| 1BF2A |
| ID: | 1411599109 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 750 (676) | ||
| Sequences: | 1323 (911.1) | ||
| Seq/Len: | 1.957 | ||
| Nf(neff/√len): | 35.0 |
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: 1.957).
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 |
| 22_V | 320_L | 4.665 | 1.00 |
| 184_V | 189_F | 3.992 | 1.00 |
| 295_Y | 359_S | 3.593 | 1.00 |
| 168_T | 368_G | 3.587 | 1.00 |
| 364_A | 430_L | 3.556 | 1.00 |
| 22_V | 30_I | 3.383 | 1.00 |
| 165_T | 368_G | 3.369 | 1.00 |
| 30_I | 81_A | 3.212 | 1.00 |
| 22_V | 81_A | 3.157 | 1.00 |
| 174_R | 221_A | 3.067 | 1.00 |
| 466_Q | 542_Y | 3.047 | 1.00 |
| 81_A | 320_L | 2.772 | 1.00 |
| 216_S | 620_Q | 2.629 | 1.00 |
| 632_L | 681_I | 2.586 | 1.00 |
| 12_D | 60_T | 2.565 | 1.00 |
| 580_G | 604_L | 2.503 | 1.00 |
| 68_A | 71_I | 2.482 | 1.00 |
| 179_D | 220_T | 2.476 | 1.00 |
| 49_L | 59_V | 2.471 | 1.00 |
| 184_V | 222_V | 2.467 | 1.00 |
| 515_K | 562_A | 2.465 | 1.00 |
| 86_W | 106_A | 2.436 | 1.00 |
| 166_Q | 280_Q | 2.433 | 1.00 |
| 187_R | 191_E | 2.394 | 1.00 |
| 460_F | 572_S | 2.373 | 1.00 |
| 31_V | 82_W | 2.334 | 1.00 |
| 351_V | 354_N | 2.292 | 1.00 |
| 566_M | 578_M | 2.271 | 1.00 |
| 275_F | 279_V | 2.267 | 1.00 |
| 18_I | 71_I | 2.236 | 1.00 |
| 571_L | 746_L | 2.229 | 1.00 |
| 29_R | 48_T | 2.166 | 0.99 |
| 53_G | 58_A | 2.095 | 0.99 |
| 523_A | 539_S | 2.084 | 0.99 |
| 180_V | 627_K | 2.079 | 0.99 |
| 165_T | 168_T | 2.072 | 0.99 |
| 50_S | 59_V | 2.056 | 0.99 |
| 566_M | 615_F | 2.044 | 0.99 |
| 566_M | 622_L | 2.033 | 0.99 |
| 463_S | 480_Q | 2.033 | 0.99 |
| 481_D | 685_Y | 2.011 | 0.99 |
| 280_Q | 368_G | 2.006 | 0.99 |
| 71_I | 75_V | 2.001 | 0.99 |
| 484_D | 490_N | 1.997 | 0.99 |
| 204_Y | 263_A | 1.994 | 0.99 |
| 35_Y | 157_K | 1.991 | 0.99 |
| 559_R | 562_A | 1.990 | 0.99 |
| 229_E | 260_R | 1.990 | 0.99 |
| 446_L | 492_F | 1.990 | 0.99 |
| 188_G | 247_Y | 1.989 | 0.99 |
| 588_L | 594_A | 1.985 | 0.99 |
| 608_W | 612_Q | 1.967 | 0.99 |
| 275_F | 367_M | 1.964 | 0.99 |
| 684_A | 694_F | 1.927 | 0.98 |
| 76_Y | 126_S | 1.909 | 0.98 |
| 647_Q | 657_Y | 1.897 | 0.98 |
| 86_W | 107_N | 1.880 | 0.98 |
| 445_Q | 448_G | 1.871 | 0.98 |
| 179_D | 221_A | 1.859 | 0.98 |
| 616_Y | 620_Q | 1.857 | 0.98 |
| 668_Y | 683_V | 1.854 | 0.98 |
| 275_F | 278_M | 1.853 | 0.98 |
| 337_D | 379_V | 1.848 | 0.98 |
| 227_V | 275_F | 1.846 | 0.98 |
| 109_D | 323_A | 1.837 | 0.98 |
| 546_Q | 557_D | 1.836 | 0.98 |
| 118_L | 125_V | 1.822 | 0.98 |
| 347_T | 356_I | 1.810 | 0.98 |
| 562_A | 585_L | 1.799 | 0.97 |
| 361_A | 424_A | 1.796 | 0.97 |
| 546_Q | 561_A | 1.796 | 0.97 |
| 345_F | 352_A | 1.795 | 0.97 |
| 30_I | 320_L | 1.791 | 0.97 |
| 19_T | 58_A | 1.780 | 0.97 |
| 125_V | 254_N | 1.776 | 0.97 |
| 567_A | 744_L | 1.774 | 0.97 |
| 362_Y | 367_M | 1.771 | 0.97 |
| 20_F | 79_Y | 1.770 | 0.97 |
| 228_Q | 252_T | 1.740 | 0.97 |
| 216_S | 616_Y | 1.740 | 0.97 |
| 254_N | 257_S | 1.738 | 0.97 |
| 122_A | 158_G | 1.737 | 0.97 |
| 515_K | 551_G | 1.734 | 0.97 |
| 179_D | 431_D | 1.732 | 0.97 |
| 585_L | 615_F | 1.712 | 0.96 |
| 136_N | 154_Y | 1.707 | 0.96 |
| 184_V | 580_G | 1.697 | 0.96 |
| 623_I | 627_K | 1.694 | 0.96 |
| 189_F | 222_V | 1.683 | 0.96 |
| 139_V | 151_S | 1.682 | 0.96 |
| 26_Q | 111_F | 1.656 | 0.95 |
| 213_Y | 584_Y | 1.655 | 0.95 |
| 544_W | 557_D | 1.651 | 0.95 |
| 570_M | 578_M | 1.644 | 0.95 |
| 233_D | 341_I | 1.643 | 0.95 |
| 589_Q | 601_A | 1.636 | 0.95 |
| 33_Y | 46_T | 1.625 | 0.94 |
| 561_A | 564_T | 1.621 | 0.94 |
| 164_S | 280_Q | 1.618 | 0.94 |
| 121_Y | 358_D | 1.612 | 0.94 |
| 180_V | 623_I | 1.611 | 0.94 |
| 186_V | 224_F | 1.611 | 0.94 |
| 505_F | 508_V | 1.609 | 0.94 |
| 34_L | 47_Y | 1.608 | 0.94 |
| 137_G | 234_A | 1.602 | 0.94 |
| 624_A | 628_A | 1.587 | 0.94 |
| 164_S | 368_G | 1.571 | 0.93 |
| 665_A | 694_F | 1.558 | 0.93 |
| 26_Q | 109_D | 1.542 | 0.92 |
| 298_T | 326_Y | 1.541 | 0.92 |
| 584_Y | 604_L | 1.537 | 0.92 |
| 521_N | 544_W | 1.536 | 0.92 |
| 197_P | 209_L | 1.535 | 0.92 |
| 115_K | 150_D | 1.529 | 0.92 |
| 515_K | 585_L | 1.523 | 0.92 |
| 35_Y | 152_G | 1.521 | 0.92 |
| 165_T | 280_Q | 1.514 | 0.91 |
| 377_A | 434_A | 1.511 | 0.91 |
| 211_A | 285_A | 1.508 | 0.91 |
| 288_K | 431_D | 1.505 | 0.91 |
| 466_Q | 471_L | 1.499 | 0.91 |
| 181_I | 503_I | 1.493 | 0.91 |
| 515_K | 519_S | 1.482 | 0.90 |
| 466_Q | 540_T | 1.482 | 0.90 |
| 25_S | 55_G | 1.468 | 0.90 |
| 219_V | 287_I | 1.468 | 0.90 |
| 178_D | 633_R | 1.468 | 0.90 |
| 158_G | 316_S | 1.467 | 0.89 |
| 184_V | 207_A | 1.465 | 0.89 |
| 684_A | 747_L | 1.462 | 0.89 |
| 562_A | 615_F | 1.462 | 0.89 |
| 468_Q | 568_F | 1.460 | 0.89 |
| 552_T | 555_A | 1.446 | 0.89 |
| 125_V | 229_E | 1.424 | 0.88 |
| 594_A | 601_A | 1.423 | 0.87 |
| 11_Y | 73_G | 1.420 | 0.87 |
| 557_D | 561_A | 1.415 | 0.87 |
| 570_M | 623_I | 1.403 | 0.86 |
| 625_F | 708_V | 1.399 | 0.86 |
| 364_A | 368_G | 1.395 | 0.86 |
| 78_G | 116_L | 1.391 | 0.86 |
| 508_V | 577_L | 1.388 | 0.86 |
| 200_Y | 206_G | 1.385 | 0.86 |
| 276_Q | 368_G | 1.380 | 0.85 |
| 353_Q | 411_A | 1.372 | 0.85 |
| 189_F | 213_Y | 1.371 | 0.85 |
| 586_R | 602_N | 1.364 | 0.84 |
| 176_Q | 179_D | 1.363 | 0.84 |
| 546_Q | 554_A | 1.363 | 0.84 |
| 223_E | 456_W | 1.361 | 0.84 |
| 221_A | 287_I | 1.356 | 0.84 |
| 121_Y | 325_Y | 1.352 | 0.84 |
| 456_W | 577_L | 1.350 | 0.83 |
| 12_D | 16_A | 1.347 | 0.83 |
| 196_I | 206_G | 1.346 | 0.83 |
| 54_S | 452_G | 1.345 | 0.83 |
| 346_N | 349_N | 1.339 | 0.83 |
| 586_R | 604_L | 1.338 | 0.83 |
| 198_A | 201_R | 1.322 | 0.82 |
| 9_A | 20_F | 1.319 | 0.82 |
| 85_N | 142_S | 1.314 | 0.81 |
| 47_Y | 68_A | 1.312 | 0.81 |
| 52_A | 55_G | 1.309 | 0.81 |
| 559_R | 563_R | 1.309 | 0.81 |
| 168_T | 280_Q | 1.308 | 0.81 |
| 686_N | 705_W | 1.308 | 0.81 |
| 190_T | 206_G | 1.307 | 0.81 |
| 84_P | 109_D | 1.300 | 0.80 |
| 230_T | 262_Y | 1.299 | 0.80 |
| 34_L | 75_V | 1.299 | 0.80 |
| 737_Y | 745_L | 1.298 | 0.80 |
| 235_N | 243_A | 1.285 | 0.79 |
| 272_T | 367_M | 1.281 | 0.79 |
| 125_V | 158_G | 1.279 | 0.79 |
| 166_Q | 284_N | 1.279 | 0.79 |
| 317_W | 355_L | 1.278 | 0.79 |
| 622_L | 709_T | 1.271 | 0.78 |
| 123_Q | 362_Y | 1.269 | 0.78 |
| 166_Q | 368_G | 1.268 | 0.78 |
| 221_A | 290_Y | 1.267 | 0.78 |
| 665_A | 692_V | 1.267 | 0.78 |
| 458_G | 538_T | 1.261 | 0.77 |
| 522_G | 539_S | 1.261 | 0.77 |
| 338_N | 399_G | 1.259 | 0.77 |
| 190_T | 193_D | 1.257 | 0.77 |
| 696_L | 705_W | 1.256 | 0.77 |
| 277_A | 281_A | 1.254 | 0.77 |
| 281_A | 284_N | 1.247 | 0.76 |
| 212_S | 216_S | 1.246 | 0.76 |
| 211_A | 282_F | 1.245 | 0.76 |
| 21_R | 56_V | 1.245 | 0.76 |
| 566_M | 619_A | 1.241 | 0.76 |
| 276_Q | 366_T | 1.238 | 0.75 |
| 118_L | 158_G | 1.235 | 0.75 |
| 207_A | 224_F | 1.232 | 0.75 |
| 707_R | 747_L | 1.224 | 0.74 |
| 290_Y | 433_F | 1.221 | 0.74 |
| 68_A | 75_V | 1.219 | 0.74 |
| 573_A | 670_I | 1.216 | 0.74 |
| 464_L | 481_D | 1.208 | 0.73 |
| 22_V | 79_Y | 1.206 | 0.73 |
| 167_S | 280_Q | 1.204 | 0.73 |
| 365_N | 426_G | 1.202 | 0.72 |
| 275_F | 369_V | 1.201 | 0.72 |
| 411_A | 415_I | 1.200 | 0.72 |
| 28_T | 84_P | 1.195 | 0.72 |
| 9_A | 18_I | 1.194 | 0.72 |
| 253_E | 299_A | 1.192 | 0.71 |
| 557_D | 564_T | 1.192 | 0.71 |
| 521_N | 546_Q | 1.186 | 0.71 |
| 344_N | 379_V | 1.185 | 0.71 |
| 460_F | 463_S | 1.177 | 0.70 |
| 7_L | 21_R | 1.175 | 0.70 |
| 483_N | 490_N | 1.173 | 0.70 |
| 232_N | 261_R | 1.172 | 0.70 |
| 36_S | 39_Y | 1.164 | 0.69 |
| 684_A | 739_Q | 1.162 | 0.69 |
| 302_G | 334_Y | 1.160 | 0.68 |
| 168_T | 171_K | 1.156 | 0.68 |
| 609_T | 616_Y | 1.155 | 0.68 |
| 464_L | 568_F | 1.155 | 0.68 |
| 123_Q | 161_L | 1.155 | 0.68 |
| 278_M | 367_M | 1.153 | 0.68 |
| 207_A | 282_F | 1.150 | 0.68 |
| 251_M | 299_A | 1.149 | 0.67 |
| 276_Q | 362_Y | 1.147 | 0.67 |
| 266_K | 271_P | 1.144 | 0.67 |
| 84_P | 111_F | 1.143 | 0.67 |
| 205_Y | 277_A | 1.141 | 0.67 |
| 346_N | 383_S | 1.140 | 0.67 |
| 167_S | 368_G | 1.135 | 0.66 |
| 186_V | 227_V | 1.133 | 0.66 |
| 338_N | 441_G | 1.133 | 0.66 |
| 217_L | 623_I | 1.132 | 0.66 |
| 118_L | 155_A | 1.132 | 0.66 |
| 263_A | 271_P | 1.131 | 0.66 |
| 189_F | 207_A | 1.129 | 0.65 |
| 49_L | 58_A | 1.126 | 0.65 |
| 617_T | 620_Q | 1.125 | 0.65 |
| 171_K | 368_G | 1.123 | 0.65 |
| 303_T | 337_D | 1.123 | 0.65 |
| 689_S | 742_Q | 1.121 | 0.65 |
| 13_A | 60_T | 1.121 | 0.65 |
| 339_T | 379_V | 1.120 | 0.65 |
| 206_G | 367_M | 1.118 | 0.64 |
| 21_R | 58_A | 1.117 | 0.64 |
| 485_F | 668_Y | 1.117 | 0.64 |
| 126_S | 159_V | 1.115 | 0.64 |
| 108_G | 111_F | 1.113 | 0.64 |
| 338_N | 344_N | 1.113 | 0.64 |
| 153_I | 157_K | 1.111 | 0.64 |
| 458_G | 492_F | 1.109 | 0.63 |
| 172_P | 280_Q | 1.106 | 0.63 |
| 629_H | 681_I | 1.106 | 0.63 |
| 44_S | 76_Y | 1.106 | 0.63 |
| 196_I | 209_L | 1.105 | 0.63 |
| 23_Y | 349_N | 1.101 | 0.63 |
| 166_Q | 172_P | 1.098 | 0.62 |
| 707_R | 737_Y | 1.095 | 0.62 |
| 408_S | 413_N | 1.095 | 0.62 |
| 189_F | 282_F | 1.091 | 0.62 |
| 341_I | 551_G | 1.088 | 0.61 |
| 559_R | 614_N | 1.088 | 0.61 |
| 192_Q | 600_S | 1.087 | 0.61 |
| 212_S | 215_A | 1.086 | 0.61 |
| 609_T | 612_Q | 1.084 | 0.61 |
| 481_D | 485_F | 1.082 | 0.61 |
| 222_V | 287_I | 1.082 | 0.61 |
| 215_A | 285_A | 1.082 | 0.61 |
| 615_F | 622_L | 1.081 | 0.60 |
| 256_F | 362_Y | 1.080 | 0.60 |
| 478_V | 481_D | 1.079 | 0.60 |
| 181_I | 221_A | 1.077 | 0.60 |
| 654_D | 657_Y | 1.077 | 0.60 |
| 214_L | 222_V | 1.072 | 0.60 |
| 324_T | 349_N | 1.070 | 0.59 |
| 486_S | 489_S | 1.069 | 0.59 |
| 11_Y | 60_T | 1.063 | 0.59 |
| 669_A | 682_Y | 1.061 | 0.58 |
| 337_D | 575_T | 1.061 | 0.58 |
| 256_F | 355_L | 1.061 | 0.58 |
| 578_M | 690_S | 1.053 | 0.57 |
| 364_A | 427_G | 1.053 | 0.57 |
| 354_N | 358_D | 1.052 | 0.57 |
| 23_Y | 324_T | 1.052 | 0.57 |
| 256_F | 359_S | 1.050 | 0.57 |
| 563_R | 614_N | 1.049 | 0.57 |
| 454_S | 575_T | 1.049 | 0.57 |
| 383_S | 413_N | 1.045 | 0.57 |
| 31_V | 80_R | 1.042 | 0.56 |
| 6_S | 19_T | 1.039 | 0.56 |
| 296_N | 376_L | 1.037 | 0.56 |
| 278_M | 282_F | 1.037 | 0.56 |
| 124_E | 276_Q | 1.033 | 0.55 |
| 24_S | 27_A | 1.032 | 0.55 |
| 196_I | 200_Y | 1.031 | 0.55 |
| 254_N | 317_W | 1.031 | 0.55 |
| 690_S | 741_G | 1.028 | 0.55 |
| 507_D | 582_D | 1.028 | 0.55 |
| 292_D | 509_H | 1.027 | 0.55 |
| 210_K | 407_D | 1.025 | 0.54 |
| 710_D | 737_Y | 1.024 | 0.54 |
| 403_F | 406_A | 1.022 | 0.54 |
| 457_N | 504_N | 1.021 | 0.54 |
| 264_Y | 274_E | 1.019 | 0.54 |
| 205_Y | 274_E | 1.019 | 0.54 |
| 292_D | 510_D | 1.019 | 0.54 |
| 24_S | 111_F | 1.019 | 0.54 |
| 222_V | 289_V | 1.019 | 0.54 |
| 381_G | 403_F | 1.018 | 0.54 |
| 47_Y | 59_V | 1.017 | 0.54 |
| 591_N | 597_L | 1.013 | 0.53 |
| 684_A | 696_L | 1.013 | 0.53 |
| 164_S | 167_S | 1.008 | 0.53 |
| 207_A | 222_V | 1.007 | 0.52 |
| 31_V | 48_T | 1.006 | 0.52 |
| 469_N | 689_S | 1.006 | 0.52 |
| 667_A | 684_A | 1.005 | 0.52 |
| 18_I | 160_V | 1.004 | 0.52 |
| 213_Y | 216_S | 1.003 | 0.52 |
| 375_D | 435_E | 1.003 | 0.52 |
| 621_R | 709_T | 1.001 | 0.52 |
| 118_L | 299_A | 1.000 | 0.52 |
| 138_N | 154_Y | 1.000 | 0.52 |
| 737_Y | 747_L | 1.000 | 0.52 |
| 548_M | 552_T | 1.000 | 0.52 |
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 | |
| 1bf2A | 1 | 1 | 100 | 0.308 | Contact Map |
| 4j7rA | 2 | 0.904 | 100 | 0.338 | Contact Map |
| 2vr5A | 2 | 0.888 | 100 | 0.378 | Contact Map |
| 2wskA | 1 | 0.856 | 100 | 0.413 | Contact Map |
| 2fhfA | 1 | 0.8147 | 100 | 0.473 | Contact Map |
| 4j3vA | 1 | 0.8267 | 100 | 0.484 | Contact Map |
| 2ya1A | 1 | 0.816 | 100 | 0.502 | Contact Map |
| 2wanA | 1 | 0.764 | 100 | 0.502 | Contact Map |
| 3fawA | 1 | 0.8107 | 100 | 0.502 | Contact Map |
| 2e8yA | 2 | 0.7627 | 100 | 0.512 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)