| PH952 |
| ID: | 1426689335 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 758 (632) | ||
| Sequences: | 1869 (1657.3) | ||
| Seq/Len: | 2.957 | ||
| Nf(neff/√len): | 65.9 |
HHblits Results: (2013_03)
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: 2.957).
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 |
| 679_K | 682_D | 5.844 | 1.00 |
| 599_K | 602_D | 5.608 | 1.00 |
| 639_D | 642_R | 5.323 | 1.00 |
| 558_K | 561_D | 4.898 | 1.00 |
| 482_F | 485_K | 4.372 | 1.00 |
| 518_D | 521_K | 4.208 | 1.00 |
| 144_A | 242_I | 4.030 | 1.00 |
| 132_I | 260_L | 3.502 | 1.00 |
| 591_G | 607_Y | 2.661 | 1.00 |
| 604_L | 608_L | 2.579 | 1.00 |
| 142_T | 146_K | 2.422 | 1.00 |
| 122_L | 147_V | 2.339 | 1.00 |
| 655_I | 689_E | 2.331 | 1.00 |
| 264_G | 267_D | 2.322 | 1.00 |
| 534_K | 568_K | 2.302 | 1.00 |
| 563_F | 567_F | 2.203 | 1.00 |
| 112_F | 146_K | 2.201 | 1.00 |
| 272_L | 302_G | 2.181 | 1.00 |
| 329_N | 366_S | 2.161 | 1.00 |
| 332_E | 366_S | 2.111 | 1.00 |
| 631_I | 647_G | 2.096 | 1.00 |
| 671_C | 687_A | 2.087 | 1.00 |
| 132_I | 144_A | 2.083 | 1.00 |
| 684_E | 716_N | 2.072 | 1.00 |
| 608_L | 630_L | 2.071 | 1.00 |
| 604_L | 630_L | 2.067 | 1.00 |
| 134_G | 138_I | 2.054 | 1.00 |
| 684_E | 688_E | 1.985 | 1.00 |
| 574_R | 609_Q | 1.983 | 1.00 |
| 300_L | 324_V | 1.982 | 1.00 |
| 287_I | 298_L | 1.971 | 1.00 |
| 118_E | 143_L | 1.948 | 0.99 |
| 510_A | 526_L | 1.942 | 0.99 |
| 563_F | 590_I | 1.928 | 0.99 |
| 604_L | 637_L | 1.919 | 0.99 |
| 342_F | 405_Y | 1.916 | 0.99 |
| 563_F | 597_M | 1.906 | 0.99 |
| 268_A | 288_Y | 1.893 | 0.99 |
| 268_A | 298_L | 1.877 | 0.99 |
| 136_A | 244_R | 1.860 | 0.99 |
| 644_V | 677_L | 1.831 | 0.99 |
| 644_V | 670_R | 1.819 | 0.99 |
| 265_L | 285_V | 1.774 | 0.99 |
| 594_Y | 599_K | 1.751 | 0.99 |
| 332_E | 367_L | 1.743 | 0.99 |
| 629_E | 669_Y | 1.727 | 0.99 |
| 136_A | 216_Y | 1.689 | 0.98 |
| 627_Y | 646_Y | 1.672 | 0.98 |
| 589_H | 629_E | 1.655 | 0.98 |
| 602_D | 605_K | 1.622 | 0.98 |
| 566_A | 586_V | 1.618 | 0.97 |
| 634_Y | 639_D | 1.617 | 0.97 |
| 634_Y | 642_R | 1.608 | 0.97 |
| 318_D | 392_E | 1.607 | 0.97 |
| 587_L | 606_Y | 1.606 | 0.97 |
| 263_L | 271_L | 1.603 | 0.97 |
| 522_A | 552_F | 1.599 | 0.97 |
| 270_T | 274_A | 1.594 | 0.97 |
| 294_H | 297_A | 1.594 | 0.97 |
| 594_Y | 602_D | 1.593 | 0.97 |
| 116_K | 267_D | 1.573 | 0.97 |
| 421_A | 424_Y | 1.566 | 0.97 |
| 546_Y | 568_K | 1.550 | 0.96 |
| 587_L | 609_Q | 1.528 | 0.96 |
| 550_T | 566_A | 1.517 | 0.96 |
| 129_V | 231_A | 1.512 | 0.96 |
| 506_I | 528_E | 1.503 | 0.96 |
| 322_S | 389_F | 1.489 | 0.95 |
| 634_Y | 674_Y | 1.489 | 0.95 |
| 209_K | 240_V | 1.482 | 0.95 |
| 568_K | 649_K | 1.479 | 0.95 |
| 340_S | 391_R | 1.478 | 0.95 |
| 627_Y | 653_Y | 1.475 | 0.95 |
| 148_F | 211_V | 1.467 | 0.95 |
| 602_D | 606_Y | 1.460 | 0.95 |
| 630_L | 646_Y | 1.453 | 0.94 |
| 348_Y | 364_L | 1.453 | 0.94 |
| 272_L | 284_F | 1.450 | 0.94 |
| 563_F | 594_Y | 1.442 | 0.94 |
| 272_L | 298_L | 1.441 | 0.94 |
| 271_L | 298_L | 1.435 | 0.94 |
| 615_R | 623_E | 1.429 | 0.94 |
| 474_G | 489_L | 1.424 | 0.94 |
| 220_D | 223_I | 1.422 | 0.94 |
| 119_V | 147_V | 1.421 | 0.94 |
| 553_Y | 558_K | 1.419 | 0.93 |
| 607_Y | 629_E | 1.419 | 0.93 |
| 215_V | 241_L | 1.417 | 0.93 |
| 641_E | 677_L | 1.414 | 0.93 |
| 213_D | 242_I | 1.408 | 0.93 |
| 136_A | 371_G | 1.406 | 0.93 |
| 144_A | 213_D | 1.406 | 0.93 |
| 615_R | 655_I | 1.404 | 0.93 |
| 543_L | 569_E | 1.401 | 0.93 |
| 591_G | 606_Y | 1.396 | 0.93 |
| 567_F | 590_I | 1.387 | 0.92 |
| 549_L | 565_S | 1.385 | 0.92 |
| 615_R | 649_K | 1.384 | 0.92 |
| 144_A | 211_V | 1.381 | 0.92 |
| 588_L | 629_E | 1.377 | 0.92 |
| 601_E | 637_L | 1.368 | 0.92 |
| 265_L | 269_Y | 1.368 | 0.92 |
| 329_N | 332_E | 1.362 | 0.92 |
| 644_V | 648_K | 1.362 | 0.92 |
| 688_E | 709_L | 1.356 | 0.91 |
| 493_I | 496_D | 1.348 | 0.91 |
| 639_D | 679_K | 1.342 | 0.91 |
| 713_K | 718_E | 1.332 | 0.90 |
| 122_L | 130_I | 1.323 | 0.90 |
| 546_Y | 572_I | 1.322 | 0.90 |
| 584_A | 664_A | 1.321 | 0.90 |
| 214_D | 291_K | 1.320 | 0.90 |
| 523_E | 527_K | 1.318 | 0.90 |
| 670_R | 686_D | 1.315 | 0.90 |
| 491_L | 495_D | 1.312 | 0.89 |
| 526_L | 545_Y | 1.310 | 0.89 |
| 611_L | 630_L | 1.309 | 0.89 |
| 535_G | 575_K | 1.308 | 0.89 |
| 682_D | 685_K | 1.308 | 0.89 |
| 263_L | 267_D | 1.302 | 0.89 |
| 534_K | 542_E | 1.301 | 0.89 |
| 543_L | 624_H | 1.300 | 0.89 |
| 650_A | 666_T | 1.297 | 0.89 |
| 594_Y | 674_Y | 1.296 | 0.89 |
| 535_G | 616_A | 1.286 | 0.88 |
| 712_V | 716_N | 1.284 | 0.88 |
| 609_Q | 649_K | 1.283 | 0.88 |
| 118_E | 260_L | 1.282 | 0.88 |
| 553_Y | 565_S | 1.281 | 0.88 |
| 402_Y | 424_Y | 1.279 | 0.88 |
| 531_S | 571_E | 1.273 | 0.87 |
| 593_I | 597_M | 1.269 | 0.87 |
| 651_V | 655_I | 1.260 | 0.87 |
| 648_K | 670_R | 1.260 | 0.87 |
| 648_K | 652_D | 1.257 | 0.87 |
| 123_L | 147_V | 1.250 | 0.86 |
| 640_Y | 680_L | 1.249 | 0.86 |
| 333_K | 337_Q | 1.247 | 0.86 |
| 291_K | 297_A | 1.246 | 0.86 |
| 575_K | 656_R | 1.243 | 0.86 |
| 287_I | 406_L | 1.242 | 0.86 |
| 297_A | 324_V | 1.241 | 0.86 |
| 519_F | 559_L | 1.236 | 0.85 |
| 138_I | 260_L | 1.235 | 0.85 |
| 391_R | 398_E | 1.234 | 0.85 |
| 691_I | 709_L | 1.229 | 0.85 |
| 688_E | 692_R | 1.228 | 0.85 |
| 527_K | 608_L | 1.224 | 0.84 |
| 208_A | 237_G | 1.222 | 0.84 |
| 608_L | 642_R | 1.217 | 0.84 |
| 515_E | 555_Y | 1.212 | 0.84 |
| 553_Y | 561_D | 1.210 | 0.84 |
| 214_D | 384_D | 1.209 | 0.83 |
| 403_L | 407_D | 1.205 | 0.83 |
| 460_L | 463_I | 1.204 | 0.83 |
| 513_Y | 521_K | 1.199 | 0.83 |
| 674_Y | 679_K | 1.198 | 0.83 |
| 286_E | 290_L | 1.195 | 0.83 |
| 269_Y | 284_F | 1.188 | 0.82 |
| 291_K | 301_F | 1.186 | 0.82 |
| 655_I | 663_A | 1.186 | 0.82 |
| 612_E | 692_R | 1.186 | 0.82 |
| 590_I | 606_Y | 1.185 | 0.82 |
| 324_V | 328_L | 1.183 | 0.82 |
| 527_K | 531_S | 1.183 | 0.82 |
| 142_T | 299_T | 1.182 | 0.82 |
| 319_F | 324_V | 1.182 | 0.82 |
| 630_L | 634_Y | 1.181 | 0.81 |
| 336_L | 372_I | 1.178 | 0.81 |
| 647_G | 669_Y | 1.176 | 0.81 |
| 560_E | 601_E | 1.176 | 0.81 |
| 631_I | 670_R | 1.175 | 0.81 |
| 350_A | 408_Y | 1.174 | 0.81 |
| 430_D | 433_R | 1.173 | 0.81 |
| 710_G | 717_G | 1.171 | 0.81 |
| 494_E | 509_L | 1.171 | 0.81 |
| 550_T | 671_C | 1.170 | 0.81 |
| 384_D | 387_K | 1.168 | 0.80 |
| 477_Y | 594_Y | 1.164 | 0.80 |
| 272_L | 305_Y | 1.161 | 0.80 |
| 114_G | 263_L | 1.158 | 0.80 |
| 470_K | 496_D | 1.155 | 0.79 |
| 268_A | 293_G | 1.154 | 0.79 |
| 530_E | 549_L | 1.154 | 0.79 |
| 112_F | 267_D | 1.154 | 0.79 |
| 520_K | 681_D | 1.154 | 0.79 |
| 123_L | 150_D | 1.154 | 0.79 |
| 521_K | 524_K | 1.149 | 0.79 |
| 114_G | 260_L | 1.148 | 0.79 |
| 487_L | 491_L | 1.144 | 0.79 |
| 571_E | 692_R | 1.141 | 0.78 |
| 473_L | 477_Y | 1.140 | 0.78 |
| 148_F | 209_K | 1.140 | 0.78 |
| 534_K | 574_R | 1.139 | 0.78 |
| 138_I | 294_H | 1.137 | 0.78 |
| 503_A | 529_L | 1.136 | 0.78 |
| 612_E | 652_D | 1.136 | 0.78 |
| 131_V | 243_S | 1.134 | 0.78 |
| 294_H | 301_F | 1.133 | 0.78 |
| 121_T | 125_S | 1.133 | 0.78 |
| 217_K | 300_L | 1.131 | 0.77 |
| 134_G | 260_L | 1.131 | 0.77 |
| 559_L | 593_I | 1.130 | 0.77 |
| 491_L | 648_K | 1.129 | 0.77 |
| 634_Y | 646_Y | 1.128 | 0.77 |
| 300_L | 381_F | 1.122 | 0.77 |
| 671_C | 686_D | 1.121 | 0.77 |
| 388_G | 392_E | 1.121 | 0.77 |
| 216_Y | 300_L | 1.120 | 0.76 |
| 583_E | 623_E | 1.117 | 0.76 |
| 518_D | 599_K | 1.115 | 0.76 |
| 141_T | 396_I | 1.115 | 0.76 |
| 144_A | 148_F | 1.113 | 0.76 |
| 724_F | 728_K | 1.111 | 0.76 |
| 486_A | 512_V | 1.110 | 0.76 |
| 325_Y | 389_F | 1.110 | 0.76 |
| 354_L | 408_Y | 1.109 | 0.75 |
| 570_L | 587_L | 1.108 | 0.75 |
| 674_Y | 686_D | 1.107 | 0.75 |
| 618_N | 623_E | 1.106 | 0.75 |
| 527_K | 688_E | 1.105 | 0.75 |
| 641_E | 681_D | 1.104 | 0.75 |
| 517_N | 598_E | 1.102 | 0.75 |
| 338_I | 405_Y | 1.100 | 0.75 |
| 529_L | 610_A | 1.100 | 0.75 |
| 550_T | 631_I | 1.098 | 0.74 |
| 474_G | 490_W | 1.097 | 0.74 |
| 332_E | 370_K | 1.096 | 0.74 |
| 709_L | 713_K | 1.096 | 0.74 |
| 726_I | 730_R | 1.094 | 0.74 |
| 626_S | 679_K | 1.094 | 0.74 |
| 243_S | 247_L | 1.094 | 0.74 |
| 267_D | 270_T | 1.093 | 0.74 |
| 335_M | 360_S | 1.093 | 0.74 |
| 567_F | 571_E | 1.090 | 0.74 |
| 129_V | 241_L | 1.089 | 0.74 |
| 559_L | 597_M | 1.088 | 0.74 |
| 291_K | 371_G | 1.088 | 0.74 |
| 136_A | 297_A | 1.083 | 0.73 |
| 674_Y | 682_D | 1.082 | 0.73 |
| 108_N | 146_K | 1.081 | 0.73 |
| 568_K | 572_I | 1.080 | 0.73 |
| 543_L | 664_A | 1.080 | 0.73 |
| 570_L | 574_R | 1.079 | 0.73 |
| 644_V | 674_Y | 1.078 | 0.73 |
| 563_F | 593_I | 1.078 | 0.73 |
| 134_G | 294_H | 1.076 | 0.72 |
| 523_E | 556_M | 1.075 | 0.72 |
| 721_K | 725_V | 1.071 | 0.72 |
| 644_V | 673_A | 1.070 | 0.72 |
| 570_L | 651_V | 1.069 | 0.72 |
| 684_E | 709_L | 1.065 | 0.71 |
| 528_E | 532_I | 1.065 | 0.71 |
| 213_D | 216_Y | 1.065 | 0.71 |
| 133_Y | 257_Y | 1.064 | 0.71 |
| 533_V | 545_Y | 1.064 | 0.71 |
| 141_T | 145_A | 1.061 | 0.71 |
| 262_G | 294_H | 1.058 | 0.71 |
| 510_A | 529_L | 1.058 | 0.71 |
| 210_I | 239_L | 1.057 | 0.70 |
| 291_K | 300_L | 1.057 | 0.70 |
| 575_K | 696_S | 1.056 | 0.70 |
| 673_A | 712_V | 1.056 | 0.70 |
| 341_L | 391_R | 1.054 | 0.70 |
| 118_E | 258_F | 1.053 | 0.70 |
| 687_A | 708_F | 1.052 | 0.70 |
| 614_A | 654_F | 1.052 | 0.70 |
| 317_F | 385_L | 1.051 | 0.70 |
| 615_R | 627_Y | 1.050 | 0.70 |
| 138_I | 295_P | 1.049 | 0.70 |
| 689_E | 692_R | 1.048 | 0.69 |
| 324_V | 389_F | 1.048 | 0.69 |
| 644_V | 679_K | 1.043 | 0.69 |
| 406_L | 425_A | 1.042 | 0.69 |
| 223_I | 294_H | 1.041 | 0.69 |
| 491_L | 521_K | 1.040 | 0.69 |
| 275_K | 299_T | 1.039 | 0.69 |
| 516_L | 677_L | 1.038 | 0.68 |
| 573_I | 586_V | 1.037 | 0.68 |
| 114_G | 119_V | 1.037 | 0.68 |
| 283_D | 287_I | 1.036 | 0.68 |
| 157_S | 214_D | 1.035 | 0.68 |
| 586_V | 666_T | 1.035 | 0.68 |
| 639_D | 720_G | 1.034 | 0.68 |
| 230_L | 237_G | 1.031 | 0.68 |
| 611_L | 623_E | 1.031 | 0.68 |
| 265_L | 293_G | 1.031 | 0.68 |
| 651_V | 663_A | 1.028 | 0.67 |
| 140_K | 244_R | 1.028 | 0.67 |
| 523_E | 549_L | 1.028 | 0.67 |
| 510_A | 525_Y | 1.026 | 0.67 |
| 591_G | 598_E | 1.025 | 0.67 |
| 600_L | 640_Y | 1.022 | 0.67 |
| 292_K | 384_D | 1.022 | 0.67 |
| 722_E | 725_V | 1.020 | 0.66 |
| 532_I | 613_V | 1.014 | 0.66 |
| 521_K | 561_D | 1.013 | 0.66 |
| 506_I | 525_Y | 1.013 | 0.66 |
| 420_T | 424_Y | 1.010 | 0.65 |
| 550_T | 569_E | 1.009 | 0.65 |
| 422_F | 441_R | 1.007 | 0.65 |
| 703_W | 706_Y | 1.005 | 0.65 |
| 155_Q | 214_D | 1.002 | 0.64 |
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 | |
| 1z6tA | 4 | 0.6649 | 100 | 0.656 | Contact Map |
| 3sfzA | 1 | 0.7889 | 100 | 0.747 | Contact Map |
| 2a5yB | 2 | 0.5356 | 100 | 0.748 | Contact Map |
| 2fnaA | 2 | 0.3734 | 99.9 | 0.823 | Contact Map |
| 3sf4A | 3 | 0.4393 | 99.9 | 0.829 | Contact Map |
| 3ro2A | 1 | 0.4024 | 99.9 | 0.829 | Contact Map |
| 4a1sA | 2 | 0.3813 | 99.9 | 0.834 | Contact Map |
| 3ulqA | 1 | 0.4367 | 99.9 | 0.839 | Contact Map |
| 4jhrA | 2 | 0.3588 | 99.9 | 0.841 | Contact Map |
| 1hz4A | 1 | 0.3945 | 99.9 | 0.842 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)