| 03720 |
| ID: | 1451326882 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 760 (688) | ||
| Sequences: | 2772 (2269.3) | ||
| Seq/Len: | 4.029 | ||
| Nf(neff/√len): | 86.5 |
HHblits Results: (2015_06)
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: 4.029).
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 |
| 536_V | 748_L | 5.191 | 1.00 |
| 740_G | 743_Q | 4.399 | 1.00 |
| 682_Q | 686_A | 4.109 | 1.00 |
| 401_D | 404_C | 4.046 | 1.00 |
| 574_K | 617_E | 3.950 | 1.00 |
| 329_F | 333_H | 3.506 | 1.00 |
| 569_D | 601_L | 3.448 | 1.00 |
| 501_A | 554_E | 3.378 | 1.00 |
| 345_L | 415_A | 3.255 | 1.00 |
| 528_L | 734_G | 3.229 | 1.00 |
| 649_R | 676_H | 3.220 | 1.00 |
| 717_I | 734_G | 3.206 | 1.00 |
| 465_D | 468_H | 3.101 | 1.00 |
| 671_K | 694_D | 3.003 | 1.00 |
| 575_R | 578_R | 2.973 | 1.00 |
| 614_A | 618_S | 2.947 | 1.00 |
| 519_R | 543_Q | 2.849 | 1.00 |
| 706_Q | 732_D | 2.759 | 1.00 |
| 522_Y | 579_Q | 2.746 | 1.00 |
| 597_V | 607_L | 2.721 | 1.00 |
| 581_R | 585_Q | 2.709 | 1.00 |
| 508_A | 544_H | 2.673 | 1.00 |
| 544_H | 548_G | 2.653 | 1.00 |
| 527_D | 530_S | 2.636 | 1.00 |
| 612_A | 651_L | 2.542 | 1.00 |
| 579_Q | 583_W | 2.532 | 1.00 |
| 720_Q | 724_L | 2.468 | 1.00 |
| 366_L | 454_L | 2.418 | 1.00 |
| 348_R | 405_L | 2.374 | 1.00 |
| 544_H | 547_R | 2.356 | 1.00 |
| 545_P | 548_G | 2.348 | 1.00 |
| 400_L | 406_L | 2.278 | 1.00 |
| 520_V | 571_W | 2.271 | 1.00 |
| 521_H | 744_P | 2.257 | 1.00 |
| 92_D | 193_R | 2.255 | 1.00 |
| 570_N | 610_R | 2.248 | 1.00 |
| 595_V | 625_L | 2.241 | 1.00 |
| 737_Y | 742_P | 2.225 | 1.00 |
| 518_L | 540_V | 2.218 | 1.00 |
| 540_V | 568_L | 2.181 | 1.00 |
| 460_P | 463_A | 2.163 | 1.00 |
| 645_L | 655_L | 2.118 | 1.00 |
| 430_S | 456_V | 2.091 | 1.00 |
| 580_M | 620_L | 2.052 | 1.00 |
| 559_A | 568_L | 2.005 | 1.00 |
| 725_F | 729_H | 1.973 | 1.00 |
| 723_A | 727_R | 1.958 | 1.00 |
| 137_Y | 160_R | 1.947 | 1.00 |
| 198_Q | 202_E | 1.938 | 1.00 |
| 526_H | 739_Y | 1.936 | 1.00 |
| 134_P | 137_Y | 1.925 | 1.00 |
| 574_K | 618_S | 1.923 | 1.00 |
| 302_N | 306_Q | 1.909 | 1.00 |
| 520_V | 576_A | 1.898 | 1.00 |
| 195_I | 199_R | 1.889 | 1.00 |
| 344_L | 348_R | 1.859 | 1.00 |
| 517_E | 544_H | 1.853 | 1.00 |
| 689_P | 725_F | 1.848 | 1.00 |
| 344_L | 405_L | 1.844 | 1.00 |
| 320_I | 324_E | 1.814 | 1.00 |
| 626_E | 677_K | 1.801 | 1.00 |
| 540_V | 572_V | 1.800 | 1.00 |
| 358_D | 401_D | 1.799 | 1.00 |
| 120_E | 164_K | 1.791 | 0.99 |
| 711_R | 732_D | 1.782 | 0.99 |
| 418_V | 429_L | 1.778 | 0.99 |
| 413_E | 474_D | 1.774 | 0.99 |
| 584_Q | 624_Y | 1.774 | 0.99 |
| 199_R | 202_E | 1.769 | 0.99 |
| 656_A | 677_K | 1.763 | 0.99 |
| 525_V | 535_G | 1.763 | 0.99 |
| 579_Q | 745_A | 1.760 | 0.99 |
| 387_M | 444_H | 1.756 | 0.99 |
| 671_K | 687_G | 1.749 | 0.99 |
| 599_S | 632_S | 1.748 | 0.99 |
| 371_D | 453_S | 1.743 | 0.99 |
| 744_P | 747_A | 1.743 | 0.99 |
| 321_K | 324_E | 1.735 | 0.99 |
| 217_E | 315_S | 1.725 | 0.99 |
| 525_V | 626_E | 1.714 | 0.99 |
| 245_D | 286_K | 1.713 | 0.99 |
| 368_I | 452_A | 1.703 | 0.99 |
| 212_F | 230_H | 1.694 | 0.99 |
| 241_Y | 286_K | 1.692 | 0.99 |
| 372_H | 485_R | 1.692 | 0.99 |
| 584_Q | 621_E | 1.687 | 0.99 |
| 95_W | 190_G | 1.687 | 0.99 |
| 723_A | 734_G | 1.687 | 0.99 |
| 283_N | 293_Q | 1.679 | 0.99 |
| 723_A | 739_Y | 1.679 | 0.99 |
| 702_V | 729_H | 1.662 | 0.99 |
| 451_S | 486_N | 1.661 | 0.99 |
| 463_A | 472_H | 1.649 | 0.99 |
| 382_H | 474_D | 1.648 | 0.99 |
| 474_D | 478_F | 1.646 | 0.99 |
| 366_L | 430_S | 1.643 | 0.99 |
| 740_G | 751_D | 1.629 | 0.99 |
| 319_S | 322_R | 1.629 | 0.99 |
| 349_I | 466_V | 1.618 | 0.99 |
| 241_Y | 245_D | 1.614 | 0.99 |
| 364_A | 458_L | 1.611 | 0.99 |
| 345_L | 417_L | 1.610 | 0.99 |
| 391_E | 394_K | 1.603 | 0.99 |
| 743_Q | 751_D | 1.600 | 0.99 |
| 388_L | 450_I | 1.596 | 0.99 |
| 80_E | 84_N | 1.595 | 0.99 |
| 282_W | 292_P | 1.593 | 0.99 |
| 317_L | 321_K | 1.589 | 0.98 |
| 347_E | 405_L | 1.587 | 0.98 |
| 93_G | 113_L | 1.581 | 0.98 |
| 519_R | 549_L | 1.579 | 0.98 |
| 611_I | 648_L | 1.573 | 0.98 |
| 220_L | 228_I | 1.569 | 0.98 |
| 116_L | 120_E | 1.568 | 0.98 |
| 509_L | 518_L | 1.559 | 0.98 |
| 586_R | 749_R | 1.547 | 0.98 |
| 511_H | 517_E | 1.544 | 0.98 |
| 218_G | 238_I | 1.544 | 0.98 |
| 583_W | 745_A | 1.543 | 0.98 |
| 391_E | 441_F | 1.540 | 0.98 |
| 163_H | 167_D | 1.536 | 0.98 |
| 377_N | 385_G | 1.525 | 0.98 |
| 571_W | 575_R | 1.516 | 0.98 |
| 543_Q | 549_L | 1.513 | 0.98 |
| 516_D | 575_R | 1.511 | 0.98 |
| 158_I | 199_R | 1.509 | 0.98 |
| 367_L | 477_L | 1.503 | 0.98 |
| 411_G | 478_F | 1.502 | 0.98 |
| 223_D | 227_V | 1.498 | 0.98 |
| 333_H | 344_L | 1.486 | 0.97 |
| 720_Q | 738_W | 1.484 | 0.97 |
| 533_I | 751_D | 1.482 | 0.97 |
| 340_P | 344_L | 1.473 | 0.97 |
| 520_V | 540_V | 1.466 | 0.97 |
| 95_W | 103_R | 1.462 | 0.97 |
| 556_V | 565_I | 1.456 | 0.97 |
| 172_H | 193_R | 1.445 | 0.97 |
| 508_A | 547_R | 1.443 | 0.97 |
| 615_L | 653_V | 1.439 | 0.97 |
| 348_R | 351_Q | 1.434 | 0.97 |
| 116_L | 164_K | 1.433 | 0.97 |
| 362_A | 461_E | 1.426 | 0.96 |
| 625_L | 653_V | 1.423 | 0.96 |
| 177_V | 185_P | 1.416 | 0.96 |
| 577_C | 614_A | 1.410 | 0.96 |
| 538_S | 593_V | 1.404 | 0.96 |
| 689_P | 695_A | 1.404 | 0.96 |
| 447_P | 511_H | 1.403 | 0.96 |
| 462_D | 490_F | 1.402 | 0.96 |
| 550_V | 556_V | 1.398 | 0.96 |
| 107_S | 110_Y | 1.392 | 0.96 |
| 645_L | 674_P | 1.391 | 0.96 |
| 378_D | 474_D | 1.390 | 0.96 |
| 109_G | 112_A | 1.388 | 0.96 |
| 322_R | 326_E | 1.385 | 0.96 |
| 387_M | 390_K | 1.384 | 0.96 |
| 688_L | 725_F | 1.375 | 0.95 |
| 525_V | 677_K | 1.364 | 0.95 |
| 521_H | 549_L | 1.363 | 0.95 |
| 369_D | 478_F | 1.362 | 0.95 |
| 220_L | 312_G | 1.356 | 0.95 |
| 347_E | 358_D | 1.353 | 0.95 |
| 285_R | 289_E | 1.347 | 0.95 |
| 230_H | 243_S | 1.344 | 0.95 |
| 416_I | 433_I | 1.338 | 0.94 |
| 505_V | 558_V | 1.337 | 0.94 |
| 371_D | 484_G | 1.335 | 0.94 |
| 218_G | 314_F | 1.332 | 0.94 |
| 695_A | 725_F | 1.330 | 0.94 |
| 680_I | 701_I | 1.325 | 0.94 |
| 522_Y | 538_S | 1.324 | 0.94 |
| 235_F | 246_V | 1.323 | 0.94 |
| 259_Q | 263_F | 1.322 | 0.94 |
| 294_W | 315_S | 1.319 | 0.94 |
| 83_L | 86_A | 1.313 | 0.94 |
| 517_E | 542_W | 1.312 | 0.94 |
| 103_R | 107_S | 1.310 | 0.94 |
| 580_M | 593_V | 1.310 | 0.94 |
| 367_L | 415_A | 1.305 | 0.93 |
| 344_L | 347_E | 1.304 | 0.93 |
| 324_E | 328_D | 1.301 | 0.93 |
| 550_V | 557_P | 1.298 | 0.93 |
| 525_V | 733_F | 1.292 | 0.93 |
| 615_L | 620_L | 1.291 | 0.93 |
| 410_G | 474_D | 1.290 | 0.93 |
| 401_D | 432_R | 1.289 | 0.93 |
| 699_R | 729_H | 1.286 | 0.93 |
| 231_V | 235_F | 1.286 | 0.93 |
| 98_D | 102_D | 1.285 | 0.93 |
| 575_R | 579_Q | 1.281 | 0.93 |
| 285_R | 291_Y | 1.278 | 0.92 |
| 475_A | 495_L | 1.271 | 0.92 |
| 654_N | 676_H | 1.265 | 0.92 |
| 700_A | 707_S | 1.259 | 0.92 |
| 233_P | 237_R | 1.252 | 0.91 |
| 689_P | 721_D | 1.243 | 0.91 |
| 723_A | 738_W | 1.242 | 0.91 |
| 525_V | 713_V | 1.233 | 0.91 |
| 215_T | 219_V | 1.231 | 0.91 |
| 621_E | 624_Y | 1.229 | 0.90 |
| 372_H | 506_E | 1.225 | 0.90 |
| 520_V | 572_V | 1.224 | 0.90 |
| 280_E | 321_K | 1.222 | 0.90 |
| 431_Q | 435_D | 1.221 | 0.90 |
| 90_V | 93_G | 1.218 | 0.90 |
| 547_R | 554_E | 1.218 | 0.90 |
| 553_G | 682_Q | 1.216 | 0.90 |
| 519_R | 744_P | 1.205 | 0.89 |
| 525_V | 592_F | 1.203 | 0.89 |
| 592_F | 654_N | 1.202 | 0.89 |
| 243_S | 247_L | 1.200 | 0.89 |
| 347_E | 351_Q | 1.199 | 0.89 |
| 97_W | 103_R | 1.199 | 0.89 |
| 540_V | 571_W | 1.199 | 0.89 |
| 583_W | 749_R | 1.197 | 0.89 |
| 222_T | 228_I | 1.189 | 0.88 |
| 714_A | 731_C | 1.188 | 0.88 |
| 544_H | 550_V | 1.184 | 0.88 |
| 299_A | 307_L | 1.179 | 0.88 |
| 437_F | 441_F | 1.177 | 0.88 |
| 382_H | 478_F | 1.177 | 0.88 |
| 234_S | 237_R | 1.174 | 0.88 |
| 547_R | 550_V | 1.173 | 0.87 |
| 702_V | 731_C | 1.172 | 0.87 |
| 399_Q | 433_I | 1.171 | 0.87 |
| 355_N | 419_E | 1.171 | 0.87 |
| 687_G | 691_A | 1.166 | 0.87 |
| 506_E | 510_R | 1.161 | 0.87 |
| 356_G | 363_G | 1.160 | 0.87 |
| 180_D | 184_K | 1.158 | 0.87 |
| 323_S | 327_L | 1.155 | 0.86 |
| 427_A | 490_F | 1.148 | 0.86 |
| 369_D | 481_K | 1.147 | 0.86 |
| 415_A | 470_M | 1.147 | 0.86 |
| 418_V | 426_V | 1.145 | 0.86 |
| 134_P | 160_R | 1.144 | 0.86 |
| 677_K | 713_V | 1.144 | 0.86 |
| 83_L | 87_L | 1.142 | 0.86 |
| 374_K | 474_D | 1.141 | 0.85 |
| 232_N | 235_F | 1.141 | 0.85 |
| 568_L | 572_V | 1.138 | 0.85 |
| 437_F | 452_A | 1.135 | 0.85 |
| 677_K | 711_R | 1.134 | 0.85 |
| 366_L | 416_I | 1.133 | 0.85 |
| 577_C | 625_L | 1.130 | 0.85 |
| 294_W | 320_I | 1.130 | 0.85 |
| 581_R | 584_Q | 1.127 | 0.84 |
| 574_K | 614_A | 1.127 | 0.84 |
| 724_L | 728_E | 1.124 | 0.84 |
| 517_E | 545_P | 1.124 | 0.84 |
| 564_L | 567_A | 1.123 | 0.84 |
| 95_W | 110_Y | 1.121 | 0.84 |
| 406_L | 416_I | 1.121 | 0.84 |
| 329_F | 338_G | 1.119 | 0.84 |
| 443_I | 448_I | 1.116 | 0.84 |
| 411_G | 474_D | 1.116 | 0.84 |
| 702_V | 732_D | 1.113 | 0.83 |
| 430_S | 488_Y | 1.107 | 0.83 |
| 172_H | 198_Q | 1.104 | 0.83 |
| 180_D | 183_G | 1.104 | 0.83 |
| 379_S | 503_V | 1.102 | 0.83 |
| 697_I | 704_L | 1.101 | 0.83 |
| 671_K | 691_A | 1.099 | 0.82 |
| 163_H | 169_R | 1.093 | 0.82 |
| 160_R | 168_Y | 1.092 | 0.82 |
| 175_G | 190_G | 1.088 | 0.82 |
| 202_E | 206_R | 1.087 | 0.81 |
| 711_R | 733_F | 1.079 | 0.81 |
| 374_K | 478_F | 1.077 | 0.81 |
| 580_M | 584_Q | 1.075 | 0.80 |
| 699_R | 707_S | 1.074 | 0.80 |
| 556_V | 630_T | 1.074 | 0.80 |
| 352_A | 363_G | 1.069 | 0.80 |
| 84_N | 88_E | 1.069 | 0.80 |
| 597_V | 627_L | 1.069 | 0.80 |
| 96_D | 107_S | 1.068 | 0.80 |
| 582_E | 586_R | 1.067 | 0.80 |
| 594_A | 626_E | 1.065 | 0.80 |
| 221_V | 309_H | 1.063 | 0.79 |
| 374_K | 413_E | 1.062 | 0.79 |
| 634_V | 669_R | 1.062 | 0.79 |
| 86_A | 93_G | 1.059 | 0.79 |
| 219_V | 313_V | 1.059 | 0.79 |
| 677_K | 733_F | 1.058 | 0.79 |
| 95_W | 175_G | 1.056 | 0.79 |
| 382_H | 411_G | 1.051 | 0.78 |
| 376_I | 388_L | 1.050 | 0.78 |
| 508_A | 546_E | 1.047 | 0.78 |
| 293_Q | 314_F | 1.040 | 0.77 |
| 457_S | 472_H | 1.040 | 0.77 |
| 536_V | 593_V | 1.038 | 0.77 |
| 283_N | 291_Y | 1.038 | 0.77 |
| 509_L | 512_A | 1.036 | 0.77 |
| 410_G | 413_E | 1.032 | 0.77 |
| 351_Q | 419_E | 1.032 | 0.77 |
| 526_H | 531_G | 1.030 | 0.76 |
| 614_A | 617_E | 1.029 | 0.76 |
| 518_L | 571_W | 1.027 | 0.76 |
| 107_S | 111_A | 1.026 | 0.76 |
| 318_S | 322_R | 1.025 | 0.76 |
| 565_I | 630_T | 1.025 | 0.76 |
| 212_F | 219_V | 1.025 | 0.76 |
| 228_I | 232_N | 1.024 | 0.76 |
| 106_V | 111_A | 1.023 | 0.76 |
| 377_N | 411_G | 1.023 | 0.76 |
| 702_V | 706_Q | 1.022 | 0.76 |
| 327_L | 330_L | 1.020 | 0.75 |
| 602_F | 633_A | 1.018 | 0.75 |
| 583_W | 748_L | 1.016 | 0.75 |
| 227_V | 250_T | 1.013 | 0.75 |
| 426_V | 430_S | 1.012 | 0.75 |
| 358_D | 404_C | 1.011 | 0.74 |
| 370_L | 392_V | 1.011 | 0.74 |
| 380_L | 446_Q | 1.010 | 0.74 |
| 394_K | 397_Q | 1.009 | 0.74 |
| 374_K | 378_D | 1.009 | 0.74 |
| 620_L | 625_L | 1.008 | 0.74 |
| 231_V | 236_E | 1.006 | 0.74 |
| 371_D | 485_R | 1.005 | 0.74 |
| 292_P | 318_S | 1.003 | 0.74 |
| 630_T | 715_E | 1.002 | 0.74 |
| 387_M | 391_E | 1.001 | 0.73 |
| 170_W | 199_R | 1.000 | 0.73 |
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 | |
| 4rnhA | 1 | 0.55 | 100 | 0.464 | Contact Map |
| 4j40A | 2 | 0.3303 | 100 | 0.474 | Contact Map |
| 3pjxA | 1 | 0.55 | 100 | 0.493 | Contact Map |
| 3gfzA | 2 | 0.4987 | 100 | 0.553 | Contact Map |
| 4hjfA | 1 | 0.3434 | 100 | 0.585 | Contact Map |
| 4hu4A | 2 | 0.325 | 100 | 0.653 | Contact Map |
| 4kieA | 1 | 0.3434 | 100 | 0.655 | Contact Map |
| 4rniA | 2 | 0.3342 | 100 | 0.658 | Contact Map |
| 3sy8A | 4 | 0.5224 | 100 | 0.658 | Contact Map |
| 2r6oA | 2 | 0.3382 | 100 | 0.66 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)