| cMyBP-C_1 |
| ID: | 1500502126 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 970 (784) | ||
| Sequences: | 18466 (8796.5) | ||
| Seq/Len: | 23.554 | ||
| Nf(neff/√len): | 314.2 |
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: 23.554).
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 |
| 619_G | 622_C | 4.142 | 1.00 |
| 478_E | 481_A | 3.449 | 1.00 |
| 569_D | 572_V | 3.434 | 1.00 |
| 670_V | 750_V | 3.414 | 1.00 |
| 674_G | 678_P | 3.411 | 1.00 |
| 555_V | 605_V | 3.407 | 1.00 |
| 464_V | 516_A | 3.371 | 1.00 |
| 565_C | 615_F | 3.228 | 1.00 |
| 577_L | 616_V | 3.103 | 1.00 |
| 588_R | 609_D | 2.991 | 1.00 |
| 474_C | 526_L | 2.952 | 1.00 |
| 754_N | 757_G | 2.921 | 1.00 |
| 387_A | 391_A | 2.744 | 1.00 |
| 487_K | 524_Y | 2.687 | 1.00 |
| 470_V | 537_L | 2.670 | 1.00 |
| 486_L | 527_C | 2.633 | 1.00 |
| 396_L | 436_V | 2.627 | 1.00 |
| 384_V | 435_C | 2.612 | 1.00 |
| 380_I | 446_L | 2.559 | 1.00 |
| 753_K | 758_E | 2.555 | 1.00 |
| 179_G | 186_P | 2.485 | 1.00 |
| 374_V | 425_C | 2.458 | 1.00 |
| 723_R | 744_D | 2.395 | 1.00 |
| 562_V | 601_T | 2.386 | 1.00 |
| 683_Q | 751_T | 2.376 | 1.00 |
| 849_N | 852_G | 2.337 | 1.00 |
| 499_K | 520_D | 2.331 | 1.00 |
| 578_K | 613_Y | 2.274 | 1.00 |
| 171_I | 253_L | 2.268 | 1.00 |
| 666_L | 765_V | 2.265 | 1.00 |
| 684_K | 689_G | 2.248 | 1.00 |
| 808_E | 844_R | 2.225 | 1.00 |
| 471_E | 512_I | 2.193 | 1.00 |
| 556_G | 559_D | 2.188 | 1.00 |
| 439_G | 442_C | 2.153 | 1.00 |
| 465_M | 468_Q | 2.148 | 1.00 |
| 660_V | 740_A | 2.122 | 1.00 |
| 577_L | 582_E | 2.078 | 1.00 |
| 908_C | 940_L | 2.068 | 1.00 |
| 395_W | 420_L | 2.034 | 1.00 |
| 472_F | 537_L | 2.024 | 1.00 |
| 906_E | 942_R | 2.020 | 1.00 |
| 397_K | 433_Y | 2.015 | 1.00 |
| 487_K | 520_D | 2.014 | 1.00 |
| 810_K | 842_E | 1.998 | 1.00 |
| 557_A | 607_P | 1.987 | 1.00 |
| 555_V | 561_A | 1.985 | 1.00 |
| 749_T | 760_Q | 1.977 | 1.00 |
| 560_Q | 603_D | 1.923 | 1.00 |
| 381_R | 421_T | 1.918 | 1.00 |
| 486_L | 491_E | 1.917 | 1.00 |
| 749_T | 762_N | 1.902 | 1.00 |
| 902_G | 946_H | 1.883 | 1.00 |
| 466_V | 518_L | 1.881 | 1.00 |
| 564_K | 599_K | 1.872 | 1.00 |
| 173_F | 253_L | 1.867 | 1.00 |
| 396_L | 401_E | 1.852 | 1.00 |
| 667_R | 736_T | 1.851 | 1.00 |
| 469_R | 515_E | 1.847 | 1.00 |
| 408_K | 429_D | 1.838 | 1.00 |
| 575_V | 616_V | 1.833 | 1.00 |
| 396_L | 434_Q | 1.825 | 1.00 |
| 684_K | 746_G | 1.812 | 1.00 |
| 181_S | 184_K | 1.799 | 1.00 |
| 578_K | 611_A | 1.799 | 1.00 |
| 905_V | 943_V | 1.791 | 1.00 |
| 382_L | 446_L | 1.784 | 1.00 |
| 434_Q | 443_S | 1.783 | 1.00 |
| 661_V | 664_N | 1.777 | 1.00 |
| 672_I | 752_V | 1.776 | 1.00 |
| 374_V | 380_I | 1.775 | 1.00 |
| 577_L | 614_S | 1.775 | 1.00 |
| 846_Y | 856_P | 1.772 | 1.00 |
| 469_R | 514_N | 1.771 | 1.00 |
| 578_K | 609_D | 1.764 | 1.00 |
| 397_K | 429_D | 1.763 | 1.00 |
| 747_V | 762_N | 1.753 | 1.00 |
| 579_N | 583_L | 1.732 | 1.00 |
| 562_V | 599_K | 1.711 | 1.00 |
| 672_I | 680_V | 1.707 | 1.00 |
| 464_V | 470_V | 1.698 | 1.00 |
| 473_E | 510_H | 1.689 | 1.00 |
| 242_T | 245_K | 1.685 | 1.00 |
| 488_D | 492_L | 1.679 | 1.00 |
| 881_S | 884_T | 1.677 | 1.00 |
| 751_T | 760_Q | 1.677 | 1.00 |
| 804_G | 848_V | 1.671 | 1.00 |
| 576_W | 600_L | 1.671 | 1.00 |
| 783_G | 786_S | 1.662 | 1.00 |
| 375_S | 378_H | 1.655 | 1.00 |
| 429_D | 433_Y | 1.644 | 1.00 |
| 665_K | 738_E | 1.634 | 1.00 |
| 165_V | 228_A | 1.632 | 1.00 |
| 469_R | 512_I | 1.628 | 1.00 |
| 560_Q | 601_T | 1.626 | 1.00 |
| 737_V | 744_D | 1.622 | 1.00 |
| 848_V | 853_M | 1.617 | 1.00 |
| 470_V | 516_A | 1.614 | 1.00 |
| 523_H | 536_E | 1.608 | 1.00 |
| 579_N | 614_S | 1.607 | 1.00 |
| 397_K | 431_A | 1.606 | 1.00 |
| 487_K | 522_G | 1.601 | 1.00 |
| 476_V | 483_V | 1.601 | 1.00 |
| 689_G | 692_A | 1.600 | 1.00 |
| 787_C | 791_W | 1.588 | 1.00 |
| 575_V | 582_E | 1.585 | 1.00 |
| 745_E | 767_V | 1.583 | 1.00 |
| 486_L | 525_A | 1.580 | 1.00 |
| 944_R | 954_P | 1.572 | 1.00 |
| 530_G | 533_A | 1.571 | 1.00 |
| 191_F | 239_E | 1.568 | 1.00 |
| 563_F | 613_Y | 1.566 | 1.00 |
| 471_E | 510_H | 1.564 | 1.00 |
| 394_K | 436_V | 1.561 | 1.00 |
| 561_A | 628_L | 1.556 | 1.00 |
| 565_C | 670_V | 1.551 | 1.00 |
| 930_V | 941_F | 1.545 | 1.00 |
| 175_A | 238_C | 1.538 | 1.00 |
| 660_V | 666_L | 1.535 | 1.00 |
| 484_K | 491_E | 1.533 | 1.00 |
| 485_W | 511_L | 1.528 | 1.00 |
| 787_C | 843_M | 1.526 | 1.00 |
| 520_D | 524_Y | 1.519 | 1.00 |
| 525_A | 534_L | 1.519 | 1.00 |
| 567_V | 574_G | 1.512 | 1.00 |
| 817_W | 844_R | 1.511 | 1.00 |
| 560_Q | 604_D | 1.510 | 1.00 |
| 944_R | 952_G | 1.503 | 1.00 |
| 567_V | 617_P | 1.502 | 1.00 |
| 379_K | 424_Q | 1.498 | 1.00 |
| 84_S | 87_V | 1.495 | 1.00 |
| 947_N | 950_G | 1.494 | 1.00 |
| 394_K | 401_E | 1.494 | 1.00 |
| 684_K | 748_Y | 1.493 | 1.00 |
| 832_A | 835_M | 1.490 | 1.00 |
| 832_A | 843_M | 1.481 | 1.00 |
| 874_H | 890_R | 1.480 | 1.00 |
| 462_Q | 470_V | 1.477 | 1.00 |
| 683_Q | 749_T | 1.468 | 1.00 |
| 488_D | 525_A | 1.468 | 1.00 |
| 546_V | 550_I | 1.465 | 1.00 |
| 682_W | 735_F | 1.454 | 1.00 |
| 513_I | 516_A | 1.452 | 1.00 |
| 563_F | 576_W | 1.437 | 1.00 |
| 484_K | 527_C | 1.437 | 1.00 |
| 20_V | 70_V | 1.432 | 1.00 |
| 684_K | 744_D | 1.431 | 1.00 |
| 383_T | 419_T | 1.422 | 1.00 |
| 438_G | 442_C | 1.421 | 1.00 |
| 602_I | 609_D | 1.420 | 1.00 |
| 53_K | 74_D | 1.419 | 1.00 |
| 33_E | 37_V | 1.415 | 1.00 |
| 391_A | 437_V | 1.414 | 1.00 |
| 892_P | 900_L | 1.413 | 1.00 |
| 30_A | 80_V | 1.408 | 1.00 |
| 376_K | 427_L | 1.404 | 0.99 |
| 777_P | 789_V | 1.396 | 0.99 |
| 628_L | 633_V | 1.381 | 0.99 |
| 746_G | 750_V | 1.379 | 0.99 |
| 379_K | 421_T | 1.371 | 0.99 |
| 386_L | 437_V | 1.369 | 0.99 |
| 841_Y | 845_V | 1.364 | 0.99 |
| 561_A | 605_V | 1.363 | 0.99 |
| 523_H | 534_L | 1.358 | 0.99 |
| 563_F | 628_L | 1.356 | 0.99 |
| 909_P | 934_P | 1.355 | 0.99 |
| 763_L | 767_V | 1.354 | 0.99 |
| 228_A | 233_T | 1.351 | 0.99 |
| 885_V | 941_F | 1.350 | 0.99 |
| 747_V | 764_T | 1.345 | 0.99 |
| 472_F | 524_Y | 1.342 | 0.99 |
| 172_T | 224_H | 1.341 | 0.99 |
| 432_A | 445_E | 1.341 | 0.99 |
| 521_A | 524_Y | 1.334 | 0.99 |
| 846_Y | 853_M | 1.334 | 0.99 |
| 609_D | 613_Y | 1.327 | 0.99 |
| 474_C | 565_C | 1.326 | 0.99 |
| 381_R | 419_T | 1.325 | 0.99 |
| 626_A | 629_H | 1.324 | 0.99 |
| 744_D | 748_Y | 1.323 | 0.99 |
| 432_A | 443_S | 1.319 | 0.99 |
| 668_L | 682_W | 1.311 | 0.99 |
| 751_T | 758_E | 1.310 | 0.99 |
| 386_L | 393_V | 1.308 | 0.99 |
| 561_A | 602_I | 1.306 | 0.99 |
| 380_I | 425_C | 1.301 | 0.99 |
| 546_V | 549_S | 1.295 | 0.99 |
| 944_R | 951_P | 1.293 | 0.99 |
| 946_H | 951_P | 1.289 | 0.99 |
| 667_R | 734_I | 1.285 | 0.99 |
| 776_A | 792_E | 1.285 | 0.99 |
| 28_F | 91_L | 1.277 | 0.99 |
| 398_N | 402_I | 1.277 | 0.99 |
| 668_L | 765_V | 1.276 | 0.99 |
| 488_D | 491_E | 1.274 | 0.99 |
| 887_L | 941_F | 1.273 | 0.99 |
| 513_I | 520_D | 1.270 | 0.99 |
| 807_L | 845_V | 1.266 | 0.99 |
| 630_F | 633_V | 1.262 | 0.99 |
| 237_R | 250_N | 1.259 | 0.99 |
| 886_S | 929_L | 1.253 | 0.99 |
| 430_D | 433_Y | 1.253 | 0.99 |
| 379_K | 423_S | 1.250 | 0.99 |
| 481_A | 528_T | 1.249 | 0.99 |
| 906_E | 944_R | 1.247 | 0.99 |
| 740_A | 746_G | 1.244 | 0.98 |
| 675_D | 678_P | 1.240 | 0.98 |
| 393_V | 437_V | 1.231 | 0.98 |
| 602_I | 605_V | 1.230 | 0.98 |
| 476_V | 481_A | 1.220 | 0.98 |
| 438_G | 441_K | 1.220 | 0.98 |
| 666_L | 737_V | 1.219 | 0.98 |
| 179_G | 242_T | 1.215 | 0.98 |
| 789_V | 843_M | 1.213 | 0.98 |
| 794_P | 805_Y | 1.211 | 0.98 |
| 644_P | 757_G | 1.210 | 0.98 |
| 399_G | 434_Q | 1.208 | 0.98 |
| 455_I | 459_L | 1.208 | 0.98 |
| 470_V | 513_I | 1.208 | 0.98 |
| 535_A | 539_V | 1.207 | 0.98 |
| 553_L | 561_A | 1.201 | 0.98 |
| 160_P | 249_S | 1.199 | 0.98 |
| 806_I | 848_V | 1.198 | 0.98 |
| 674_G | 677_A | 1.194 | 0.98 |
| 680_V | 752_V | 1.190 | 0.98 |
| 589_I | 602_I | 1.189 | 0.98 |
| 472_F | 485_W | 1.188 | 0.98 |
| 384_V | 474_C | 1.188 | 0.98 |
| 915_W | 942_R | 1.187 | 0.98 |
| 177_V | 188_V | 1.187 | 0.98 |
| 740_A | 745_E | 1.186 | 0.98 |
| 626_A | 630_F | 1.185 | 0.98 |
| 422_I | 425_C | 1.184 | 0.98 |
| 26_A | 91_L | 1.179 | 0.98 |
| 241_S | 246_F | 1.178 | 0.98 |
| 165_V | 171_I | 1.177 | 0.98 |
| 846_Y | 854_S | 1.174 | 0.98 |
| 516_A | 539_V | 1.173 | 0.98 |
| 380_I | 422_I | 1.173 | 0.98 |
| 425_C | 429_D | 1.166 | 0.97 |
| 192_K | 236_Y | 1.165 | 0.97 |
| 666_L | 740_A | 1.164 | 0.97 |
| 646_I | 759_D | 1.164 | 0.97 |
| 388_D | 391_A | 1.163 | 0.97 |
| 393_V | 418_R | 1.158 | 0.97 |
| 907_Y | 930_V | 1.157 | 0.97 |
| 398_N | 434_Q | 1.157 | 0.97 |
| 905_V | 928_I | 1.156 | 0.97 |
| 408_K | 411_F | 1.153 | 0.97 |
| 189_K | 239_E | 1.148 | 0.97 |
| 847_A | 854_S | 1.147 | 0.97 |
| 605_V | 610_E | 1.146 | 0.97 |
| 454_L | 458_P | 1.138 | 0.97 |
| 386_L | 391_A | 1.137 | 0.97 |
| 574_G | 598_H | 1.133 | 0.97 |
| 232_F | 236_Y | 1.131 | 0.97 |
| 579_N | 582_E | 1.131 | 0.97 |
| 235_S | 250_N | 1.130 | 0.97 |
| 393_V | 435_C | 1.129 | 0.97 |
| 681_I | 751_T | 1.125 | 0.97 |
| 177_V | 240_V | 1.125 | 0.97 |
| 382_L | 444_T | 1.124 | 0.97 |
| 489_G | 525_A | 1.122 | 0.97 |
| 612_D | 627_K | 1.120 | 0.96 |
| 605_V | 613_Y | 1.119 | 0.96 |
| 892_P | 903_Y | 1.119 | 0.96 |
| 808_E | 846_Y | 1.118 | 0.96 |
| 674_G | 754_N | 1.118 | 0.96 |
| 472_F | 535_A | 1.117 | 0.96 |
| 435_C | 526_L | 1.117 | 0.96 |
| 742_K | 745_E | 1.115 | 0.96 |
| 590_K | 603_D | 1.114 | 0.96 |
| 891_P | 903_Y | 1.113 | 0.96 |
| 225_I | 232_F | 1.112 | 0.96 |
| 186_P | 242_T | 1.110 | 0.96 |
| 483_V | 526_L | 1.109 | 0.96 |
| 425_C | 431_A | 1.108 | 0.96 |
| 847_A | 852_G | 1.107 | 0.96 |
| 904_S | 946_H | 1.106 | 0.96 |
| 883_T | 935_T | 1.105 | 0.96 |
| 681_I | 753_K | 1.104 | 0.96 |
| 628_L | 631_M | 1.102 | 0.96 |
| 955_V | 958_T | 1.099 | 0.96 |
| 427_L | 430_D | 1.094 | 0.96 |
| 422_I | 429_D | 1.092 | 0.96 |
| 772_D | 854_S | 1.089 | 0.96 |
| 487_K | 490_V | 1.089 | 0.96 |
| 870_S | 952_G | 1.088 | 0.96 |
| 186_P | 240_V | 1.087 | 0.96 |
| 930_V | 933_L | 1.082 | 0.96 |
| 607_P | 610_E | 1.082 | 0.96 |
| 618_E | 623_N | 1.081 | 0.95 |
| 857_S | 860_S | 1.081 | 0.95 |
| 876_A | 888_K | 1.081 | 0.95 |
| 669_D | 734_I | 1.080 | 0.95 |
| 737_V | 740_A | 1.080 | 0.95 |
| 179_G | 184_K | 1.079 | 0.95 |
| 454_L | 476_V | 1.077 | 0.95 |
| 791_W | 807_L | 1.076 | 0.95 |
| 783_G | 787_C | 1.075 | 0.95 |
| 518_L | 541_E | 1.074 | 0.95 |
| 875_L | 887_L | 1.073 | 0.95 |
| 541_E | 569_D | 1.068 | 0.95 |
| 83_G | 87_V | 1.066 | 0.95 |
| 173_F | 251_F | 1.065 | 0.95 |
| 435_C | 615_F | 1.061 | 0.95 |
| 174_S | 222_E | 1.059 | 0.95 |
| 469_R | 516_A | 1.057 | 0.95 |
| 456_T | 475_E | 1.056 | 0.95 |
| 575_V | 618_E | 1.055 | 0.95 |
| 191_F | 237_R | 1.055 | 0.95 |
| 779_I | 787_C | 1.053 | 0.95 |
| 567_V | 572_V | 1.052 | 0.95 |
| 43_R | 74_D | 1.049 | 0.94 |
| 839_V | 843_M | 1.049 | 0.94 |
| 779_I | 785_D | 1.047 | 0.94 |
| 27_V | 66_T | 1.047 | 0.94 |
| 617_P | 622_C | 1.045 | 0.94 |
| 382_L | 395_W | 1.044 | 0.94 |
| 506_G | 509_H | 1.042 | 0.94 |
| 239_E | 248_C | 1.041 | 0.94 |
| 578_K | 581_K | 1.041 | 0.94 |
| 163_G | 171_I | 1.040 | 0.94 |
| 665_K | 736_T | 1.039 | 0.94 |
| 379_K | 425_C | 1.039 | 0.94 |
| 808_E | 856_P | 1.038 | 0.94 |
| 476_V | 528_T | 1.035 | 0.94 |
| 778_K | 792_E | 1.034 | 0.94 |
| 516_A | 522_G | 1.033 | 0.94 |
| 425_C | 448_V | 1.033 | 0.94 |
| 904_S | 951_P | 1.033 | 0.94 |
| 835_M | 843_M | 1.030 | 0.94 |
| 516_A | 537_L | 1.030 | 0.94 |
| 483_V | 509_H | 1.027 | 0.94 |
| 171_I | 225_I | 1.027 | 0.94 |
| 398_N | 431_A | 1.026 | 0.94 |
| 420_L | 429_D | 1.026 | 0.94 |
| 735_F | 744_D | 1.025 | 0.93 |
| 909_P | 937_A | 1.024 | 0.93 |
| 474_C | 670_V | 1.024 | 0.93 |
| 463_L | 540_Q | 1.023 | 0.93 |
| 680_V | 733_S | 1.022 | 0.93 |
| 615_F | 750_V | 1.021 | 0.93 |
| 660_V | 664_N | 1.021 | 0.93 |
| 194_K | 203_G | 1.017 | 0.93 |
| 899_G | 947_N | 1.015 | 0.93 |
| 910_E | 940_L | 1.014 | 0.93 |
| 191_F | 205_H | 1.012 | 0.93 |
| 615_F | 622_C | 1.012 | 0.93 |
| 37_V | 82_A | 1.011 | 0.93 |
| 842_E | 859_A | 1.007 | 0.93 |
| 854_S | 857_S | 1.006 | 0.93 |
| 807_L | 830_H | 1.006 | 0.93 |
| 595_G | 598_H | 1.005 | 0.93 |
| 490_V | 493_T | 1.005 | 0.93 |
| 901_D | 948_M | 1.003 | 0.93 |
| 521_A | 539_V | 1.003 | 0.93 |
| 610_E | 613_Y | 1.002 | 0.92 |
| 845_V | 854_S | 1.002 | 0.92 |
| 752_V | 759_D | 1.001 | 0.92 |
| 906_E | 954_P | 1.000 | 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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 3b43A | 1 | 0.5742 | 100 | 0.456 | Contact Map |
| 3dmkA | 3 | 0.6505 | 100 | 0.536 | Contact Map |
| 1e07A | 1 | 0.6155 | 100 | 0.541 | Contact Map |
| 3v2aR | 1 | 0.1856 | 100 | 0.568 | Contact Map |
| 4pbxA | 1 | 0.5526 | 100 | 0.578 | Contact Map |
| 4yh7A | 1 | 0 | 100 | 0.584 | Contact Map |
| 4liqE | 1 | 0.4567 | 100 | 0.629 | Contact Map |
| 2rcjC | 10 | 0.4742 | 100 | 0.632 | Contact Map |
| 2ocwA | 1 | 0.5031 | 100 | 0.634 | Contact Map |
| 3qs9E | 4 | 0.4021 | 100 | 0.638 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)