| ccka jack 10-4 - 4 - 75 - 75 |
| ID: | 1433157740 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 691 (629) | ||
| Sequences: | 3608 (3140.7) | ||
| Seq/Len: | 5.736 | ||
| Nf(neff/√len): | 125.2 |
Jackhmmer Results: (2015_01_07)
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: 5.736).
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 |
| 598_L | 617_I | 4.977 | 1.00 |
| 335_L | 355_I | 4.021 | 1.00 |
| 529_R | 532_E | 3.505 | 1.00 |
| 622_S | 634_L | 3.473 | 1.00 |
| 489_M | 526_V | 3.322 | 1.00 |
| 383_L | 419_A | 3.299 | 1.00 |
| 206_F | 292_I | 3.088 | 1.00 |
| 583_R | 599_E | 3.052 | 1.00 |
| 601_A | 605_E | 2.945 | 1.00 |
| 602_D | 628_G | 2.904 | 1.00 |
| 298_K | 301_E | 2.820 | 1.00 |
| 630_D | 633_T | 2.806 | 1.00 |
| 525_H | 537_R | 2.788 | 1.00 |
| 572_R | 596_E | 2.755 | 1.00 |
| 485_P | 488_V | 2.743 | 1.00 |
| 637_K | 640_G | 2.684 | 1.00 |
| 332_Q | 359_G | 2.669 | 1.00 |
| 600_A | 609_I | 2.578 | 1.00 |
| 576_V | 606_A | 2.499 | 1.00 |
| 577_E | 583_R | 2.494 | 1.00 |
| 432_A | 450_I | 2.475 | 1.00 |
| 611_E | 641_Y | 2.424 | 1.00 |
| 604_E | 628_G | 2.366 | 1.00 |
| 485_P | 530_P | 2.351 | 1.00 |
| 610_A | 638_A | 2.336 | 1.00 |
| 635_L | 647_V | 2.324 | 1.00 |
| 301_E | 305_S | 2.256 | 1.00 |
| 209_A | 289_A | 2.254 | 1.00 |
| 484_I | 488_V | 2.250 | 1.00 |
| 194_P | 198_D | 2.250 | 1.00 |
| 622_S | 635_L | 2.248 | 1.00 |
| 513_V | 524_I | 2.227 | 1.00 |
| 619_L | 684_V | 2.221 | 1.00 |
| 297_Q | 301_E | 2.212 | 1.00 |
| 183_P | 187_A | 2.174 | 1.00 |
| 419_A | 520_S | 2.114 | 1.00 |
| 378_V | 382_V | 2.097 | 1.00 |
| 427_A | 517_V | 2.079 | 1.00 |
| 577_E | 626_M | 2.075 | 1.00 |
| 514_Y | 518_K | 2.068 | 1.00 |
| 304_L | 308_Q | 2.063 | 1.00 |
| 474_F | 539_F | 2.056 | 1.00 |
| 474_F | 537_R | 2.041 | 1.00 |
| 572_R | 598_L | 2.040 | 1.00 |
| 607_L | 634_L | 2.024 | 1.00 |
| 442_A | 480_D | 2.019 | 1.00 |
| 478_S | 535_A | 2.010 | 1.00 |
| 344_V | 348_S | 1.978 | 1.00 |
| 526_V | 536_F | 1.942 | 1.00 |
| 409_D | 451_R | 1.932 | 1.00 |
| 518_K | 523_W | 1.898 | 1.00 |
| 427_A | 516_I | 1.890 | 1.00 |
| 635_L | 667_G | 1.867 | 1.00 |
| 602_D | 605_E | 1.866 | 1.00 |
| 493_F | 524_I | 1.852 | 1.00 |
| 649_F | 667_G | 1.849 | 1.00 |
| 573_I | 595_Y | 1.825 | 1.00 |
| 593_R | 681_A | 1.824 | 1.00 |
| 648_M | 683_R | 1.816 | 1.00 |
| 575_F | 586_A | 1.815 | 1.00 |
| 576_V | 634_L | 1.812 | 1.00 |
| 587_A | 591_R | 1.808 | 1.00 |
| 209_A | 221_V | 1.804 | 1.00 |
| 428_V | 475_I | 1.788 | 1.00 |
| 476_E | 537_R | 1.780 | 1.00 |
| 475_I | 538_I | 1.768 | 1.00 |
| 265_E | 298_K | 1.758 | 1.00 |
| 620_L | 645_A | 1.748 | 1.00 |
| 660_D | 664_G | 1.738 | 1.00 |
| 384_D | 387_E | 1.732 | 1.00 |
| 575_F | 597_V | 1.725 | 1.00 |
| 603_G | 634_L | 1.723 | 1.00 |
| 488_V | 491_K | 1.701 | 1.00 |
| 476_E | 535_A | 1.698 | 1.00 |
| 427_A | 538_I | 1.694 | 1.00 |
| 583_R | 601_A | 1.679 | 1.00 |
| 207_G | 231_M | 1.672 | 1.00 |
| 453_A | 476_E | 1.671 | 1.00 |
| 517_V | 538_I | 1.668 | 1.00 |
| 603_G | 629_I | 1.666 | 1.00 |
| 245_D | 248_S | 1.658 | 1.00 |
| 212_E | 218_T | 1.647 | 1.00 |
| 604_E | 608_I | 1.642 | 1.00 |
| 472_T | 539_F | 1.637 | 1.00 |
| 484_I | 489_M | 1.633 | 0.99 |
| 334_R | 585_V | 1.619 | 0.99 |
| 311_Q | 315_Q | 1.614 | 0.99 |
| 330_A | 358_T | 1.612 | 0.99 |
| 451_R | 478_S | 1.602 | 0.99 |
| 409_D | 449_R | 1.600 | 0.99 |
| 639_R | 668_V | 1.597 | 0.99 |
| 613_N | 617_I | 1.595 | 0.99 |
| 587_A | 599_E | 1.586 | 0.99 |
| 396_L | 432_A | 1.575 | 0.99 |
| 625_I | 653_Y | 1.574 | 0.99 |
| 345_G | 348_S | 1.563 | 0.99 |
| 669_T | 686_Q | 1.553 | 0.99 |
| 204_S | 208_A | 1.552 | 0.99 |
| 669_T | 687_Q | 1.547 | 0.99 |
| 212_E | 220_R | 1.537 | 0.99 |
| 451_R | 476_E | 1.535 | 0.99 |
| 453_A | 474_F | 1.529 | 0.99 |
| 578_D | 631_G | 1.522 | 0.99 |
| 234_A | 271_D | 1.507 | 0.99 |
| 338_L | 352_L | 1.496 | 0.99 |
| 449_R | 478_S | 1.493 | 0.99 |
| 382_V | 418_R | 1.491 | 0.99 |
| 579_E | 582_V | 1.488 | 0.99 |
| 339_L | 349_Y | 1.483 | 0.99 |
| 629_I | 637_K | 1.469 | 0.99 |
| 610_A | 620_L | 1.466 | 0.99 |
| 574_L | 600_A | 1.465 | 0.99 |
| 187_A | 191_A | 1.463 | 0.99 |
| 342_H | 348_S | 1.457 | 0.99 |
| 227_A | 230_T | 1.450 | 0.99 |
| 452_T | 475_I | 1.449 | 0.99 |
| 576_V | 600_A | 1.446 | 0.99 |
| 578_D | 626_M | 1.442 | 0.98 |
| 669_T | 683_R | 1.438 | 0.98 |
| 573_I | 619_L | 1.406 | 0.98 |
| 270_R | 274_R | 1.395 | 0.98 |
| 571_G | 595_Y | 1.395 | 0.98 |
| 330_A | 334_R | 1.392 | 0.98 |
| 190_A | 193_P | 1.386 | 0.98 |
| 439_V | 448_V | 1.384 | 0.98 |
| 484_I | 492_I | 1.384 | 0.98 |
| 620_L | 638_A | 1.378 | 0.98 |
| 374_R | 498_T | 1.375 | 0.98 |
| 374_R | 506_T | 1.371 | 0.98 |
| 607_L | 610_A | 1.360 | 0.98 |
| 642_L | 645_A | 1.357 | 0.97 |
| 644_T | 668_V | 1.349 | 0.97 |
| 423_Q | 426_T | 1.347 | 0.97 |
| 629_I | 633_T | 1.345 | 0.97 |
| 384_D | 416_Q | 1.342 | 0.97 |
| 296_E | 299_Q | 1.342 | 0.97 |
| 442_A | 446_G | 1.337 | 0.97 |
| 527_H | 535_A | 1.329 | 0.97 |
| 330_A | 581_A | 1.329 | 0.97 |
| 624_V | 649_F | 1.329 | 0.97 |
| 209_A | 228_L | 1.328 | 0.97 |
| 299_Q | 303_Q | 1.324 | 0.97 |
| 501_P | 504_E | 1.323 | 0.97 |
| 207_G | 291_M | 1.312 | 0.97 |
| 225_N | 228_L | 1.311 | 0.97 |
| 427_A | 513_V | 1.311 | 0.97 |
| 603_G | 627_P | 1.309 | 0.97 |
| 683_R | 687_Q | 1.307 | 0.97 |
| 193_P | 196_S | 1.306 | 0.97 |
| 389_I | 452_T | 1.305 | 0.97 |
| 651_S | 670_F | 1.305 | 0.97 |
| 626_M | 629_I | 1.304 | 0.97 |
| 302_L | 305_S | 1.297 | 0.96 |
| 598_L | 609_I | 1.295 | 0.96 |
| 201_A | 223_E | 1.294 | 0.96 |
| 633_T | 637_K | 1.292 | 0.96 |
| 607_L | 629_I | 1.287 | 0.96 |
| 392_F | 432_A | 1.283 | 0.96 |
| 598_L | 613_N | 1.279 | 0.96 |
| 300_I | 304_L | 1.278 | 0.96 |
| 472_T | 541_P | 1.277 | 0.96 |
| 486_P | 529_R | 1.276 | 0.96 |
| 381_E | 421_K | 1.269 | 0.96 |
| 405_K | 447_V | 1.269 | 0.96 |
| 610_A | 645_A | 1.267 | 0.96 |
| 347_P | 588_R | 1.265 | 0.96 |
| 407_I | 447_V | 1.262 | 0.96 |
| 94_A | 102_V | 1.259 | 0.96 |
| 570_A | 595_Y | 1.248 | 0.95 |
| 324_F | 365_L | 1.247 | 0.95 |
| 297_Q | 300_I | 1.241 | 0.95 |
| 498_T | 504_E | 1.237 | 0.95 |
| 351_G | 588_R | 1.235 | 0.95 |
| 647_V | 667_G | 1.234 | 0.95 |
| 224_T | 228_L | 1.233 | 0.95 |
| 578_D | 673_K | 1.224 | 0.95 |
| 396_L | 429_M | 1.220 | 0.95 |
| 572_R | 617_I | 1.217 | 0.94 |
| 324_F | 328_L | 1.215 | 0.94 |
| 528_S | 532_E | 1.214 | 0.94 |
| 248_S | 267_R | 1.210 | 0.94 |
| 634_L | 638_A | 1.208 | 0.94 |
| 622_S | 649_F | 1.207 | 0.94 |
| 522_G | 541_P | 1.206 | 0.94 |
| 492_I | 526_V | 1.206 | 0.94 |
| 600_A | 603_G | 1.205 | 0.94 |
| 329_T | 582_V | 1.204 | 0.94 |
| 170_P | 173_V | 1.203 | 0.94 |
| 219_S | 225_N | 1.190 | 0.94 |
| 197_L | 200_F | 1.190 | 0.94 |
| 407_I | 449_R | 1.189 | 0.93 |
| 494_D | 497_F | 1.188 | 0.93 |
| 339_L | 353_N | 1.188 | 0.93 |
| 183_P | 186_V | 1.187 | 0.93 |
| 441_A | 498_T | 1.185 | 0.93 |
| 624_V | 632_P | 1.184 | 0.93 |
| 270_R | 273_S | 1.179 | 0.93 |
| 447_V | 480_D | 1.172 | 0.93 |
| 426_T | 516_I | 1.171 | 0.93 |
| 589_L | 677_I | 1.170 | 0.93 |
| 620_L | 634_L | 1.170 | 0.93 |
| 273_S | 277_H | 1.169 | 0.93 |
| 184_A | 187_A | 1.168 | 0.93 |
| 508_L | 512_T | 1.166 | 0.93 |
| 254_T | 257_N | 1.163 | 0.92 |
| 622_S | 647_V | 1.162 | 0.92 |
| 294_V | 298_K | 1.160 | 0.92 |
| 625_I | 652_G | 1.157 | 0.92 |
| 396_L | 439_V | 1.155 | 0.92 |
| 489_M | 528_S | 1.155 | 0.92 |
| 211_L | 221_V | 1.153 | 0.92 |
| 314_G | 376_Q | 1.152 | 0.92 |
| 571_G | 688_L | 1.148 | 0.92 |
| 338_L | 355_I | 1.146 | 0.92 |
| 235_K | 238_V | 1.146 | 0.92 |
| 198_D | 202_G | 1.145 | 0.92 |
| 659_S | 669_T | 1.145 | 0.92 |
| 578_D | 627_P | 1.145 | 0.92 |
| 191_A | 194_P | 1.144 | 0.92 |
| 493_F | 526_V | 1.144 | 0.92 |
| 368_K | 423_Q | 1.140 | 0.91 |
| 603_G | 626_M | 1.139 | 0.91 |
| 423_Q | 516_I | 1.139 | 0.91 |
| 210_L | 286_R | 1.139 | 0.91 |
| 317_A | 320_V | 1.138 | 0.91 |
| 482_P | 503_G | 1.136 | 0.91 |
| 410_Y | 414_L | 1.135 | 0.91 |
| 225_N | 295_S | 1.135 | 0.91 |
| 333_L | 585_V | 1.132 | 0.91 |
| 355_I | 359_G | 1.129 | 0.91 |
| 197_L | 201_A | 1.128 | 0.91 |
| 326_N | 362_A | 1.125 | 0.91 |
| 391_E | 425_E | 1.121 | 0.91 |
| 276_A | 279_Y | 1.120 | 0.91 |
| 624_V | 667_G | 1.120 | 0.91 |
| 447_V | 478_S | 1.117 | 0.90 |
| 415_P | 454_R | 1.116 | 0.90 |
| 679_T | 682_E | 1.114 | 0.90 |
| 657_E | 660_D | 1.112 | 0.90 |
| 338_L | 348_S | 1.108 | 0.90 |
| 600_A | 606_A | 1.106 | 0.90 |
| 608_I | 612_E | 1.105 | 0.90 |
| 180_D | 183_P | 1.104 | 0.90 |
| 305_S | 309_K | 1.102 | 0.90 |
| 498_T | 503_G | 1.094 | 0.89 |
| 393_E | 408_T | 1.093 | 0.89 |
| 431_L | 477_V | 1.089 | 0.89 |
| 389_I | 408_T | 1.089 | 0.89 |
| 253_E | 257_N | 1.089 | 0.89 |
| 513_V | 538_I | 1.088 | 0.89 |
| 495_P | 515_G | 1.083 | 0.88 |
| 486_P | 489_M | 1.081 | 0.88 |
| 609_I | 617_I | 1.080 | 0.88 |
| 491_K | 497_F | 1.077 | 0.88 |
| 538_I | 541_P | 1.076 | 0.88 |
| 606_A | 634_L | 1.074 | 0.88 |
| 610_A | 642_L | 1.073 | 0.88 |
| 516_I | 520_S | 1.065 | 0.87 |
| 578_D | 623_D | 1.065 | 0.87 |
| 683_R | 686_Q | 1.065 | 0.87 |
| 571_G | 618_D | 1.062 | 0.87 |
| 450_I | 475_I | 1.061 | 0.87 |
| 500_K | 504_E | 1.061 | 0.87 |
| 574_L | 606_A | 1.059 | 0.87 |
| 228_L | 232_T | 1.059 | 0.87 |
| 87_E | 107_G | 1.058 | 0.87 |
| 83_E | 87_E | 1.057 | 0.87 |
| 354_E | 358_T | 1.050 | 0.86 |
| 374_R | 377_T | 1.047 | 0.86 |
| 528_S | 531_N | 1.043 | 0.86 |
| 417_V | 542_V | 1.043 | 0.86 |
| 207_G | 228_L | 1.039 | 0.86 |
| 526_V | 534_A | 1.037 | 0.85 |
| 331_I | 359_G | 1.037 | 0.85 |
| 639_R | 645_A | 1.033 | 0.85 |
| 319_G | 495_P | 1.030 | 0.85 |
| 574_L | 617_I | 1.028 | 0.85 |
| 350_E | 584_S | 1.026 | 0.85 |
| 628_G | 634_L | 1.021 | 0.84 |
| 202_G | 226_P | 1.021 | 0.84 |
| 314_G | 520_S | 1.020 | 0.84 |
| 341_R | 592_A | 1.019 | 0.84 |
| 484_I | 490_G | 1.019 | 0.84 |
| 335_L | 359_G | 1.018 | 0.84 |
| 637_K | 641_Y | 1.011 | 0.83 |
| 393_E | 397_R | 1.010 | 0.83 |
| 245_D | 267_R | 1.010 | 0.83 |
| 269_A | 273_S | 1.009 | 0.83 |
| 328_L | 334_R | 1.008 | 0.83 |
| 622_S | 638_A | 1.004 | 0.83 |
| 626_M | 634_L | 1.003 | 0.83 |
| 632_P | 661_L | 1.003 | 0.83 |
| 590_L | 597_V | 1.000 | 0.82 |
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 | |
| 3a0rA | 1 | 0.4616 | 100 | 0.537 | Contact Map |
| 4gczA | 2 | 0.5094 | 100 | 0.605 | Contact Map |
| 4i5sA | 2 | 0.5427 | 100 | 0.636 | Contact Map |
| 4r3aA | 2 | 0.4356 | 100 | 0.663 | Contact Map |
| 4mpcA | 1 | 0.4689 | 100 | 0.709 | Contact Map |
| 3jz3A | 2 | 0.2272 | 100 | 0.712 | Contact Map |
| 3d36A | 2 | 0.3184 | 100 | 0.713 | Contact Map |
| 4q20A | 2 | 0.3198 | 100 | 0.713 | Contact Map |
| 4e01A | 1 | 0.4038 | 100 | 0.714 | Contact Map |
| 2c2aA | 1 | 0.3314 | 100 | 0.718 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)