Y | 2.307 | 1.00 |
| 332_I | 579_V | 2.288 | 1.00 |
| 90_F | 145_I | 2.283 | 1.00 |
| 86_T | 177_Y | 2.244 | 1.00 |
| 267_A | 280_Q | 2.242 | 1.00 |
| 712_V | 776_A | 2.212 | 1.00 |
| 253_Q | 259_S | 2.203 | 1.00 |
| 390_I | 433_A | 2.197 | 1.00 |
| 258_H | 300_E | 2.176 | 1.00 |
| 629_P | 674_D | 2.163 | 1.00 |
| 15_E | 30_P | 2.158 | 1.00 |
| 183_F | 205_I | 2.156 | 1.00 |
| 15_E | 45_K | 2.135 | 1.00 |
| 716_L | 756_A | 2.124 | 1.00 |
| 253_Q | 261_A | 2.094 | 1.00 |
| 98_E | 108_S | 2.088 | 1.00 |
| 622_I | 668_I | 2.069 | 0.99 |
| 638_V | 662_R | 2.068 | 0.99 |
| 70_W | 144_A | 2.050 | 0.99 |
| 634_F | 671_T | 2.045 | 0.99 |
| 430_H | 434_H | 2.045 | 0.99 |
| 740_A | 766_N | 2.042 | 0.99 |
| 739_E | 765_V | 2.014 | 0.99 |
| 7_K | 174_N | 2.008 | 0.99 |
| 221_S | 270_I | 1.978 | 0.99 |
| 626_S | 655_L | 1.968 | 0.99 |
| 323_E | 330_Q | 1.965 | 0.99 |
| 640_Q | 668_I | 1.943 | 0.99 |
| 86_T | 124_V | 1.936 | 0.99 |
| 110_V | 381_Q | 1.934 | 0.99 |
| 677_L | 684_Q | 1.918 | 0.99 |
| 85_R | 119_D | 1.915 | 0.99 |
| 264_T | 279_T | 1.907 | 0.99 |
| 266_V | 277_R | 1.903 | 0.99 |
| 739_E | 773_V | 1.896 | 0.99 |
| 53_N | 167_G | 1.883 | 0.99 |
| 101_V | 120_I | 1.876 | 0.99 |
| 763_I | 776_A | 1.872 | 0.99 |
| 77_I | 124_V | 1.865 | 0.99 |
| 257_P | 361_L | 1.863 | 0.99 |
| 688_Q | 722_I | 1.857 | 0.99 |
| 100_Y | 105_R | 1.855 | 0.99 |
| 72_R | 144_A | 1.854 | 0.99 |
| 632_E | 642_R | 1.848 | 0.99 |
| 76_N | 140_K | 1.846 | 0.98 |
| 714_A | 733_F | 1.833 | 0.98 |
| 383_R | 428_E | 1.832 | 0.98 |
| 184_E | 208_G | 1.830 | 0.98 |
| 88_L | 120_I | 1.828 | 0.98 |
| 387_T | 436_L | 1.823 | 0.98 |
| 102_Y | 141_I | 1.813 | 0.98 |
| 183_F | 269_L | 1.796 | 0.98 |
| 667_K | 688_Q | 1.792 | 0.98 |
| 106_I | 118_A | 1.792 | 0.98 |
| 222_L | 245_Y | 1.779 | 0.98 |
| 734_G | 777_S | 1.777 | 0.98 |
| 332_I | 337_A | 1.776 | 0.98 |
| 311_E | 318_A | 1.759 | 0.98 |
| 361_L | 400_I | 1.754 | 0.98 |
| 222_L | 265_C | 1.747 | 0.98 |
| 699_L | 715_E | 1.738 | 0.98 |
| 632_E | 641_G | 1.735 | 0.97 |
| 83_N | 180_A | 1.733 | 0.97 |
| 697_R | 715_E | 1.731 | 0.97 |
| 430_H | 442_T | 1.731 | 0.97 |
| 331_Q | 579_V | 1.729 | 0.97 |
| 593_Q | 599_K | 1.720 | 0.97 |
| 181_V | 209_G | 1.716 | 0.97 |
| 387_T | 435_R | 1.711 | 0.97 |
| 626_S | 631_V | 1.700 | 0.97 |
| 704_A | 708_E | 1.687 | 0.97 |
| 777_S | 787_L | 1.686 | 0.97 |
| 268_E | 275_T | 1.685 | 0.97 |
| 30_P | 72_R | 1.684 | 0.97 |
| 5_D | 178_T | 1.678 | 0.97 |
| 88_L | 143_I | 1.663 | 0.97 |
| 340_I | 360_L | 1.661 | 0.97 |
| 554_F | 578_V | 1.655 | 0.96 |
| 585_P | 589_Y | 1.654 | 0.96 |
| 639_S | 642_R | 1.644 | 0.96 |
| 715_E | 723_R | 1.638 | 0.96 |
| 29_R | 32_T | 1.628 | 0.96 |
| 669_T | 684_Q | 1.622 | 0.96 |
| 293_G | 301_R | 1.622 | 0.96 |
| 205_I | 245_Y | 1.618 | 0.96 |
| 43_W | 72_R | 1.616 | 0.96 |
| 188_I | 280_Q | 1.615 | 0.96 |
| 84_G | 177_Y | 1.614 | 0.96 |
| 266_V | 279_T | 1.611 | 0.96 |
| 481_I | 548_R | 1.605 | 0.96 |
| 109_H | 114_D | 1.577 | 0.95 |
| 323_E | 326_R | 1.562 | 0.95 |
| 88_L | 118_A | 1.559 | 0.95 |
| 290_E | 293_G | 1.550 | 0.94 |
| 401_L | 456_V | 1.543 | 0.94 |
| 330_Q | 334_E | 1.537 | 0.94 |
| 52_F | 69_G | 1.537 | 0.94 |
| 188_I | 282_F | 1.536 | 0.94 |
| 288_R | 296_Y | 1.530 | 0.94 |
| 695_P | 717_I | 1.520 | 0.94 |
| 89_E | 117_K | 1.519 | 0.93 |
| 364_E | 389_M | 1.514 | 0.93 |
| 262_L | 281_H | 1.512 | 0.93 |
| 183_F | 267_A | 1.494 | 0.93 |
| 621_E | 658_N | 1.485 | 0.92 |
| 93_A | 97_T | 1.480 | 0.92 |
| 72_R | 142_P | 1.470 | 0.92 |
| 12_E | 769_H | 1.461 | 0.92 |
| 352_L | 396_H | 1.459 | 0.92 |
| 307_T | 557_F | 1.456 | 0.91 |
| 427_G | 431_D | 1.455 | 0.91 |
| 257_P | 302_L | 1.452 | 0.91 |
| 43_W | 70_W | 1.445 | 0.91 |
| 667_K | 686_E | 1.443 | 0.91 |
| 304_L | 400_I | 1.437 | 0.91 |
| 641_G | 657_W | 1.436 | 0.91 |
| 172_Y | 350_I | 1.434 | 0.91 |
| 46_V | 55_E | 1.433 | 0.91 |
| 101_V | 123_A | 1.424 | 0.90 |
| 371_G | 379_K | 1.414 | 0.90 |
| 220_F | 267_A | 1.413 | 0.90 |
| 183_F | 278_T | 1.399 | 0.89 |
| 233_N | 247_I | 1.396 | 0.89 |
| 99_V | 145_I | 1.396 | 0.89 |
| 224_V | 265_C | 1.392 | 0.89 |
| 89_E | 174_N | 1.392 | 0.89 |
| 320_L | 325_M | 1.384 | 0.88 |
| 309_R | 332_I | 1.374 | 0.88 |
| 28_M | 144_A | 1.370 | 0.88 |
| 90_F | 93_A | 1.369 | 0.88 |
| 99_V | 116_W | 1.362 | 0.87 |
| 297_L | 361_L | 1.359 | 0.87 |
| 20_D | 146_R | 1.352 | 0.87 |
| 307_T | 337_A | 1.348 | 0.87 |
| 68_P | 146_R | 1.346 | 0.87 |
| 104_T | 123_A | 1.344 | 0.86 |
| 501_H | 530_S | 1.342 | 0.86 |
| 226_S | 261_A | 1.341 | 0.86 |
| 223_R | 266_V | 1.339 | 0.86 |
| 204_D | 244_S | 1.335 | 0.86 |
| 70_W | 146_R | 1.333 | 0.86 |
| 730_F | 755_Q | 1.328 | 0.86 |
| 106_I | 143_I | 1.327 | 0.85 |
| 289_F | 550_T | 1.320 | 0.85 |
| 5_D | 276_L | 1.320 | 0.85 |
| 387_T | 432_L | 1.314 | 0.85 |
| 349_G | 353_R | 1.314 | 0.85 |
| 489_H | 492_W | 1.314 | 0.85 |
| 191_T | 202_S | 1.311 | 0.85 |
| 289_F | 400_I | 1.309 | 0.84 |
| 322_E | 354_L | 1.308 | 0.84 |
| 366_I | 389_M | 1.308 | 0.84 |
| 639_S | 657_W | 1.301 | 0.84 |
| 313_H | 328_E | 1.298 | 0.84 |
| 309_R | 328_E | 1.289 | 0.83 |
| 28_M | 72_R | 1.287 | 0.83 |
| 290_E | 296_Y | 1.285 | 0.83 |
| 206_A | 391_E | 1.281 | 0.83 |
| 630_E | 644_K | 1.279 | 0.82 |
| 313_H | 327_T | 1.268 | 0.82 |
| 733_F | 778_D | 1.267 | 0.82 |
| 188_I | 265_C | 1.266 | 0.82 |
| 329_M | 354_L | 1.266 | 0.82 |
| 8_Q | 177_Y | 1.263 | 0.81 |
| 204_D | 242_I | 1.262 | 0.81 |
| 331_Q | 558_K | 1.257 | 0.81 |
| 181_V | 269_L | 1.254 | 0.81 |
| 304_L | 363_W | 1.254 | 0.81 |
| 30_P | 144_A | 1.252 | 0.81 |
| 97_T | 118_A | 1.251 | 0.81 |
| 634_F | 641_G | 1.246 | 0.80 |
| 316_V | 324_M | 1.239 | 0.80 |
| 296_Y | 301_R | 1.237 | 0.80 |
| 74_M | 142_P | 1.237 | 0.80 |
| 705_Q | 708_E | 1.235 | 0.79 |
| 305_R | 598_S | 1.232 | 0.79 |
| 390_I | 436_L | 1.232 | 0.79 |
| 323_E | 702_Q | 1.229 | 0.79 |
| 590_Y | 593_Q | 1.228 | 0.79 |
| 98_E | 146_R | 1.224 | 0.79 |
| 224_V | 249_L | 1.222 | 0.78 |
| 50_H | 71_Y | 1.222 | 0.78 |
| 589_Y | 593_Q | 1.220 | 0.78 |
| 738_S | 768_Q | 1.219 | 0.78 |
| 257_P | 297_L | 1.217 | 0.78 |
| 747_T | 750_G | 1.216 | 0.78 |
| 690_R | 722_I | 1.215 | 0.78 |
| 600_P | 627_N | 1.211 | 0.77 |
| 321_T | 324_M | 1.206 | 0.77 |
| 386_L | 390_I | 1.204 | 0.77 |
| 172_Y | 348_S | 1.201 | 0.77 |
| 109_H | 388_N | 1.200 | 0.77 |
| 302_L | 338_N | 1.196 | 0.76 |
| 105_R | 108_S | 1.195 | 0.76 |
| 356_D | 396_H | 1.193 | 0.76 |
| 459_P | 480_G | 1.192 | 0.76 |
| 342_L | 347_Q | 1.190 | 0.76 |
| 364_E | 399_V | 1.189 | 0.76 |
| 696_S | 716_L | 1.185 | 0.75 |
| 85_R | 180_A | 1.181 | 0.75 |
| 634_F | 640_Q | 1.180 | 0.75 |
| 288_R | 299_G | 1.179 | 0.75 |
| 114_D | 346_Q | 1.178 | 0.75 |
| 715_E | 760_R | 1.177 | 0.75 |
| 634_F | 669_T | 1.175 | 0.74 |
| 47_T | 73_T | 1.174 | 0.74 |
| 68_P | 148_D | 1.173 | 0.74 |
| 352_L | 364_E | 1.172 | 0.74 |
| 264_T | 281_H | 1.172 | 0.74 |
| 729_Q | 780_K | 1.168 | 0.74 |
| 87_C | 119_D | 1.168 | 0.74 |
| 355_C | 362_V | 1.168 | 0.74 |
| 207_F | 269_L | 1.166 | 0.74 |
| 442_T | 454_V | 1.166 | 0.74 |
| 624_V | 657_W | 1.164 | 0.73 |
| 191_T | 199_G | 1.164 | 0.73 |
| 90_F | 116_W | 1.162 | 0.73 |
| 87_C | 117_K | 1.158 | 0.73 |
| 335_M | 589_Y | 1.155 | 0.73 |
| 322_E | 353_R | 1.154 | 0.73 |
| 289_F | 295_F | 1.152 | 0.72 |
| 775_S | 789_S | 1.152 | 0.72 |
| 386_L | 429_L | 1.152 | 0.72 |
| 602_L | 631_V | 1.151 | 0.72 |
| 205_I | 222_L | 1.151 | 0.72 |
| 170_Y | 311_E | 1.149 | 0.72 |
| 295_F | 400_I | 1.147 | 0.72 |
| 125_E | 139_G | 1.144 | 0.72 |
| 729_Q | 756_A | 1.143 | 0.72 |
| 205_I | 267_A | 1.143 | 0.72 |
| 93_A | 99_V | 1.143 | 0.72 |
| 734_G | 779_S | 1.142 | 0.71 |
| 91_E | 172_Y | 1.140 | 0.71 |
| 640_Q | 643_K | 1.138 | 0.71 |
| 622_I | 659_V | 1.137 | 0.71 |
| 602_L | 670_A | 1.136 | 0.71 |
| 733_F | 741_L | 1.135 | 0.71 |
| 258_H | 333_K | 1.134 | 0.71 |
| 540_L | 591_V | 1.131 | 0.70 |
| 700_L | 710_I | 1.131 | 0.70 |
| 541_K | 545_T | 1.125 | 0.70 |
| 631_V | 657_W | 1.124 | 0.70 |
| 671_T | 677_L | 1.122 | 0.69 |
| 13_H | 45_K | 1.122 | 0.69 |
| 256_S | 259_S | 1.116 | 0.69 |
| 716_L | 783_L | 1.116 | 0.69 |
| 363_W | 401_L | 1.116 | 0.69 |
| 9_R | 174_N | 1.112 | 0.68 |
| 696_S | 731_I | 1.112 | 0.68 |
| 330_Q | 358_L | 1.111 | 0.68 |
| 115_E | 349_G | 1.109 | 0.68 |
| 87_C | 182_H | 1.107 | 0.68 |
| 226_S | 232_V | 1.106 | 0.68 |
| 202_S | 246_Q | 1.105 | 0.68 |
| 9_R | 172_Y | 1.104 | 0.68 |
| 632_E | 640_Q | 1.100 | 0.67 |
| 109_H | 381_Q | 1.098 | 0.67 |
| 256_S | 333_K | 1.098 | 0.67 |
| 295_F | 302_L | 1.090 | 0.66 |
| 172_Y | 322_E | 1.088 | 0.66 |
| 66_Q | 167_G | 1.085 | 0.66 |
| 89_E | 176_V | 1.083 | 0.66 |
| 11_T | 48_L | 1.082 | 0.65 |
| 697_R | 717_I | 1.079 | 0.65 |
| 11_T | 73_T | 1.075 | 0.65 |
| 773_V | 776_A | 1.073 | 0.64 |
| 431_D | 434_H | 1.073 | 0.64 |
| 773_V | 778_D | 1.072 | 0.64 |
| 326_R | 330_Q | 1.072 | 0.64 |
| 289_F | 401_L | 1.071 | 0.64 |
| 709_T | 742_L | 1.070 | 0.64 |
| 231_E | 234_S | 1.070 | 0.64 |
| 622_I | 633_L | 1.068 | 0.64 |
| 10_L | 48_L | 1.067 | 0.64 |
| 669_T | 686_E | 1.067 | 0.64 |
| 332_I | 557_F | 1.066 | 0.64 |
| 30_P | 43_W | 1.066 | 0.64 |
| 632_E | 673_Y | 1.065 | 0.64 |
| 287_F | 295_F | 1.063 | 0.63 |
| 383_R | 387_T | 1.062 | 0.63 |
| 325_M | 354_L | 1.062 | 0.63 |
| 161_S | 165_L | 1.060 | 0.63 |
| 352_L | 393_H | 1.056 | 0.63 |
| 574_N | 581_R | 1.048 | 0.62 |
| 325_M | 348_S | 1.048 | 0.62 |
| 347_Q | 352_L | 1.041 | 0.61 |
| 432_L | 435_R | 1.040 | 0.61 |
| 326_R | 354_L | 1.039 | 0.61 |
| 640_Q | 657_W | 1.038 | 0.61 |
| 18_R | 65_Y | 1.037 | 0.61 |
| 324_M | 327_T | 1.037 | 0.61 |
| 75_L | 88_L | 1.036 | 0.60 |
| 706_D | 769_H | 1.036 | 0.60 |
| 731_I | 761_A | 1.032 | 0.60 |
| 87_C | 178_T | 1.025 | 0.59 |
| 147_C | 169_L | 1.024 | 0.59 |
| 404_L | 454_V | 1.021 | 0.59 |
| 202_S | 244_S | 1.018 | 0.58 |
| 602_L | 679_L | 1.018 | 0.58 |
| 91_E | 350_I | 1.018 | 0.58 |
| 206_A | 242_I | 1.011 | 0.58 |
| 688_Q | 720_N | 1.008 | 0.57 |
| 119_D | 124_V | 1.008 | 0.57 |
| 735_C | 741_L | 1.007 | 0.57 |
| 477_E | 489_H | 1.007 | 0.57 |
| 602_L | 672_G | 1.007 | 0.57 |
| 778_D | 786_A | 1.006 | 0.57 |
| 706_D | 767_K | 1.005 | 0.57 |
| 584_T | 762_S | 1.005 | 0.57 |
| 601_M | 672_G | 1.004 | 0.57 |
| 323_E | 701_T | 1.000 | 0.56 |
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 | |
| 4cu7A | 1 | 0.9256 | 100 | 0.319 | Contact Map |
| 3gm8A | 1 | 0.9016 | 100 | 0.32 | Contact Map |
| 4ypjA | 2 | 0 | 100 | 0.32 | Contact Map |
| 3fn9A | 4 | 0.8108 | 100 | 0.418 | Contact Map |
| 3cmgA | 1 | 0.797 | 100 | 0.422 | Contact Map |
| 1yq2A | 6 | 0.8197 | 100 | 0.567 | Contact Map |
| 1jz7A | 4 | 0.8323 | 100 | 0.576 | Contact Map |
| 3bgaA | 2 | 0.8285 | 100 | 0.585 | Contact Map |
| 3obaA | 4 | 0.8386 | 100 | 0.585 | Contact Map |
| 4jklA | 2 | 0.6784 | 100 | 0.591 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)