| pi -force run |
| ID: | 1428422868 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 742 (715) | ||
| Sequences: | 319 (271.5) | ||
| Seq/Len: | 0.446 | ||
| Nf(neff/√len): | 10.2 |
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: 0.446).
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 |
| 426_E | 431_L | 2.059 | 0.86 |
| 249_G | 252_L | 1.948 | 0.81 |
| 392_T | 395_L | 1.847 | 0.76 |
| 181_M | 184_I | 1.792 | 0.73 |
| 249_G | 256_L | 1.682 | 0.66 |
| 413_N | 416_H | 1.616 | 0.61 |
| 551_S | 554_S | 1.605 | 0.61 |
| 378_A | 381_Y | 1.576 | 0.58 |
| 487_L | 490_E | 1.559 | 0.57 |
| 296_T | 299_L | 1.550 | 0.57 |
| 269_Y | 274_Q | 1.548 | 0.56 |
| 103_I | 106_L | 1.546 | 0.56 |
| 512_L | 515_Y | 1.543 | 0.56 |
| 411_G | 415_S | 1.534 | 0.55 |
| 203_L | 206_T | 1.510 | 0.54 |
| 534_A | 541_P | 1.503 | 0.53 |
| 535_P | 541_P | 1.499 | 0.53 |
| 507_E | 511_E | 1.490 | 0.52 |
| 14_T | 17_T | 1.484 | 0.52 |
| 102_R | 105_E | 1.484 | 0.52 |
| 304_K | 309_S | 1.480 | 0.51 |
| 285_R | 297_S | 1.478 | 0.51 |
| 550_S | 554_S | 1.470 | 0.51 |
| 472_K | 477_S | 1.456 | 0.50 |
| 377_E | 382_R | 1.451 | 0.49 |
| 367_A | 371_R | 1.447 | 0.49 |
| 57_F | 60_L | 1.440 | 0.48 |
| 486_K | 489_E | 1.438 | 0.48 |
| 441_N | 445_S | 1.437 | 0.48 |
| 647_S | 650_K | 1.431 | 0.48 |
| 448_L | 451_L | 1.431 | 0.48 |
| 235_V | 238_L | 1.431 | 0.48 |
| 508_L | 523_D | 1.424 | 0.47 |
| 548_R | 551_S | 1.413 | 0.46 |
| 485_A | 489_E | 1.407 | 0.46 |
| 598_L | 618_C | 1.396 | 0.45 |
| 717_L | 724_L | 1.392 | 0.45 |
| 398_R | 417_N | 1.382 | 0.44 |
| 646_G | 650_K | 1.370 | 0.43 |
| 31_N | 35_V | 1.370 | 0.43 |
| 476_A | 480_L | 1.368 | 0.43 |
| 674_A | 679_S | 1.368 | 0.43 |
| 374_A | 381_Y | 1.362 | 0.43 |
| 389_L | 392_T | 1.359 | 0.42 |
| 720_D | 724_L | 1.359 | 0.42 |
| 102_R | 106_L | 1.357 | 0.42 |
| 280_L | 283_R | 1.355 | 0.42 |
| 610_F | 620_E | 1.353 | 0.42 |
| 479_K | 489_E | 1.351 | 0.42 |
| 200_L | 206_T | 1.351 | 0.42 |
| 688_I | 705_Q | 1.345 | 0.41 |
| 385_V | 388_M | 1.343 | 0.41 |
| 214_I | 217_L | 1.343 | 0.41 |
| 675_M | 679_S | 1.342 | 0.41 |
| 242_L | 245_S | 1.328 | 0.40 |
| 611_L | 625_K | 1.327 | 0.40 |
| 414_T | 417_N | 1.325 | 0.40 |
| 519_N | 523_D | 1.322 | 0.40 |
| 100_V | 569_S | 1.322 | 0.40 |
| 447_E | 451_L | 1.320 | 0.40 |
| 387_K | 393_Q | 1.316 | 0.39 |
| 536_P | 542_S | 1.315 | 0.39 |
| 23_R | 27_P | 1.312 | 0.39 |
| 151_K | 229_K | 1.311 | 0.39 |
| 256_L | 259_A | 1.309 | 0.39 |
| 21_P | 25_A | 1.306 | 0.39 |
| 684_K | 689_M | 1.303 | 0.38 |
| 270_E | 274_Q | 1.302 | 0.38 |
| 453_T | 456_Q | 1.299 | 0.38 |
| 203_L | 219_H | 1.298 | 0.38 |
| 90_N | 99_Q | 1.296 | 0.38 |
| 203_L | 228_M | 1.295 | 0.38 |
| 604_R | 614_H | 1.289 | 0.37 |
| 153_K | 159_K | 1.285 | 0.37 |
| 479_K | 484_E | 1.283 | 0.37 |
| 270_E | 273_L | 1.282 | 0.37 |
| 537_T | 540_D | 1.279 | 0.37 |
| 196_S | 217_L | 1.276 | 0.36 |
| 558_V | 564_E | 1.274 | 0.36 |
| 642_M | 646_G | 1.271 | 0.36 |
| 406_L | 416_H | 1.270 | 0.36 |
| 219_H | 223_D | 1.268 | 0.36 |
| 398_R | 439_E | 1.263 | 0.36 |
| 572_G | 579_E | 1.263 | 0.36 |
| 26_S | 29_I | 1.263 | 0.36 |
| 428_T | 439_E | 1.258 | 0.35 |
| 545_S | 550_S | 1.252 | 0.35 |
| 203_L | 235_V | 1.248 | 0.34 |
| 287_S | 294_L | 1.247 | 0.34 |
| 32_E | 38_T | 1.246 | 0.34 |
| 613_E | 621_E | 1.245 | 0.34 |
| 610_F | 621_E | 1.245 | 0.34 |
| 89_Q | 97_D | 1.242 | 0.34 |
| 245_S | 260_K | 1.241 | 0.34 |
| 263_K | 268_Q | 1.241 | 0.34 |
| 518_N | 523_D | 1.240 | 0.34 |
| 640_L | 647_S | 1.238 | 0.34 |
| 17_T | 20_T | 1.236 | 0.34 |
| 409_E | 441_N | 1.236 | 0.34 |
| 534_A | 537_T | 1.235 | 0.34 |
| 680_G | 683_K | 1.234 | 0.34 |
| 671_L | 676_F | 1.232 | 0.33 |
| 402_L | 419_T | 1.229 | 0.33 |
| 246_K | 259_A | 1.228 | 0.33 |
| 329_E | 332_R | 1.227 | 0.33 |
| 492_N | 511_E | 1.225 | 0.33 |
| 722_T | 725_S | 1.221 | 0.33 |
| 489_E | 495_S | 1.221 | 0.33 |
| 720_D | 723_R | 1.219 | 0.33 |
| 654_N | 657_F | 1.215 | 0.32 |
| 599_Q | 625_K | 1.215 | 0.32 |
| 405_K | 408_D | 1.213 | 0.32 |
| 673_G | 676_F | 1.212 | 0.32 |
| 47_S | 50_N | 1.212 | 0.32 |
| 333_R | 337_E | 1.211 | 0.32 |
| 602_L | 611_L | 1.210 | 0.32 |
| 14_T | 25_A | 1.209 | 0.32 |
| 312_N | 315_L | 1.209 | 0.32 |
| 614_H | 618_C | 1.208 | 0.32 |
| 263_K | 269_Y | 1.204 | 0.32 |
| 492_N | 496_A | 1.203 | 0.32 |
| 291_V | 295_R | 1.198 | 0.31 |
| 706_K | 710_M | 1.198 | 0.31 |
| 171_R | 181_M | 1.197 | 0.31 |
| 32_E | 35_V | 1.196 | 0.31 |
| 708_I | 711_R | 1.194 | 0.31 |
| 165_G | 169_K | 1.192 | 0.31 |
| 462_E | 481_E | 1.192 | 0.31 |
| 446_E | 455_M | 1.188 | 0.31 |
| 484_E | 490_E | 1.187 | 0.30 |
| 666_S | 670_A | 1.184 | 0.30 |
| 246_K | 256_L | 1.184 | 0.30 |
| 713_S | 718_S | 1.184 | 0.30 |
| 219_H | 234_R | 1.177 | 0.30 |
| 167_M | 170_L | 1.176 | 0.30 |
| 567_V | 570_A | 1.175 | 0.30 |
| 398_R | 409_E | 1.175 | 0.30 |
| 715_D | 722_T | 1.168 | 0.29 |
| 424_Q | 428_T | 1.168 | 0.29 |
| 643_P | 646_G | 1.168 | 0.29 |
| 409_E | 412_K | 1.167 | 0.29 |
| 442_L | 455_M | 1.167 | 0.29 |
| 656_E | 659_Q | 1.166 | 0.29 |
| 612_E | 619_L | 1.166 | 0.29 |
| 670_A | 674_A | 1.165 | 0.29 |
| 598_L | 611_L | 1.165 | 0.29 |
| 167_M | 174_I | 1.164 | 0.29 |
| 16_S | 26_S | 1.164 | 0.29 |
| 671_L | 679_S | 1.163 | 0.29 |
| 363_E | 366_T | 1.163 | 0.29 |
| 417_N | 422_K | 1.160 | 0.29 |
| 655_C | 658_V | 1.158 | 0.29 |
| 594_K | 621_E | 1.158 | 0.29 |
| 406_L | 419_T | 1.157 | 0.29 |
| 405_K | 410_E | 1.156 | 0.29 |
| 325_Q | 349_F | 1.155 | 0.29 |
| 689_M | 692_V | 1.155 | 0.29 |
| 606_E | 612_E | 1.155 | 0.29 |
| 100_V | 103_I | 1.155 | 0.29 |
| 24_V | 27_P | 1.150 | 0.28 |
| 428_T | 435_K | 1.150 | 0.28 |
| 697_Q | 701_E | 1.149 | 0.28 |
| 602_L | 606_E | 1.149 | 0.28 |
| 443_K | 447_E | 1.149 | 0.28 |
| 489_E | 496_A | 1.149 | 0.28 |
| 19_G | 27_P | 1.147 | 0.28 |
| 646_G | 649_E | 1.146 | 0.28 |
| 385_V | 393_Q | 1.146 | 0.28 |
| 198_E | 206_T | 1.146 | 0.28 |
| 538_S | 542_S | 1.146 | 0.28 |
| 206_T | 221_R | 1.146 | 0.28 |
| 602_L | 605_T | 1.144 | 0.28 |
| 570_A | 575_A | 1.143 | 0.28 |
| 609_E | 621_E | 1.142 | 0.28 |
| 264_H | 270_E | 1.139 | 0.28 |
| 604_R | 619_L | 1.139 | 0.28 |
| 28_L | 32_E | 1.136 | 0.27 |
| 510_S | 518_N | 1.136 | 0.27 |
| 703_V | 712_S | 1.135 | 0.27 |
| 288_E | 293_R | 1.133 | 0.27 |
| 200_L | 203_L | 1.133 | 0.27 |
| 519_N | 526_A | 1.133 | 0.27 |
| 686_V | 689_M | 1.133 | 0.27 |
| 508_L | 511_E | 1.133 | 0.27 |
| 293_R | 297_S | 1.131 | 0.27 |
| 23_R | 30_H | 1.131 | 0.27 |
| 705_Q | 711_R | 1.129 | 0.27 |
| 500_K | 517_K | 1.128 | 0.27 |
| 612_E | 622_L | 1.128 | 0.27 |
| 672_M | 675_M | 1.127 | 0.27 |
| 672_M | 676_F | 1.126 | 0.27 |
| 675_M | 680_G | 1.125 | 0.27 |
| 314_D | 324_D | 1.123 | 0.27 |
| 77_E | 110_L | 1.122 | 0.27 |
| 280_L | 322_L | 1.117 | 0.26 |
| 284_L | 288_E | 1.116 | 0.26 |
| 593_D | 600_R | 1.116 | 0.26 |
| 688_I | 711_R | 1.115 | 0.26 |
| 557_R | 561_T | 1.113 | 0.26 |
| 599_Q | 610_F | 1.111 | 0.26 |
| 472_K | 478_R | 1.111 | 0.26 |
| 702_D | 711_R | 1.110 | 0.26 |
| 283_R | 290_D | 1.110 | 0.26 |
| 676_F | 679_S | 1.109 | 0.26 |
| 153_K | 160_Y | 1.109 | 0.26 |
| 676_F | 680_G | 1.109 | 0.26 |
| 99_Q | 103_I | 1.109 | 0.26 |
| 674_A | 721_N | 1.108 | 0.26 |
| 567_V | 572_G | 1.106 | 0.26 |
| 643_P | 650_K | 1.105 | 0.26 |
| 670_A | 676_F | 1.105 | 0.26 |
| 407_K | 411_G | 1.105 | 0.26 |
| 438_E | 454_E | 1.104 | 0.25 |
| 16_S | 22_V | 1.104 | 0.25 |
| 24_V | 31_N | 1.103 | 0.25 |
| 515_Y | 518_N | 1.103 | 0.25 |
| 113_T | 120_Q | 1.103 | 0.25 |
| 37_P | 40_A | 1.100 | 0.25 |
| 572_G | 576_K | 1.098 | 0.25 |
| 83_E | 87_N | 1.095 | 0.25 |
| 465_E | 487_L | 1.095 | 0.25 |
| 469_Y | 493_N | 1.094 | 0.25 |
| 570_A | 579_E | 1.094 | 0.25 |
| 228_M | 231_A | 1.091 | 0.25 |
| 482_Q | 493_N | 1.091 | 0.25 |
| 610_F | 702_D | 1.091 | 0.25 |
| 498_K | 522_G | 1.090 | 0.25 |
| 233_K | 236_E | 1.088 | 0.25 |
| 666_S | 673_G | 1.088 | 0.25 |
| 72_L | 78_R | 1.088 | 0.25 |
| 175_S | 179_S | 1.087 | 0.25 |
| 52_V | 62_S | 1.087 | 0.25 |
| 446_E | 449_E | 1.086 | 0.24 |
| 14_T | 23_R | 1.086 | 0.24 |
| 559_T | 563_R | 1.086 | 0.24 |
| 612_E | 626_T | 1.085 | 0.24 |
| 285_R | 316_L | 1.083 | 0.24 |
| 600_R | 603_A | 1.081 | 0.24 |
| 675_M | 678_S | 1.080 | 0.24 |
| 406_L | 427_L | 1.080 | 0.24 |
| 503_A | 507_E | 1.080 | 0.24 |
| 255_Q | 262_D | 1.080 | 0.24 |
| 505_L | 511_E | 1.079 | 0.24 |
| 608_C | 618_C | 1.079 | 0.24 |
| 20_T | 24_V | 1.079 | 0.24 |
| 604_R | 618_C | 1.078 | 0.24 |
| 693_N | 701_E | 1.078 | 0.24 |
| 570_A | 576_K | 1.077 | 0.24 |
| 515_Y | 519_N | 1.076 | 0.24 |
| 722_T | 726_R | 1.076 | 0.24 |
| 424_Q | 431_L | 1.075 | 0.24 |
| 625_K | 632_F | 1.075 | 0.24 |
| 690_T | 705_Q | 1.075 | 0.24 |
| 211_K | 214_I | 1.075 | 0.24 |
| 605_T | 615_V | 1.075 | 0.24 |
| 546_R | 551_S | 1.074 | 0.24 |
| 35_V | 40_A | 1.072 | 0.24 |
| 27_P | 32_E | 1.071 | 0.24 |
| 384_Q | 389_L | 1.071 | 0.24 |
| 211_K | 219_H | 1.070 | 0.24 |
| 170_L | 174_I | 1.070 | 0.24 |
| 672_M | 688_I | 1.069 | 0.24 |
| 238_L | 241_N | 1.069 | 0.24 |
| 160_Y | 600_R | 1.069 | 0.24 |
| 153_K | 156_A | 1.069 | 0.24 |
| 448_L | 466_E | 1.067 | 0.23 |
| 685_Q | 688_I | 1.067 | 0.23 |
| 19_G | 26_S | 1.066 | 0.23 |
| 688_I | 708_I | 1.066 | 0.23 |
| 716_T | 721_N | 1.066 | 0.23 |
| 207_V | 210_L | 1.066 | 0.23 |
| 130_E | 134_K | 1.066 | 0.23 |
| 102_R | 107_E | 1.065 | 0.23 |
| 476_A | 481_E | 1.064 | 0.23 |
| 610_F | 614_H | 1.064 | 0.23 |
| 655_C | 659_Q | 1.063 | 0.23 |
| 639_S | 647_S | 1.062 | 0.23 |
| 371_R | 374_A | 1.062 | 0.23 |
| 268_Q | 271_V | 1.061 | 0.23 |
| 17_T | 24_V | 1.061 | 0.23 |
| 714_V | 719_A | 1.059 | 0.23 |
| 263_K | 266_I | 1.059 | 0.23 |
| 196_S | 203_L | 1.059 | 0.23 |
| 568_S | 572_G | 1.058 | 0.23 |
| 216_K | 222_F | 1.055 | 0.23 |
| 378_A | 382_R | 1.054 | 0.23 |
| 608_C | 621_E | 1.054 | 0.23 |
| 23_R | 32_E | 1.053 | 0.23 |
| 666_S | 691_E | 1.052 | 0.23 |
| 658_V | 661_P | 1.052 | 0.23 |
| 24_V | 28_L | 1.051 | 0.23 |
| 505_L | 522_G | 1.051 | 0.23 |
| 445_S | 472_K | 1.050 | 0.23 |
| 568_S | 574_E | 1.048 | 0.22 |
| 89_Q | 101_R | 1.047 | 0.22 |
| 674_A | 678_S | 1.046 | 0.22 |
| 577_R | 580_N | 1.046 | 0.22 |
| 285_R | 295_R | 1.045 | 0.22 |
| 299_L | 304_K | 1.045 | 0.22 |
| 682_E | 685_Q | 1.044 | 0.22 |
| 595_I | 598_L | 1.044 | 0.22 |
| 709_L | 718_S | 1.044 | 0.22 |
| 36_I | 42_E | 1.043 | 0.22 |
| 384_Q | 387_K | 1.043 | 0.22 |
| 11_A | 14_T | 1.042 | 0.22 |
| 388_M | 400_M | 1.040 | 0.22 |
| 19_G | 23_R | 1.039 | 0.22 |
| 712_S | 718_S | 1.039 | 0.22 |
| 560_S | 569_S | 1.038 | 0.22 |
| 46_Y | 60_L | 1.038 | 0.22 |
| 709_L | 713_S | 1.038 | 0.22 |
| 306_E | 311_E | 1.037 | 0.22 |
| 693_N | 696_L | 1.036 | 0.22 |
| 20_T | 26_S | 1.035 | 0.22 |
| 14_T | 21_P | 1.035 | 0.22 |
| 265_I | 274_Q | 1.035 | 0.22 |
| 16_S | 28_L | 1.034 | 0.22 |
| 690_T | 703_V | 1.033 | 0.22 |
| 686_V | 690_T | 1.032 | 0.22 |
| 684_K | 688_I | 1.032 | 0.22 |
| 673_G | 680_G | 1.031 | 0.22 |
| 489_E | 518_N | 1.031 | 0.22 |
| 699_V | 702_D | 1.030 | 0.22 |
| 385_V | 392_T | 1.029 | 0.21 |
| 673_G | 683_K | 1.029 | 0.21 |
| 726_R | 729_R | 1.028 | 0.21 |
| 340_I | 360_T | 1.027 | 0.21 |
| 596_V | 605_T | 1.027 | 0.21 |
| 418_S | 441_N | 1.027 | 0.21 |
| 311_E | 314_D | 1.024 | 0.21 |
| 715_D | 726_R | 1.024 | 0.21 |
| 573_E | 577_R | 1.024 | 0.21 |
| 255_Q | 260_K | 1.022 | 0.21 |
| 630_Q | 640_L | 1.022 | 0.21 |
| 17_T | 28_L | 1.022 | 0.21 |
| 22_V | 29_I | 1.020 | 0.21 |
| 12_T | 17_T | 1.020 | 0.21 |
| 100_V | 107_E | 1.019 | 0.21 |
| 422_K | 426_E | 1.018 | 0.21 |
| 22_V | 28_L | 1.018 | 0.21 |
| 629_I | 633_A | 1.017 | 0.21 |
| 509_K | 513_S | 1.016 | 0.21 |
| 15_N | 23_R | 1.015 | 0.21 |
| 429_T | 452_K | 1.014 | 0.21 |
| 416_H | 431_L | 1.013 | 0.21 |
| 449_E | 455_M | 1.013 | 0.21 |
| 24_V | 30_H | 1.013 | 0.21 |
| 705_Q | 718_S | 1.012 | 0.21 |
| 23_R | 26_S | 1.012 | 0.21 |
| 13_P | 19_G | 1.011 | 0.21 |
| 19_G | 22_V | 1.011 | 0.21 |
| 100_V | 110_L | 1.011 | 0.21 |
| 671_L | 674_A | 1.011 | 0.21 |
| 510_S | 515_Y | 1.010 | 0.21 |
| 613_E | 622_L | 1.010 | 0.21 |
| 193_K | 200_L | 1.009 | 0.20 |
| 484_E | 491_K | 1.009 | 0.20 |
| 513_S | 518_N | 1.008 | 0.20 |
| 475_E | 497_F | 1.008 | 0.20 |
| 367_A | 422_K | 1.008 | 0.20 |
| 292_E | 295_R | 1.008 | 0.20 |
| 264_H | 267_Q | 1.008 | 0.20 |
| 638_A | 650_K | 1.008 | 0.20 |
| 479_K | 488_A | 1.006 | 0.20 |
| 607_K | 612_E | 1.005 | 0.20 |
| 493_N | 496_A | 1.004 | 0.20 |
| 416_H | 420_I | 1.003 | 0.20 |
| 562_S | 565_E | 1.003 | 0.20 |
| 10_E | 16_S | 1.003 | 0.20 |
| 71_L | 84_L | 1.002 | 0.20 |
| 603_A | 621_E | 1.001 | 0.20 |
| 23_R | 28_L | 1.001 | 0.20 |
| 337_E | 378_A | 1.001 | 0.20 |
| 350_V | 388_M | 1.001 | 0.20 |
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 | |
| 1i84S | 2 | 0.155 | 99.5 | 0.863 | Contact Map |
| 1c1gA | 4 | 0.3827 | 99.4 | 0.871 | Contact Map |
| 4uxvA | 1 | 0.6051 | 98.4 | 0.912 | Contact Map |
| 3c9iA | 6 | 0.3261 | 97.6 | 0.927 | Contact Map |
| 2xs1A | 1 | 0.4677 | 97.5 | 0.928 | Contact Map |
| 1u4qA | 2 | 0.407 | 97.5 | 0.929 | Contact Map |
| 3edvA | 2 | 0.4218 | 97.4 | 0.93 | Contact Map |
| 3kbtA | 2 | 0.3881 | 97.4 | 0.93 | Contact Map |
| 1hciA | 2 | 0.5795 | 97.2 | 0.932 | Contact Map |
| 3cazA | 2 | 0.2763 | 97.2 | 0.933 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)