| 1TRK |
| ID: | 1478165646 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 680 (662) | ||
| Sequences: | 7394 (2924.9) | ||
| Seq/Len: | 11.169 | ||
| Nf(neff/√len): | 113.7 |
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: 11.169).
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 |
| 205_K | 208_E | 3.889 | 1.00 |
| 557_I | 660_A | 3.783 | 1.00 |
| 425_M | 439_G | 3.776 | 1.00 |
| 19_A | 76_S | 3.365 | 1.00 |
| 436_K | 462_P | 3.298 | 1.00 |
| 579_K | 661_Q | 3.074 | 1.00 |
| 575_T | 657_A | 3.052 | 1.00 |
| 215_L | 242_T | 3.019 | 1.00 |
| 54_N | 309_N | 2.967 | 1.00 |
| 86_S | 89_D | 2.927 | 1.00 |
| 223_D | 226_G | 2.921 | 1.00 |
| 603_L | 608_D | 2.892 | 1.00 |
| 550_Q | 573_A | 2.836 | 1.00 |
| 653_P | 657_A | 2.730 | 1.00 |
| 47_Q | 228_A | 2.715 | 1.00 |
| 213_E | 242_T | 2.687 | 1.00 |
| 517_S | 520_T | 2.638 | 1.00 |
| 599_L | 603_L | 2.582 | 1.00 |
| 569_S | 615_V | 2.565 | 1.00 |
| 595_D | 626_Y | 2.553 | 1.00 |
| 652_T | 655_G | 2.545 | 1.00 |
| 546_G | 588_L | 2.407 | 1.00 |
| 51_N | 309_N | 2.374 | 1.00 |
| 202_D | 205_K | 2.350 | 1.00 |
| 499_W | 510_A | 2.342 | 1.00 |
| 291_Q | 295_D | 2.328 | 1.00 |
| 496_I | 523_I | 2.321 | 1.00 |
| 49_R | 59_N | 2.308 | 1.00 |
| 614_S | 630_S | 2.307 | 1.00 |
| 456_S | 465_W | 2.301 | 1.00 |
| 570_V | 585_V | 2.296 | 1.00 |
| 150_Y | 181_I | 2.248 | 1.00 |
| 557_I | 583_A | 2.219 | 1.00 |
| 629_Q | 659_R | 2.208 | 1.00 |
| 428_I | 435_Y | 2.186 | 1.00 |
| 575_T | 653_P | 2.155 | 1.00 |
| 561_A | 566_V | 2.147 | 1.00 |
| 575_T | 654_E | 2.127 | 1.00 |
| 294_Y | 298_Q | 2.124 | 1.00 |
| 169_S | 207_Y | 2.115 | 1.00 |
| 113_V | 124_N | 2.115 | 1.00 |
| 550_Q | 574_K | 2.105 | 1.00 |
| 237_S | 240_K | 2.102 | 1.00 |
| 33_A | 70_A | 2.099 | 1.00 |
| 571_E | 574_K | 2.037 | 1.00 |
| 556_D | 582_K | 2.027 | 1.00 |
| 166_S | 210_Y | 2.022 | 1.00 |
| 24_S | 269_A | 2.018 | 1.00 |
| 249_T | 258_G | 2.002 | 1.00 |
| 488_A | 618_L | 1.966 | 1.00 |
| 96_L | 644_E | 1.954 | 1.00 |
| 642_A | 646_F | 1.951 | 1.00 |
| 560_V | 588_L | 1.940 | 1.00 |
| 150_Y | 235_K | 1.939 | 1.00 |
| 22_T | 72_A | 1.927 | 1.00 |
| 55_P | 109_P | 1.910 | 1.00 |
| 183_I | 231_I | 1.898 | 1.00 |
| 178_G | 213_E | 1.889 | 1.00 |
| 497_Q | 590_D | 1.888 | 1.00 |
| 213_E | 237_S | 1.881 | 1.00 |
| 453_V | 496_I | 1.849 | 1.00 |
| 10_L | 292_E | 1.843 | 1.00 |
| 444_N | 486_T | 1.829 | 1.00 |
| 620_T | 632_G | 1.825 | 1.00 |
| 425_M | 463_V | 1.824 | 1.00 |
| 309_N | 313_N | 1.823 | 1.00 |
| 559_L | 569_S | 1.817 | 1.00 |
| 613_M | 660_A | 1.816 | 1.00 |
| 155_L | 182_A | 1.814 | 1.00 |
| 20_V | 272_V | 1.792 | 1.00 |
| 47_Q | 235_K | 1.782 | 1.00 |
| 50_M | 83_Y | 1.779 | 1.00 |
| 497_Q | 520_T | 1.776 | 1.00 |
| 49_R | 308_A | 1.773 | 1.00 |
| 156_G | 159_C | 1.769 | 1.00 |
| 150_Y | 179_N | 1.761 | 1.00 |
| 40_A | 183_I | 1.749 | 1.00 |
| 629_Q | 662_K | 1.746 | 1.00 |
| 125_A | 153_V | 1.736 | 1.00 |
| 584_R | 609_N | 1.735 | 1.00 |
| 647_K | 652_T | 1.732 | 1.00 |
| 655_G | 659_R | 1.730 | 1.00 |
| 460_G | 495_N | 1.727 | 1.00 |
| 24_S | 27_N | 1.717 | 1.00 |
| 228_A | 232_A | 1.714 | 1.00 |
| 332_R | 375_E | 1.712 | 1.00 |
| 627_A | 630_S | 1.703 | 1.00 |
| 595_D | 625_K | 1.702 | 1.00 |
| 561_A | 569_S | 1.699 | 1.00 |
| 182_A | 212_W | 1.695 | 1.00 |
| 499_W | 522_S | 1.694 | 1.00 |
| 551_D | 584_R | 1.691 | 1.00 |
| 527_S | 531_L | 1.688 | 1.00 |
| 144_F | 315_L | 1.687 | 1.00 |
| 647_K | 654_E | 1.685 | 1.00 |
| 490_F | 523_I | 1.683 | 1.00 |
| 174_H | 200_D | 1.678 | 1.00 |
| 567_S | 571_E | 1.677 | 1.00 |
| 64_V | 128_M | 1.673 | 1.00 |
| 512_K | 516_E | 1.667 | 1.00 |
| 88_E | 91_K | 1.665 | 1.00 |
| 254_S | 275_L | 1.659 | 1.00 |
| 171_L | 175_L | 1.659 | 1.00 |
| 658_E | 662_K | 1.650 | 1.00 |
| 130_M | 424_I | 1.647 | 1.00 |
| 285_K | 288_V | 1.638 | 1.00 |
| 79_H | 294_Y | 1.632 | 1.00 |
| 149_N | 431_F | 1.626 | 1.00 |
| 464_I | 514_S | 1.620 | 1.00 |
| 502_A | 587_S | 1.617 | 1.00 |
| 121_G | 155_L | 1.616 | 1.00 |
| 213_E | 233_Q | 1.612 | 1.00 |
| 559_L | 615_V | 1.605 | 1.00 |
| 443_L | 490_F | 1.596 | 1.00 |
| 356_V | 361_L | 1.596 | 1.00 |
| 641_K | 644_E | 1.595 | 1.00 |
| 573_A | 585_V | 1.590 | 1.00 |
| 332_R | 406_N | 1.579 | 1.00 |
| 613_M | 663_T | 1.578 | 1.00 |
| 450_A | 489_H | 1.578 | 1.00 |
| 17_I | 20_V | 1.573 | 1.00 |
| 96_L | 648_F | 1.571 | 1.00 |
| 429_S | 437_P | 1.561 | 1.00 |
| 502_A | 566_V | 1.558 | 1.00 |
| 176_K | 399_P | 1.556 | 1.00 |
| 429_S | 461_H | 1.551 | 1.00 |
| 581_I | 661_Q | 1.551 | 1.00 |
| 215_L | 233_Q | 1.546 | 1.00 |
| 425_M | 440_G | 1.531 | 1.00 |
| 572_A | 615_V | 1.531 | 1.00 |
| 360_K | 388_L | 1.505 | 1.00 |
| 613_M | 629_Q | 1.497 | 1.00 |
| 43_V | 228_A | 1.492 | 1.00 |
| 204_A | 245_K | 1.491 | 1.00 |
| 101_P | 108_L | 1.486 | 1.00 |
| 504_G | 533_Q | 1.486 | 1.00 |
| 96_L | 640_G | 1.484 | 1.00 |
| 559_L | 660_A | 1.484 | 1.00 |
| 572_A | 657_A | 1.474 | 1.00 |
| 108_L | 111_V | 1.471 | 1.00 |
| 655_G | 658_E | 1.466 | 1.00 |
| 34_P | 76_S | 1.458 | 1.00 |
| 132_Q | 151_T | 1.458 | 1.00 |
| 613_M | 631_F | 1.455 | 1.00 |
| 568_L | 653_P | 1.454 | 1.00 |
| 130_M | 175_L | 1.450 | 1.00 |
| 484_I | 633_I | 1.446 | 1.00 |
| 169_S | 210_Y | 1.445 | 1.00 |
| 588_L | 591_F | 1.427 | 1.00 |
| 615_V | 656_V | 1.426 | 1.00 |
| 204_A | 208_E | 1.426 | 1.00 |
| 422_G | 465_W | 1.415 | 1.00 |
| 629_Q | 663_T | 1.411 | 1.00 |
| 58_I | 330_L | 1.407 | 0.99 |
| 422_G | 456_S | 1.399 | 0.99 |
| 186_D | 245_K | 1.398 | 0.99 |
| 599_L | 602_R | 1.398 | 0.99 |
| 497_Q | 592_F | 1.393 | 0.99 |
| 122_I | 169_S | 1.390 | 0.99 |
| 571_E | 653_P | 1.390 | 0.99 |
| 356_V | 364_T | 1.385 | 0.99 |
| 620_T | 634_D | 1.381 | 0.99 |
| 313_N | 317_S | 1.380 | 0.99 |
| 152_Y | 181_I | 1.372 | 0.99 |
| 453_V | 467_A | 1.371 | 0.99 |
| 646_F | 651_F | 1.362 | 0.99 |
| 644_E | 647_K | 1.361 | 0.99 |
| 429_S | 463_V | 1.360 | 0.99 |
| 422_G | 449_A | 1.356 | 0.99 |
| 591_F | 595_D | 1.353 | 0.99 |
| 249_T | 257_A | 1.347 | 0.99 |
| 22_T | 90_L | 1.347 | 0.99 |
| 268_K | 271_D | 1.338 | 0.99 |
| 479_P | 482_Q | 1.338 | 0.99 |
| 24_S | 272_V | 1.334 | 0.99 |
| 20_V | 275_L | 1.333 | 0.99 |
| 424_I | 428_I | 1.331 | 0.99 |
| 125_A | 182_A | 1.329 | 0.99 |
| 436_K | 464_I | 1.329 | 0.99 |
| 132_Q | 149_N | 1.327 | 0.99 |
| 63_F | 154_F | 1.325 | 0.99 |
| 33_A | 37_M | 1.324 | 0.99 |
| 499_W | 590_D | 1.322 | 0.99 |
| 43_V | 224_L | 1.320 | 0.99 |
| 426_N | 456_S | 1.316 | 0.99 |
| 307_E | 311_K | 1.316 | 0.99 |
| 645_V | 649_F | 1.314 | 0.99 |
| 214_V | 245_K | 1.314 | 0.99 |
| 558_I | 607_P | 1.305 | 0.99 |
| 487_L | 525_A | 1.304 | 0.99 |
| 443_L | 525_A | 1.303 | 0.99 |
| 170_S | 199_F | 1.298 | 0.99 |
| 204_A | 214_V | 1.298 | 0.99 |
| 635_R | 649_F | 1.295 | 0.99 |
| 548_V | 584_R | 1.288 | 0.99 |
| 360_K | 363_E | 1.282 | 0.99 |
| 657_A | 661_Q | 1.281 | 0.99 |
| 171_L | 424_I | 1.278 | 0.99 |
| 562_T | 588_L | 1.277 | 0.99 |
| 635_R | 648_F | 1.276 | 0.99 |
| 147_S | 330_L | 1.273 | 0.99 |
| 488_A | 621_T | 1.271 | 0.99 |
| 190_T | 416_I | 1.265 | 0.99 |
| 651_F | 655_G | 1.256 | 0.99 |
| 58_I | 334_L | 1.253 | 0.99 |
| 251_G | 262_V | 1.251 | 0.99 |
| 87_I | 91_K | 1.250 | 0.99 |
| 644_E | 648_F | 1.247 | 0.99 |
| 360_K | 364_T | 1.246 | 0.98 |
| 24_S | 268_K | 1.239 | 0.98 |
| 97_G | 648_F | 1.237 | 0.98 |
| 572_A | 660_A | 1.234 | 0.98 |
| 314_K | 318_E | 1.233 | 0.98 |
| 659_R | 662_K | 1.232 | 0.98 |
| 520_T | 596_K | 1.229 | 0.98 |
| 141_K | 326_L | 1.227 | 0.98 |
| 128_M | 431_F | 1.223 | 0.98 |
| 577_A | 582_K | 1.222 | 0.98 |
| 360_K | 530_N | 1.221 | 0.98 |
| 50_M | 81_T | 1.212 | 0.98 |
| 274_Q | 277_S | 1.208 | 0.98 |
| 460_G | 519_H | 1.208 | 0.98 |
| 188_K | 247_T | 1.208 | 0.98 |
| 18_L | 22_T | 1.205 | 0.98 |
| 583_A | 660_A | 1.205 | 0.98 |
| 507_V | 526_L | 1.204 | 0.98 |
| 660_A | 663_T | 1.197 | 0.98 |
| 33_A | 154_F | 1.192 | 0.98 |
| 356_V | 360_K | 1.191 | 0.98 |
| 532_P | 567_S | 1.187 | 0.98 |
| 130_M | 397_F | 1.185 | 0.98 |
| 493_L | 496_I | 1.185 | 0.98 |
| 631_F | 659_R | 1.185 | 0.98 |
| 232_A | 235_K | 1.184 | 0.98 |
| 11_A | 39_P | 1.184 | 0.98 |
| 568_L | 646_F | 1.184 | 0.98 |
| 487_L | 618_L | 1.176 | 0.98 |
| 617_V | 646_F | 1.176 | 0.98 |
| 575_T | 578_A | 1.175 | 0.98 |
| 320_Q | 331_A | 1.174 | 0.98 |
| 633_I | 649_F | 1.173 | 0.98 |
| 355_A | 530_N | 1.165 | 0.97 |
| 550_Q | 577_A | 1.164 | 0.97 |
| 558_I | 586_V | 1.162 | 0.97 |
| 476_E | 641_K | 1.162 | 0.97 |
| 85_L | 89_D | 1.159 | 0.97 |
| 588_L | 623_W | 1.155 | 0.97 |
| 419_H | 452_A | 1.155 | 0.97 |
| 35_L | 275_L | 1.153 | 0.97 |
| 497_Q | 593_T | 1.149 | 0.97 |
| 78_L | 110_G | 1.146 | 0.97 |
| 53_T | 306_V | 1.139 | 0.97 |
| 47_Q | 232_A | 1.135 | 0.97 |
| 130_M | 171_L | 1.134 | 0.97 |
| 59_N | 315_L | 1.134 | 0.97 |
| 282_N | 285_K | 1.134 | 0.97 |
| 330_L | 334_L | 1.134 | 0.97 |
| 64_V | 125_A | 1.134 | 0.97 |
| 509_A | 542_A | 1.133 | 0.97 |
| 557_I | 613_M | 1.132 | 0.97 |
| 19_A | 34_P | 1.132 | 0.97 |
| 47_Q | 108_L | 1.132 | 0.97 |
| 119_G | 162_E | 1.132 | 0.97 |
| 12_V | 39_P | 1.130 | 0.97 |
| 25_K | 91_K | 1.123 | 0.97 |
| 216_Y | 245_K | 1.118 | 0.96 |
| 132_Q | 179_N | 1.117 | 0.96 |
| 122_I | 172_A | 1.116 | 0.96 |
| 259_S | 262_V | 1.115 | 0.96 |
| 231_I | 244_I | 1.112 | 0.96 |
| 488_A | 622_C | 1.110 | 0.96 |
| 595_D | 602_R | 1.109 | 0.96 |
| 456_S | 463_V | 1.106 | 0.96 |
| 229_K | 233_Q | 1.106 | 0.96 |
| 249_T | 252_Y | 1.105 | 0.96 |
| 18_L | 79_H | 1.104 | 0.96 |
| 613_M | 659_R | 1.101 | 0.96 |
| 611_P | 663_T | 1.096 | 0.96 |
| 89_D | 92_Q | 1.095 | 0.96 |
| 161_Q | 190_T | 1.090 | 0.96 |
| 145_T | 315_L | 1.090 | 0.96 |
| 67_N | 154_F | 1.088 | 0.96 |
| 552_V | 582_K | 1.088 | 0.96 |
| 178_G | 242_T | 1.087 | 0.96 |
| 43_V | 47_Q | 1.087 | 0.96 |
| 614_S | 620_T | 1.086 | 0.96 |
| 556_D | 583_A | 1.083 | 0.96 |
| 164_I | 423_A | 1.082 | 0.96 |
| 547_Y | 587_S | 1.079 | 0.95 |
| 387_N | 440_G | 1.077 | 0.95 |
| 447_S | 486_T | 1.076 | 0.95 |
| 473_G | 646_F | 1.074 | 0.95 |
| 303_K | 307_E | 1.072 | 0.95 |
| 31_P | 264_G | 1.072 | 0.95 |
| 184_Y | 243_L | 1.067 | 0.95 |
| 151_T | 179_N | 1.067 | 0.95 |
| 469_H | 523_I | 1.067 | 0.95 |
| 54_N | 313_N | 1.066 | 0.95 |
| 53_T | 302_L | 1.065 | 0.95 |
| 256_H | 271_D | 1.062 | 0.95 |
| 122_I | 182_A | 1.061 | 0.95 |
| 234_A | 244_I | 1.060 | 0.95 |
| 428_I | 437_P | 1.059 | 0.95 |
| 15_I | 76_S | 1.057 | 0.95 |
| 363_E | 388_L | 1.055 | 0.95 |
| 546_G | 605_V | 1.053 | 0.95 |
| 178_G | 238_K | 1.053 | 0.95 |
| 586_V | 605_V | 1.048 | 0.94 |
| 591_F | 626_Y | 1.048 | 0.94 |
| 172_A | 180_L | 1.046 | 0.94 |
| 113_V | 430_A | 1.042 | 0.94 |
| 183_I | 246_M | 1.041 | 0.94 |
| 422_G | 467_A | 1.039 | 0.94 |
| 310_N | 314_K | 1.038 | 0.94 |
| 273_K | 277_S | 1.037 | 0.94 |
| 224_L | 228_A | 1.036 | 0.94 |
| 361_L | 504_G | 1.035 | 0.94 |
| 465_W | 526_L | 1.035 | 0.94 |
| 257_A | 278_K | 1.035 | 0.94 |
| 349_Y | 364_T | 1.029 | 0.94 |
| 215_L | 230_A | 1.028 | 0.94 |
| 206_R | 210_Y | 1.027 | 0.94 |
| 132_Q | 431_F | 1.026 | 0.94 |
| 534_L | 570_V | 1.025 | 0.93 |
| 17_I | 281_F | 1.025 | 0.93 |
| 145_T | 148_D | 1.023 | 0.93 |
| 91_K | 287_F | 1.022 | 0.93 |
| 366_L | 438_Y | 1.021 | 0.93 |
| 37_M | 70_A | 1.020 | 0.93 |
| 43_V | 227_I | 1.019 | 0.93 |
| 558_I | 606_L | 1.018 | 0.93 |
| 631_F | 651_F | 1.017 | 0.93 |
| 281_F | 290_P | 1.012 | 0.93 |
| 106_F | 459_S | 1.009 | 0.93 |
| 67_N | 156_G | 1.009 | 0.93 |
| 181_I | 244_I | 1.006 | 0.93 |
| 437_P | 462_P | 1.006 | 0.93 |
| 462_P | 520_T | 1.004 | 0.93 |
| 631_F | 656_V | 1.003 | 0.93 |
| 358_T | 531_L | 1.003 | 0.93 |
| 123_S | 420_A | 1.002 | 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
- 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 | |
| 1r9jA | 2 | 0.9765 | 100 | 0.269 | Contact Map |
| 1gpuA | 2 | 0.9956 | 100 | 0.276 | Contact Map |
| 1itzA | 3 | 0.9618 | 100 | 0.304 | Contact Map |
| 2r8oA | 2 | 0.9603 | 100 | 0.31 | Contact Map |
| 3rimA | 4 | 0.975 | 100 | 0.314 | Contact Map |
| 3komA | 2 | 0.9426 | 100 | 0.314 | Contact Map |
| 3m49A | 2 | 0.9603 | 100 | 0.321 | Contact Map |
| 3uk1A | 2 | 0.9515 | 100 | 0.323 | Contact Map |
| 4c7vA | 1 | 0.9574 | 100 | 0.323 | Contact Map |
| 2e6kA | 4 | 0.9471 | 100 | 0.324 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)