| chen |
| ID: | 1510541573 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 757 (756) | ||
| Sequences: | 1580 (1043.1) | ||
| Seq/Len: | 2.090 | ||
| Nf(neff/√len): | 37.9 |
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: 2.090).
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 |
| 15_T | 18_D | 5.461 | 1.00 |
| 17_F | 70_E | 4.281 | 1.00 |
| 10_I | 36_L | 3.901 | 1.00 |
| 105_V | 120_I | 3.807 | 1.00 |
| 598_L | 753_L | 3.701 | 1.00 |
| 602_L | 700_A | 3.521 | 1.00 |
| 615_R | 634_A | 3.402 | 1.00 |
| 663_A | 753_L | 3.261 | 1.00 |
| 133_V | 158_F | 3.245 | 1.00 |
| 541_A | 561_L | 3.213 | 1.00 |
| 701_L | 746_F | 3.200 | 1.00 |
| 291_V | 691_I | 3.191 | 1.00 |
| 221_R | 225_E | 3.129 | 1.00 |
| 690_L | 742_V | 3.100 | 1.00 |
| 16_L | 67_G | 3.083 | 1.00 |
| 615_R | 637_L | 3.081 | 1.00 |
| 23_V | 78_R | 2.913 | 1.00 |
| 534_E | 566_T | 2.858 | 1.00 |
| 65_P | 69_A | 2.845 | 1.00 |
| 44_S | 98_A | 2.796 | 1.00 |
| 41_E | 57_R | 2.685 | 1.00 |
| 729_D | 734_R | 2.660 | 1.00 |
| 302_T | 432_R | 2.616 | 1.00 |
| 151_L | 173_H | 2.570 | 1.00 |
| 220_G | 252_L | 2.526 | 1.00 |
| 292_L | 595_A | 2.480 | 1.00 |
| 69_A | 225_E | 2.470 | 1.00 |
| 598_L | 663_A | 2.459 | 1.00 |
| 241_A | 244_D | 2.448 | 1.00 |
| 24_P | 78_R | 2.411 | 1.00 |
| 136_D | 140_E | 2.351 | 1.00 |
| 34_L | 71_L | 2.306 | 1.00 |
| 495_R | 584_E | 2.302 | 1.00 |
| 538_L | 562_T | 2.300 | 1.00 |
| 8_L | 19_A | 2.280 | 1.00 |
| 58_V | 68_L | 2.277 | 1.00 |
| 64_G | 67_G | 2.270 | 1.00 |
| 104_D | 108_R | 2.233 | 1.00 |
| 290_R | 448_I | 2.219 | 1.00 |
| 117_Y | 214_D | 2.190 | 1.00 |
| 382_Q | 393_A | 2.184 | 1.00 |
| 36_L | 75_A | 2.142 | 1.00 |
| 619_S | 627_R | 2.130 | 0.99 |
| 68_L | 227_L | 2.126 | 0.99 |
| 41_E | 60_A | 2.112 | 0.99 |
| 694_D | 699_I | 2.094 | 0.99 |
| 684_G | 718_T | 2.085 | 0.99 |
| 135_G | 153_Y | 2.079 | 0.99 |
| 138_P | 170_R | 2.072 | 0.99 |
| 27_H | 78_R | 2.065 | 0.99 |
| 170_R | 174_D | 2.058 | 0.99 |
| 84_V | 228_V | 2.052 | 0.99 |
| 27_H | 80_M | 2.035 | 0.99 |
| 298_E | 302_T | 2.011 | 0.99 |
| 471_L | 600_Q | 2.005 | 0.99 |
| 74_A | 78_R | 1.992 | 0.99 |
| 86_I | 233_V | 1.963 | 0.99 |
| 298_E | 446_F | 1.959 | 0.99 |
| 537_A | 565_V | 1.930 | 0.99 |
| 65_P | 221_R | 1.930 | 0.99 |
| 435_S | 486_I | 1.927 | 0.99 |
| 243_G | 273_Q | 1.924 | 0.99 |
| 250_A | 277_A | 1.923 | 0.99 |
| 685_A | 716_G | 1.906 | 0.99 |
| 479_S | 617_D | 1.900 | 0.99 |
| 515_E | 519_W | 1.895 | 0.99 |
| 534_E | 562_T | 1.889 | 0.98 |
| 703_T | 706_P | 1.864 | 0.98 |
| 690_L | 701_L | 1.863 | 0.98 |
| 23_V | 75_A | 1.863 | 0.98 |
| 682_A | 690_L | 1.862 | 0.98 |
| 146_V | 160_I | 1.860 | 0.98 |
| 685_A | 717_D | 1.856 | 0.98 |
| 24_P | 635_S | 1.843 | 0.98 |
| 488_A | 585_L | 1.840 | 0.98 |
| 324_R | 355_E | 1.833 | 0.98 |
| 691_I | 702_A | 1.823 | 0.98 |
| 599_L | 700_A | 1.823 | 0.98 |
| 240_R | 408_L | 1.820 | 0.98 |
| 454_H | 677_Y | 1.812 | 0.98 |
| 595_A | 702_A | 1.808 | 0.98 |
| 503_V | 577_L | 1.804 | 0.98 |
| 218_E | 222_W | 1.803 | 0.98 |
| 116_D | 208_D | 1.803 | 0.98 |
| 102_W | 202_A | 1.793 | 0.98 |
| 215_T | 219_I | 1.786 | 0.98 |
| 450_A | 691_I | 1.786 | 0.98 |
| 434_T | 517_L | 1.773 | 0.97 |
| 518_I | 537_A | 1.766 | 0.97 |
| 617_D | 634_A | 1.765 | 0.97 |
| 104_D | 113_E | 1.756 | 0.97 |
| 701_L | 745_L | 1.755 | 0.97 |
| 17_F | 20_A | 1.753 | 0.97 |
| 574_V | 578_L | 1.749 | 0.97 |
| 472_T | 479_S | 1.741 | 0.97 |
| 143_A | 154_Y | 1.735 | 0.97 |
| 17_F | 67_G | 1.730 | 0.97 |
| 314_R | 317_E | 1.727 | 0.97 |
| 435_S | 487_T | 1.723 | 0.97 |
| 219_I | 231_L | 1.723 | 0.97 |
| 23_V | 71_L | 1.723 | 0.97 |
| 599_L | 603_A | 1.719 | 0.97 |
| 93_V | 202_A | 1.717 | 0.97 |
| 530_R | 566_T | 1.706 | 0.97 |
| 729_D | 732_T | 1.704 | 0.97 |
| 377_A | 381_A | 1.694 | 0.96 |
| 16_L | 39_L | 1.693 | 0.96 |
| 555_P | 559_E | 1.692 | 0.96 |
| 523_V | 582_V | 1.690 | 0.96 |
| 28_R | 642_D | 1.681 | 0.96 |
| 293_V | 436_L | 1.676 | 0.96 |
| 581_L | 585_L | 1.669 | 0.96 |
| 319_V | 422_V | 1.667 | 0.96 |
| 197_A | 330_I | 1.665 | 0.96 |
| 519_W | 564_L | 1.664 | 0.96 |
| 522_I | 533_L | 1.660 | 0.96 |
| 601_L | 609_V | 1.650 | 0.96 |
| 218_E | 221_R | 1.645 | 0.96 |
| 136_D | 141_L | 1.640 | 0.95 |
| 504_G | 515_E | 1.640 | 0.95 |
| 701_L | 720_V | 1.637 | 0.95 |
| 680_V | 699_I | 1.637 | 0.95 |
| 284_A | 603_A | 1.630 | 0.95 |
| 305_V | 513_V | 1.621 | 0.95 |
| 741_R | 744_E | 1.616 | 0.95 |
| 72_S | 227_L | 1.614 | 0.95 |
| 209_P | 248_R | 1.609 | 0.95 |
| 357_A | 417_I | 1.609 | 0.95 |
| 304_I | 497_R | 1.607 | 0.95 |
| 289_D | 596_A | 1.606 | 0.95 |
| 597_K | 660_V | 1.600 | 0.95 |
| 615_R | 633_A | 1.596 | 0.94 |
| 715_W | 718_T | 1.593 | 0.94 |
| 250_A | 258_I | 1.588 | 0.94 |
| 101_W | 117_Y | 1.587 | 0.94 |
| 378_V | 396_G | 1.585 | 0.94 |
| 502_E | 577_L | 1.565 | 0.94 |
| 433_L | 486_I | 1.562 | 0.94 |
| 6_Y | 26_L | 1.559 | 0.94 |
| 307_E | 501_T | 1.552 | 0.93 |
| 86_I | 219_I | 1.550 | 0.93 |
| 286_A | 441_G | 1.548 | 0.93 |
| 165_G | 168_T | 1.540 | 0.93 |
| 318_L | 426_A | 1.534 | 0.93 |
| 20_A | 70_E | 1.515 | 0.92 |
| 661_S | 665_R | 1.515 | 0.92 |
| 315_W | 426_A | 1.509 | 0.92 |
| 108_R | 162_E | 1.506 | 0.92 |
| 323_K | 418_M | 1.505 | 0.92 |
| 499_F | 503_V | 1.503 | 0.92 |
| 65_P | 218_E | 1.500 | 0.92 |
| 482_T | 524_G | 1.496 | 0.92 |
| 702_A | 746_F | 1.495 | 0.92 |
| 283_D | 467_S | 1.488 | 0.91 |
| 68_L | 82_V | 1.488 | 0.91 |
| 488_A | 588_A | 1.485 | 0.91 |
| 28_R | 639_D | 1.481 | 0.91 |
| 243_G | 247_R | 1.478 | 0.91 |
| 28_R | 635_S | 1.476 | 0.91 |
| 746_F | 751_V | 1.472 | 0.91 |
| 518_I | 568_A | 1.470 | 0.91 |
| 590_Y | 650_D | 1.470 | 0.91 |
| 453_F | 691_I | 1.469 | 0.91 |
| 33_W | 229_D | 1.456 | 0.90 |
| 213_D | 252_L | 1.449 | 0.90 |
| 114_Y | 117_Y | 1.448 | 0.90 |
| 678_H | 694_D | 1.443 | 0.90 |
| 75_A | 80_M | 1.435 | 0.89 |
| 425_N | 545_G | 1.435 | 0.89 |
| 559_E | 563_R | 1.430 | 0.89 |
| 436_L | 446_F | 1.426 | 0.89 |
| 669_D | 755_V | 1.426 | 0.89 |
| 42_S | 59_D | 1.424 | 0.89 |
| 542_R | 558_E | 1.421 | 0.89 |
| 521_A | 533_L | 1.415 | 0.88 |
| 642_D | 665_R | 1.414 | 0.88 |
| 633_A | 637_L | 1.409 | 0.88 |
| 160_I | 164_T | 1.404 | 0.88 |
| 602_L | 693_F | 1.402 | 0.88 |
| 260_V | 276_I | 1.401 | 0.88 |
| 57_R | 60_A | 1.395 | 0.87 |
| 308_A | 504_G | 1.393 | 0.87 |
| 284_A | 469_T | 1.393 | 0.87 |
| 689_H | 709_L | 1.391 | 0.87 |
| 16_L | 68_L | 1.386 | 0.87 |
| 76_H | 229_D | 1.386 | 0.87 |
| 514_L | 557_F | 1.383 | 0.87 |
| 415_G | 418_M | 1.377 | 0.86 |
| 480_E | 600_Q | 1.375 | 0.86 |
| 213_D | 248_R | 1.374 | 0.86 |
| 287_G | 456_A | 1.374 | 0.86 |
| 682_A | 720_V | 1.369 | 0.86 |
| 153_Y | 156_H | 1.363 | 0.86 |
| 120_I | 129_L | 1.362 | 0.86 |
| 116_D | 210_R | 1.358 | 0.85 |
| 471_L | 480_E | 1.354 | 0.85 |
| 510_G | 564_L | 1.351 | 0.85 |
| 336_R | 350_E | 1.351 | 0.85 |
| 693_F | 700_A | 1.337 | 0.84 |
| 637_L | 654_A | 1.335 | 0.84 |
| 684_G | 687_A | 1.330 | 0.84 |
| 504_G | 512_R | 1.328 | 0.84 |
| 365_S | 411_Q | 1.324 | 0.83 |
| 36_L | 82_V | 1.321 | 0.83 |
| 450_A | 705_L | 1.320 | 0.83 |
| 3_A | 32_D | 1.318 | 0.83 |
| 285_L | 470_T | 1.317 | 0.83 |
| 246_L | 260_V | 1.315 | 0.83 |
| 289_D | 487_T | 1.313 | 0.83 |
| 14_F | 61_A | 1.311 | 0.82 |
| 492_A | 495_R | 1.311 | 0.82 |
| 703_T | 749_Y | 1.306 | 0.82 |
| 499_F | 577_L | 1.303 | 0.82 |
| 20_A | 23_V | 1.301 | 0.82 |
| 297_G | 301_L | 1.298 | 0.82 |
| 223_I | 228_V | 1.296 | 0.81 |
| 615_R | 657_T | 1.294 | 0.81 |
| 556_A | 559_E | 1.291 | 0.81 |
| 438_E | 441_G | 1.290 | 0.81 |
| 83_V | 257_P | 1.290 | 0.81 |
| 161_A | 177_H | 1.287 | 0.81 |
| 523_V | 585_L | 1.287 | 0.81 |
| 510_G | 560_R | 1.285 | 0.81 |
| 698_A | 753_L | 1.283 | 0.81 |
| 562_T | 566_T | 1.283 | 0.81 |
| 531_E | 535_A | 1.280 | 0.80 |
| 457_Q | 603_A | 1.280 | 0.80 |
| 185_R | 189_D | 1.274 | 0.80 |
| 357_A | 414_S | 1.272 | 0.80 |
| 11_S | 14_F | 1.268 | 0.80 |
| 20_A | 74_A | 1.262 | 0.79 |
| 719_V | 739_A | 1.261 | 0.79 |
| 399_L | 410_F | 1.258 | 0.79 |
| 322_R | 429_R | 1.255 | 0.79 |
| 137_G | 182_S | 1.255 | 0.79 |
| 683_R | 721_D | 1.247 | 0.78 |
| 528_A | 618_R | 1.244 | 0.78 |
| 428_Y | 621_V | 1.244 | 0.78 |
| 186_A | 333_S | 1.241 | 0.77 |
| 574_V | 577_L | 1.240 | 0.77 |
| 169_P | 172_V | 1.233 | 0.77 |
| 39_L | 84_V | 1.227 | 0.76 |
| 55_H | 100_R | 1.222 | 0.76 |
| 289_D | 435_S | 1.216 | 0.75 |
| 39_L | 82_V | 1.215 | 0.75 |
| 375_D | 396_G | 1.214 | 0.75 |
| 43_E | 200_T | 1.213 | 0.75 |
| 74_A | 77_E | 1.213 | 0.75 |
| 638_L | 661_S | 1.212 | 0.75 |
| 491_E | 592_N | 1.211 | 0.75 |
| 4_S | 32_D | 1.205 | 0.74 |
| 54_D | 57_R | 1.204 | 0.74 |
| 135_G | 154_Y | 1.203 | 0.74 |
| 670_R | 673_L | 1.201 | 0.74 |
| 44_S | 61_A | 1.197 | 0.74 |
| 152_V | 157_R | 1.196 | 0.74 |
| 92_G | 202_A | 1.189 | 0.73 |
| 682_A | 692_G | 1.176 | 0.72 |
| 69_A | 227_L | 1.173 | 0.72 |
| 320_P | 324_R | 1.173 | 0.72 |
| 589_G | 593_G | 1.173 | 0.72 |
| 10_I | 75_A | 1.172 | 0.72 |
| 205_R | 208_D | 1.170 | 0.71 |
| 244_D | 248_R | 1.169 | 0.71 |
| 499_F | 581_L | 1.169 | 0.71 |
| 616_W | 653_G | 1.168 | 0.71 |
| 459_D | 463_R | 1.165 | 0.71 |
| 139_D | 185_R | 1.161 | 0.71 |
| 355_E | 384_A | 1.159 | 0.70 |
| 734_R | 748_D | 1.157 | 0.70 |
| 356_I | 378_V | 1.155 | 0.70 |
| 598_L | 659_V | 1.154 | 0.70 |
| 680_V | 720_V | 1.154 | 0.70 |
| 284_A | 288_I | 1.149 | 0.69 |
| 385_A | 392_L | 1.148 | 0.69 |
| 692_G | 701_L | 1.147 | 0.69 |
| 292_L | 599_L | 1.147 | 0.69 |
| 482_T | 521_A | 1.145 | 0.69 |
| 356_I | 410_F | 1.141 | 0.69 |
| 19_A | 71_L | 1.140 | 0.69 |
| 359_A | 384_A | 1.138 | 0.68 |
| 590_Y | 655_V | 1.138 | 0.68 |
| 579_E | 582_V | 1.137 | 0.68 |
| 663_A | 698_A | 1.132 | 0.68 |
| 535_A | 538_L | 1.128 | 0.67 |
| 514_L | 541_A | 1.127 | 0.67 |
| 152_V | 155_E | 1.124 | 0.67 |
| 453_F | 457_Q | 1.123 | 0.67 |
| 613_T | 617_D | 1.119 | 0.66 |
| 223_I | 256_R | 1.117 | 0.66 |
| 742_V | 746_F | 1.116 | 0.66 |
| 673_L | 698_A | 1.115 | 0.66 |
| 436_L | 447_A | 1.108 | 0.65 |
| 420_K | 424_D | 1.105 | 0.65 |
| 301_L | 446_F | 1.104 | 0.65 |
| 519_W | 574_V | 1.103 | 0.65 |
| 161_A | 164_T | 1.103 | 0.65 |
| 184_R | 552_D | 1.100 | 0.64 |
| 130_R | 181_M | 1.096 | 0.64 |
| 492_A | 707_L | 1.088 | 0.63 |
| 136_D | 143_A | 1.085 | 0.63 |
| 495_R | 581_L | 1.084 | 0.63 |
| 197_A | 545_G | 1.083 | 0.63 |
| 18_D | 21_R | 1.080 | 0.62 |
| 223_I | 253_A | 1.080 | 0.62 |
| 577_L | 580_R | 1.078 | 0.62 |
| 415_G | 476_T | 1.077 | 0.62 |
| 107_A | 165_G | 1.076 | 0.62 |
| 58_V | 64_G | 1.068 | 0.61 |
| 658_L | 662_R | 1.067 | 0.61 |
| 214_D | 217_R | 1.065 | 0.61 |
| 677_Y | 693_F | 1.065 | 0.61 |
| 511_D | 547_S | 1.064 | 0.61 |
| 357_A | 413_T | 1.063 | 0.61 |
| 617_D | 627_R | 1.063 | 0.61 |
| 523_V | 581_L | 1.063 | 0.61 |
| 39_L | 68_L | 1.061 | 0.60 |
| 236_P | 246_L | 1.060 | 0.60 |
| 138_P | 173_H | 1.059 | 0.60 |
| 117_Y | 204_V | 1.054 | 0.60 |
| 181_M | 185_R | 1.052 | 0.59 |
| 619_S | 634_A | 1.051 | 0.59 |
| 503_V | 574_V | 1.051 | 0.59 |
| 10_I | 39_L | 1.045 | 0.59 |
| 534_E | 538_L | 1.045 | 0.59 |
| 75_A | 82_V | 1.043 | 0.58 |
| 472_T | 482_T | 1.041 | 0.58 |
| 128_R | 174_D | 1.039 | 0.58 |
| 73_R | 76_H | 1.039 | 0.58 |
| 438_E | 476_T | 1.037 | 0.58 |
| 644_G | 647_P | 1.027 | 0.57 |
| 25_Y | 614_E | 1.027 | 0.57 |
| 386_P | 389_E | 1.023 | 0.56 |
| 658_L | 661_S | 1.021 | 0.56 |
| 55_H | 101_W | 1.019 | 0.56 |
| 223_I | 231_L | 1.018 | 0.56 |
| 22_I | 26_L | 1.017 | 0.56 |
| 258_I | 277_A | 1.017 | 0.56 |
| 224_A | 252_L | 1.015 | 0.55 |
| 547_S | 557_F | 1.015 | 0.55 |
| 680_V | 694_D | 1.012 | 0.55 |
| 479_S | 618_R | 1.010 | 0.55 |
| 320_P | 359_A | 1.009 | 0.55 |
| 102_W | 526_W | 1.007 | 0.54 |
| 107_A | 162_E | 1.007 | 0.54 |
| 151_L | 160_I | 1.004 | 0.54 |
| 143_A | 153_Y | 1.004 | 0.54 |
| 486_I | 491_E | 1.004 | 0.54 |
| 515_E | 564_L | 1.003 | 0.54 |
| 717_D | 741_R | 1.001 | 0.54 |
| 687_A | 718_T | 1.000 | 0.54 |
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 | |
| 1iv8A | 1 | 0.897 | 100 | 0.316 | Contact Map |
| 3hjeA | 1 | 0.9036 | 100 | 0.318 | Contact Map |
| 1ea9C | 2 | 0.5469 | 100 | 0.873 | Contact Map |
| 1j0hA | 2 | 0.5456 | 100 | 0.875 | Contact Map |
| 2wc7A | 1 | 0.5456 | 100 | 0.877 | Contact Map |
| 2z1kA | 4 | 0.5641 | 100 | 0.878 | Contact Map |
| 1wzlA | 2 | 0.5469 | 100 | 0.878 | Contact Map |
| 4aeeA | 2 | 0.5588 | 100 | 0.878 | Contact Map |
| 4aefA | 2 | 0.5443 | 100 | 0.883 | Contact Map |
| 3ucqA | 1 | 0.6697 | 100 | 0.883 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)