| mo |
| ID: | 1492972114 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 764 (681) | ||
| Sequences: | 1782 (1194.8) | ||
| Seq/Len: | 2.617 | ||
| Nf(neff/√len): | 45.8 |
HHblits Results: (2016_02)
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: 2.617).
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 |
| 163_V | 175_L | 4.123 | 1.00 |
| 558_L | 571_A | 4.088 | 1.00 |
| 228_L | 265_V | 4.069 | 1.00 |
| 148_K | 178_G | 4.010 | 1.00 |
| 623_V | 727_V | 3.950 | 1.00 |
| 677_D | 682_T | 3.920 | 1.00 |
| 626_T | 637_D | 3.845 | 1.00 |
| 554_I | 601_F | 3.698 | 1.00 |
| 95_Y | 158_T | 3.594 | 1.00 |
| 558_L | 567_V | 3.255 | 1.00 |
| 648_M | 654_V | 3.184 | 1.00 |
| 341_T | 453_R | 3.147 | 1.00 |
| 577_C | 622_V | 3.128 | 1.00 |
| 547_Y | 732_F | 3.121 | 1.00 |
| 95_Y | 172_Y | 3.059 | 1.00 |
| 572_E | 576_Q | 3.013 | 1.00 |
| 655_R | 659_H | 3.006 | 1.00 |
| 162_F | 169_R | 2.994 | 1.00 |
| 391_N | 394_N | 2.987 | 1.00 |
| 250_L | 293_V | 2.926 | 1.00 |
| 567_V | 571_A | 2.925 | 1.00 |
| 67_G | 171_G | 2.846 | 1.00 |
| 572_E | 703_L | 2.805 | 1.00 |
| 544_E | 740_L | 2.778 | 1.00 |
| 570_I | 601_F | 2.677 | 1.00 |
| 640_F | 701_D | 2.614 | 1.00 |
| 641_V | 662_V | 2.583 | 1.00 |
| 684_V | 687_G | 2.562 | 1.00 |
| 261_L | 287_A | 2.521 | 1.00 |
| 551_A | 559_R | 2.509 | 1.00 |
| 384_I | 419_V | 2.508 | 1.00 |
| 224_V | 227_M | 2.493 | 1.00 |
| 369_Q | 396_N | 2.490 | 1.00 |
| 598_G | 734_A | 2.465 | 1.00 |
| 369_Q | 398_T | 2.415 | 1.00 |
| 235_P | 248_S | 2.357 | 1.00 |
| 255_E | 259_A | 2.335 | 1.00 |
| 152_P | 155_R | 2.284 | 1.00 |
| 345_V | 741_E | 2.276 | 1.00 |
| 68_S | 102_T | 2.273 | 1.00 |
| 261_L | 283_Q | 2.247 | 1.00 |
| 452_V | 541_W | 2.243 | 1.00 |
| 210_N | 215_A | 2.232 | 1.00 |
| 628_D | 631_T | 2.191 | 1.00 |
| 363_V | 368_I | 2.183 | 1.00 |
| 158_T | 172_Y | 2.156 | 1.00 |
| 265_V | 279_E | 2.140 | 1.00 |
| 64_G | 70_T | 2.140 | 1.00 |
| 223_R | 430_R | 2.139 | 1.00 |
| 654_V | 715_A | 2.128 | 1.00 |
| 576_Q | 703_L | 2.125 | 1.00 |
| 164_I | 169_R | 2.092 | 1.00 |
| 142_I | 156_I | 2.060 | 1.00 |
| 251_V | 294_T | 2.047 | 1.00 |
| 453_R | 466_E | 2.047 | 1.00 |
| 171_G | 174_E | 2.040 | 1.00 |
| 388_M | 419_V | 2.034 | 1.00 |
| 639_V | 662_V | 2.034 | 1.00 |
| 684_V | 688_G | 2.031 | 1.00 |
| 549_A | 556_Y | 2.030 | 1.00 |
| 454_G | 541_W | 2.030 | 1.00 |
| 280_R | 283_Q | 2.024 | 1.00 |
| 545_C | 549_A | 2.018 | 1.00 |
| 643_Q | 658_V | 2.015 | 1.00 |
| 234_R | 417_D | 2.008 | 0.99 |
| 654_V | 704_L | 2.007 | 0.99 |
| 140_L | 185_V | 2.004 | 0.99 |
| 259_A | 266_K | 2.000 | 0.99 |
| 554_I | 574_K | 1.989 | 0.99 |
| 281_E | 434_M | 1.984 | 0.99 |
| 136_Q | 189_I | 1.984 | 0.99 |
| 454_G | 545_C | 1.961 | 0.99 |
| 440_G | 684_V | 1.954 | 0.99 |
| 156_I | 163_V | 1.954 | 0.99 |
| 338_T | 548_L | 1.947 | 0.99 |
| 230_G | 275_G | 1.938 | 0.99 |
| 665_S | 723_S | 1.926 | 0.99 |
| 573_A | 642_A | 1.916 | 0.99 |
| 252_S | 294_T | 1.916 | 0.99 |
| 159_Q | 197_E | 1.911 | 0.99 |
| 663_V | 697_L | 1.909 | 0.99 |
| 155_R | 165_A | 1.909 | 0.99 |
| 128_L | 132_H | 1.894 | 0.99 |
| 671_K | 696_E | 1.874 | 0.99 |
| 666_T | 727_V | 1.871 | 0.99 |
| 667_S | 691_I | 1.870 | 0.99 |
| 574_K | 601_F | 1.870 | 0.99 |
| 333_V | 464_A | 1.869 | 0.99 |
| 275_G | 421_M | 1.866 | 0.99 |
| 554_I | 570_I | 1.865 | 0.99 |
| 362_E | 422_S | 1.864 | 0.99 |
| 555_E | 559_R | 1.845 | 0.99 |
| 257_S | 292_K | 1.831 | 0.99 |
| 368_I | 390_V | 1.821 | 0.99 |
| 148_K | 174_E | 1.812 | 0.99 |
| 142_I | 153_A | 1.807 | 0.99 |
| 283_Q | 287_A | 1.800 | 0.99 |
| 251_V | 296_K | 1.800 | 0.99 |
| 462_V | 556_Y | 1.786 | 0.99 |
| 384_I | 388_M | 1.778 | 0.98 |
| 627_V | 734_A | 1.775 | 0.98 |
| 623_V | 639_V | 1.774 | 0.98 |
| 551_A | 555_E | 1.772 | 0.98 |
| 634_V | 731_I | 1.772 | 0.98 |
| 170_Y | 174_E | 1.767 | 0.98 |
| 279_E | 283_Q | 1.765 | 0.98 |
| 249_S | 296_K | 1.764 | 0.98 |
| 162_F | 171_G | 1.760 | 0.98 |
| 85_A | 123_I | 1.756 | 0.98 |
| 63_I | 94_L | 1.745 | 0.98 |
| 158_T | 164_I | 1.717 | 0.98 |
| 648_M | 704_L | 1.706 | 0.98 |
| 576_Q | 640_F | 1.706 | 0.98 |
| 278_A | 284_A | 1.706 | 0.98 |
| 597_K | 637_D | 1.700 | 0.98 |
| 96_V | 172_Y | 1.695 | 0.98 |
| 457_D | 461_N | 1.693 | 0.98 |
| 573_A | 620_T | 1.673 | 0.97 |
| 149_S | 170_Y | 1.669 | 0.97 |
| 390_V | 394_N | 1.646 | 0.97 |
| 257_S | 260_H | 1.642 | 0.97 |
| 89_L | 123_I | 1.627 | 0.97 |
| 574_K | 577_C | 1.608 | 0.97 |
| 373_G | 400_L | 1.600 | 0.96 |
| 571_A | 575_K | 1.591 | 0.96 |
| 638_K | 701_D | 1.581 | 0.96 |
| 216_L | 401_E | 1.572 | 0.96 |
| 224_V | 362_E | 1.566 | 0.96 |
| 343_D | 451_R | 1.566 | 0.96 |
| 455_G | 463_A | 1.554 | 0.96 |
| 255_E | 269_V | 1.553 | 0.96 |
| 71_A | 90_V | 1.549 | 0.96 |
| 542_I | 556_Y | 1.548 | 0.95 |
| 528_G | 532_L | 1.546 | 0.95 |
| 664_Q | 720_S | 1.537 | 0.95 |
| 78_L | 402_A | 1.531 | 0.95 |
| 573_A | 577_C | 1.526 | 0.95 |
| 333_V | 455_G | 1.526 | 0.95 |
| 544_E | 738_R | 1.525 | 0.95 |
| 222_L | 360_I | 1.520 | 0.95 |
| 339_A | 453_R | 1.514 | 0.95 |
| 142_I | 158_T | 1.505 | 0.95 |
| 576_Q | 642_A | 1.499 | 0.94 |
| 652_A | 655_R | 1.497 | 0.94 |
| 64_G | 68_S | 1.490 | 0.94 |
| 288_M | 437_Q | 1.482 | 0.94 |
| 147_E | 183_I | 1.482 | 0.94 |
| 572_E | 705_V | 1.479 | 0.94 |
| 69_V | 96_V | 1.479 | 0.94 |
| 286_A | 289_R | 1.475 | 0.94 |
| 576_Q | 701_D | 1.472 | 0.94 |
| 178_G | 181_L | 1.469 | 0.94 |
| 254_D | 292_K | 1.467 | 0.93 |
| 388_M | 395_I | 1.464 | 0.93 |
| 572_E | 642_A | 1.463 | 0.93 |
| 253_V | 269_V | 1.460 | 0.93 |
| 287_A | 290_Q | 1.457 | 0.93 |
| 226_G | 427_K | 1.457 | 0.93 |
| 268_V | 424_A | 1.455 | 0.93 |
| 170_Y | 175_L | 1.453 | 0.93 |
| 675_T | 683_S | 1.445 | 0.93 |
| 640_F | 703_L | 1.442 | 0.93 |
| 448_Q | 471_Y | 1.432 | 0.92 |
| 62_A | 104_V | 1.431 | 0.92 |
| 158_T | 163_V | 1.428 | 0.92 |
| 526_M | 668_R | 1.422 | 0.92 |
| 377_P | 399_R | 1.418 | 0.92 |
| 641_V | 658_V | 1.417 | 0.92 |
| 143_K | 183_I | 1.417 | 0.92 |
| 95_Y | 192_R | 1.417 | 0.92 |
| 739_L | 744_F | 1.410 | 0.92 |
| 149_S | 156_I | 1.409 | 0.92 |
| 597_K | 626_T | 1.401 | 0.91 |
| 297_E | 680_G | 1.401 | 0.91 |
| 663_V | 700_I | 1.398 | 0.91 |
| 371_W | 398_T | 1.397 | 0.91 |
| 342_R | 740_L | 1.394 | 0.91 |
| 328_G | 331_Q | 1.383 | 0.91 |
| 97_D | 100_A | 1.382 | 0.91 |
| 219_I | 358_C | 1.380 | 0.90 |
| 298_W | 302_P | 1.368 | 0.90 |
| 462_V | 560_Y | 1.368 | 0.90 |
| 643_Q | 715_A | 1.367 | 0.90 |
| 597_K | 624_D | 1.365 | 0.90 |
| 261_L | 290_Q | 1.365 | 0.90 |
| 732_F | 738_R | 1.346 | 0.89 |
| 233_I | 293_V | 1.338 | 0.89 |
| 109_A | 113_D | 1.337 | 0.89 |
| 325_E | 511_R | 1.336 | 0.88 |
| 143_K | 147_E | 1.334 | 0.88 |
| 658_V | 719_A | 1.334 | 0.88 |
| 312_T | 315_D | 1.331 | 0.88 |
| 97_D | 160_K | 1.331 | 0.88 |
| 697_L | 700_I | 1.329 | 0.88 |
| 368_I | 388_M | 1.328 | 0.88 |
| 385_A | 395_I | 1.323 | 0.88 |
| 266_K | 424_A | 1.320 | 0.88 |
| 370_V | 384_I | 1.317 | 0.88 |
| 76_V | 402_A | 1.311 | 0.87 |
| 669_V | 724_A | 1.311 | 0.87 |
| 728_A | 744_F | 1.310 | 0.87 |
| 95_Y | 139_Q | 1.310 | 0.87 |
| 667_S | 672_E | 1.308 | 0.87 |
| 639_V | 723_S | 1.301 | 0.87 |
| 285_I | 289_R | 1.301 | 0.87 |
| 220_H | 432_Q | 1.299 | 0.87 |
| 281_E | 432_Q | 1.294 | 0.86 |
| 199_I | 649_I | 1.287 | 0.86 |
| 609_S | 643_Q | 1.279 | 0.85 |
| 462_V | 545_C | 1.268 | 0.85 |
| 674_V | 681_V | 1.268 | 0.85 |
| 382_K | 392_A | 1.266 | 0.85 |
| 281_E | 285_I | 1.265 | 0.85 |
| 276_V | 287_A | 1.265 | 0.85 |
| 264_I | 267_V | 1.265 | 0.85 |
| 462_V | 507_Y | 1.265 | 0.85 |
| 65_A | 177_Q | 1.264 | 0.84 |
| 158_T | 162_F | 1.248 | 0.83 |
| 450_I | 537_A | 1.248 | 0.83 |
| 466_E | 511_R | 1.245 | 0.83 |
| 253_V | 291_L | 1.244 | 0.83 |
| 543_D | 553_P | 1.244 | 0.83 |
| 352_G | 439_A | 1.241 | 0.83 |
| 231_R | 434_M | 1.240 | 0.83 |
| 363_V | 422_S | 1.240 | 0.83 |
| 362_E | 369_Q | 1.239 | 0.83 |
| 625_V | 731_I | 1.238 | 0.83 |
| 165_A | 168_K | 1.234 | 0.82 |
| 267_V | 287_A | 1.230 | 0.82 |
| 566_A | 603_Y | 1.230 | 0.82 |
| 340_L | 548_L | 1.224 | 0.82 |
| 387_L | 416_S | 1.217 | 0.81 |
| 384_I | 415_C | 1.217 | 0.81 |
| 674_V | 683_S | 1.215 | 0.81 |
| 731_I | 734_A | 1.211 | 0.81 |
| 361_A | 419_V | 1.210 | 0.81 |
| 160_K | 197_E | 1.210 | 0.81 |
| 342_R | 541_W | 1.206 | 0.80 |
| 151_V | 165_A | 1.205 | 0.80 |
| 380_V | 415_C | 1.203 | 0.80 |
| 337_K | 455_G | 1.202 | 0.80 |
| 732_F | 735_T | 1.197 | 0.80 |
| 621_W | 722_P | 1.195 | 0.80 |
| 372_T | 415_C | 1.194 | 0.80 |
| 539_E | 557_R | 1.194 | 0.80 |
| 675_T | 682_T | 1.193 | 0.79 |
| 621_W | 641_V | 1.189 | 0.79 |
| 237_Y | 680_G | 1.189 | 0.79 |
| 259_A | 287_A | 1.188 | 0.79 |
| 673_F | 746_P | 1.188 | 0.79 |
| 229_H | 430_R | 1.188 | 0.79 |
| 253_V | 274_V | 1.180 | 0.78 |
| 573_A | 640_F | 1.172 | 0.78 |
| 598_G | 733_D | 1.166 | 0.77 |
| 376_N | 410_C | 1.164 | 0.77 |
| 540_S | 728_A | 1.163 | 0.77 |
| 402_A | 405_C | 1.162 | 0.77 |
| 363_V | 390_V | 1.156 | 0.76 |
| 83_R | 105_L | 1.155 | 0.76 |
| 233_I | 288_M | 1.155 | 0.76 |
| 159_Q | 164_I | 1.151 | 0.76 |
| 145_A | 149_S | 1.146 | 0.75 |
| 153_A | 156_I | 1.144 | 0.75 |
| 461_N | 559_R | 1.144 | 0.75 |
| 636_V | 727_V | 1.141 | 0.75 |
| 636_V | 723_S | 1.139 | 0.75 |
| 85_A | 653_G | 1.139 | 0.75 |
| 139_Q | 142_I | 1.134 | 0.74 |
| 219_I | 360_I | 1.132 | 0.74 |
| 138_R | 158_T | 1.131 | 0.74 |
| 528_G | 721_V | 1.127 | 0.74 |
| 142_I | 163_V | 1.125 | 0.74 |
| 246_L | 522_R | 1.122 | 0.73 |
| 231_R | 288_M | 1.117 | 0.73 |
| 16_Q | 19_K | 1.117 | 0.73 |
| 332_A | 455_G | 1.116 | 0.73 |
| 344_Y | 540_S | 1.113 | 0.72 |
| 71_A | 98_F | 1.112 | 0.72 |
| 73_N | 103_M | 1.111 | 0.72 |
| 15_R | 18_L | 1.110 | 0.72 |
| 468_R | 513_I | 1.103 | 0.71 |
| 623_V | 636_V | 1.099 | 0.71 |
| 311_Q | 315_D | 1.095 | 0.71 |
| 313_L | 470_C | 1.092 | 0.70 |
| 250_L | 269_V | 1.089 | 0.70 |
| 344_Y | 544_E | 1.089 | 0.70 |
| 623_V | 726_A | 1.089 | 0.70 |
| 505_Y | 539_E | 1.086 | 0.70 |
| 124_Q | 713_M | 1.085 | 0.70 |
| 690_P | 696_E | 1.084 | 0.70 |
| 661_N | 719_A | 1.082 | 0.69 |
| 643_Q | 704_L | 1.081 | 0.69 |
| 556_Y | 560_Y | 1.081 | 0.69 |
| 658_V | 715_A | 1.080 | 0.69 |
| 228_L | 429_V | 1.077 | 0.69 |
| 258_I | 291_L | 1.076 | 0.69 |
| 159_Q | 169_R | 1.075 | 0.69 |
| 452_V | 537_A | 1.075 | 0.69 |
| 598_G | 625_V | 1.069 | 0.68 |
| 568_A | 571_A | 1.068 | 0.68 |
| 415_C | 419_V | 1.066 | 0.68 |
| 230_G | 421_M | 1.065 | 0.68 |
| 609_S | 645_T | 1.063 | 0.67 |
| 572_E | 575_K | 1.063 | 0.67 |
| 383_D | 416_S | 1.063 | 0.67 |
| 344_Y | 740_L | 1.061 | 0.67 |
| 368_I | 384_I | 1.056 | 0.67 |
| 731_I | 739_L | 1.054 | 0.66 |
| 82_V | 122_T | 1.052 | 0.66 |
| 474_N | 523_A | 1.050 | 0.66 |
| 598_G | 627_V | 1.047 | 0.66 |
| 358_C | 409_N | 1.046 | 0.66 |
| 353_S | 357_S | 1.044 | 0.65 |
| 231_R | 285_I | 1.042 | 0.65 |
| 209_P | 213_L | 1.039 | 0.65 |
| 570_I | 603_Y | 1.038 | 0.65 |
| 279_E | 427_K | 1.037 | 0.65 |
| 384_I | 395_I | 1.033 | 0.64 |
| 452_V | 467_L | 1.029 | 0.64 |
| 209_P | 212_V | 1.026 | 0.63 |
| 384_I | 387_L | 1.022 | 0.63 |
| 77_D | 218_Y | 1.019 | 0.63 |
| 545_C | 556_Y | 1.019 | 0.63 |
| 574_K | 579_W | 1.018 | 0.63 |
| 64_G | 67_G | 1.016 | 0.62 |
| 568_A | 572_E | 1.016 | 0.62 |
| 353_S | 439_A | 1.016 | 0.62 |
| 277_V | 421_M | 1.013 | 0.62 |
| 621_W | 662_V | 1.010 | 0.62 |
| 639_V | 727_V | 1.008 | 0.61 |
| 547_Y | 738_R | 1.006 | 0.61 |
| 248_S | 296_K | 1.001 | 0.61 |
| 68_S | 100_A | 1.001 | 0.61 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 4usaA | 1 | 0.8887 | 100 | 0.5 | Contact Map |
| 1dgjA | 1 | 0.8835 | 100 | 0.503 | Contact Map |
| 1rm6A | 2 | 0.6976 | 100 | 0.504 | Contact Map |
| 1t3qB | 2 | 0.7173 | 100 | 0.516 | Contact Map |
| 1ffvB | 2 | 0.7186 | 100 | 0.516 | Contact Map |
| 1n62B | 2 | 0.7277 | 100 | 0.518 | Contact Map |
| 2w3sB | 4 | 0.7094 | 100 | 0.523 | Contact Map |
| 3nvzC | 2 | 0.712 | 100 | 0.527 | Contact Map |
| 3zyvA | 4 | 0.9136 | 100 | 0.549 | Contact Map |
| 3uncA | 2 | 0.9162 | 100 | 0.55 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)