| hNaCT |
| ID: | 1508170259 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 568 (489) | ||
| Sequences: | 2459 (1474.1) | ||
| Seq/Len: | 5.029 | ||
| Nf(neff/√len): | 66.7 |
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: 5.029).
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 |
| 210_L | 214_Y | 4.185 | 1.00 |
| 291_S | 314_F | 3.433 | 1.00 |
| 77_Q | 426_A | 3.303 | 1.00 |
| 218_I | 264_M | 3.076 | 1.00 |
| 133_A | 261_M | 2.893 | 1.00 |
| 74_D | 77_Q | 2.850 | 1.00 |
| 431_V | 435_K | 2.847 | 1.00 |
| 493_P | 544_V | 2.748 | 1.00 |
| 102_R | 401_V | 2.725 | 1.00 |
| 485_L | 490_I | 2.604 | 1.00 |
| 457_A | 533_N | 2.584 | 1.00 |
| 120_K | 123_R | 2.410 | 1.00 |
| 298_A | 316_E | 2.367 | 1.00 |
| 91_L | 411_V | 2.312 | 1.00 |
| 461_E | 533_N | 2.212 | 1.00 |
| 258_F | 262_L | 2.204 | 1.00 |
| 80_V | 422_K | 2.202 | 1.00 |
| 259_P | 543_A | 2.170 | 1.00 |
| 255_A | 259_P | 2.121 | 1.00 |
| 526_V | 530_V | 2.106 | 1.00 |
| 45_M | 63_P | 2.098 | 1.00 |
| 449_T | 490_I | 2.085 | 1.00 |
| 424_S | 429_L | 2.065 | 1.00 |
| 540_V | 544_V | 2.060 | 1.00 |
| 450_L | 541_F | 2.038 | 1.00 |
| 132_T | 216_A | 2.011 | 1.00 |
| 263_V | 539_C | 2.002 | 1.00 |
| 129_M | 215_A | 1.963 | 1.00 |
| 503_M | 530_V | 1.932 | 1.00 |
| 132_T | 148_M | 1.895 | 1.00 |
| 456_V | 472_F | 1.876 | 1.00 |
| 252_S | 488_L | 1.872 | 1.00 |
| 41_V | 66_L | 1.857 | 1.00 |
| 300_K | 304_E | 1.855 | 1.00 |
| 249_N | 252_S | 1.826 | 1.00 |
| 57_A | 403_Q | 1.824 | 1.00 |
| 228_G | 466_V | 1.795 | 1.00 |
| 486_N | 489_Y | 1.778 | 1.00 |
| 446_A | 545_N | 1.763 | 1.00 |
| 134_L | 138_W | 1.729 | 1.00 |
| 537_V | 541_F | 1.723 | 1.00 |
| 128_F | 152_V | 1.712 | 1.00 |
| 503_M | 533_N | 1.705 | 1.00 |
| 136_S | 219_G | 1.702 | 1.00 |
| 254_F | 258_F | 1.691 | 0.99 |
| 234_L | 238_N | 1.687 | 0.99 |
| 324_F | 328_I | 1.672 | 0.99 |
| 213_C | 514_V | 1.661 | 0.99 |
| 534_I | 538_F | 1.656 | 0.99 |
| 137_M | 222_A | 1.652 | 0.99 |
| 149_V | 513_I | 1.646 | 0.99 |
| 267_F | 535_I | 1.644 | 0.99 |
| 67_F | 423_G | 1.643 | 0.99 |
| 523_A | 526_V | 1.640 | 0.99 |
| 141_N | 220_G | 1.607 | 0.99 |
| 480_S | 490_I | 1.553 | 0.99 |
| 220_G | 226_G | 1.547 | 0.99 |
| 73_L | 427_S | 1.544 | 0.99 |
| 504_L | 522_V | 1.532 | 0.99 |
| 425_E | 431_V | 1.531 | 0.99 |
| 214_Y | 461_E | 1.524 | 0.99 |
| 454_L | 537_V | 1.524 | 0.99 |
| 301_V | 304_E | 1.523 | 0.99 |
| 219_G | 226_G | 1.517 | 0.99 |
| 461_E | 501_A | 1.478 | 0.98 |
| 259_P | 262_L | 1.477 | 0.98 |
| 146_A | 513_I | 1.464 | 0.98 |
| 82_Y | 415_G | 1.461 | 0.98 |
| 262_L | 266_L | 1.457 | 0.98 |
| 112_R | 115_L | 1.457 | 0.98 |
| 222_A | 254_F | 1.455 | 0.98 |
| 416_G | 420_L | 1.453 | 0.98 |
| 460_T | 465_N | 1.433 | 0.98 |
| 222_A | 258_F | 1.431 | 0.98 |
| 345_A | 361_I | 1.427 | 0.98 |
| 98_V | 405_K | 1.427 | 0.98 |
| 432_W | 436_Q | 1.424 | 0.98 |
| 121_P | 207_A | 1.422 | 0.98 |
| 90_F | 414_L | 1.420 | 0.98 |
| 473_L | 491_M | 1.413 | 0.98 |
| 453_S | 497_S | 1.412 | 0.98 |
| 444_P | 447_A | 1.400 | 0.97 |
| 129_M | 268_A | 1.399 | 0.97 |
| 122_A | 273_Q | 1.395 | 0.97 |
| 222_A | 261_M | 1.385 | 0.97 |
| 45_M | 420_L | 1.382 | 0.97 |
| 129_M | 265_L | 1.375 | 0.97 |
| 398_D | 401_V | 1.374 | 0.97 |
| 305_E | 308_K | 1.372 | 0.97 |
| 478_S | 481_R | 1.364 | 0.97 |
| 254_F | 259_P | 1.363 | 0.97 |
| 55_P | 59_T | 1.359 | 0.97 |
| 54_I | 59_T | 1.357 | 0.97 |
| 207_A | 210_L | 1.357 | 0.97 |
| 292_K | 316_E | 1.347 | 0.97 |
| 207_A | 278_R | 1.342 | 0.96 |
| 49_W | 417_G | 1.339 | 0.96 |
| 268_A | 528_T | 1.334 | 0.96 |
| 84_K | 235_G | 1.322 | 0.96 |
| 503_M | 526_V | 1.321 | 0.96 |
| 87_N | 415_G | 1.319 | 0.96 |
| 271_W | 274_F | 1.315 | 0.96 |
| 214_Y | 226_G | 1.314 | 0.96 |
| 229_P | 508_T | 1.313 | 0.96 |
| 48_Y | 62_M | 1.309 | 0.96 |
| 57_A | 409_G | 1.294 | 0.95 |
| 466_V | 508_T | 1.291 | 0.95 |
| 539_C | 543_A | 1.283 | 0.95 |
| 476_F | 494_C | 1.278 | 0.95 |
| 45_M | 59_T | 1.264 | 0.95 |
| 82_Y | 88_M | 1.263 | 0.94 |
| 142_T | 508_T | 1.261 | 0.94 |
| 523_A | 527_K | 1.261 | 0.94 |
| 440_L | 451_I | 1.258 | 0.94 |
| 44_L | 48_Y | 1.256 | 0.94 |
| 521_K | 524_D | 1.250 | 0.94 |
| 267_F | 528_T | 1.241 | 0.94 |
| 64_V | 419_A | 1.241 | 0.94 |
| 89_L | 140_S | 1.241 | 0.94 |
| 422_K | 426_A | 1.240 | 0.94 |
| 227_T | 230_N | 1.237 | 0.94 |
| 267_F | 532_M | 1.233 | 0.94 |
| 44_L | 66_L | 1.232 | 0.93 |
| 260_N | 536_G | 1.231 | 0.93 |
| 225_T | 250_F | 1.230 | 0.93 |
| 408_W | 415_G | 1.227 | 0.93 |
| 46_A | 462_C | 1.223 | 0.93 |
| 48_Y | 51_T | 1.220 | 0.93 |
| 68_P | 78_V | 1.217 | 0.93 |
| 424_S | 430_S | 1.211 | 0.93 |
| 465_N | 499_S | 1.196 | 0.92 |
| 256_F | 543_A | 1.191 | 0.92 |
| 422_K | 425_E | 1.190 | 0.92 |
| 348_E | 358_T | 1.189 | 0.92 |
| 47_I | 51_T | 1.179 | 0.91 |
| 292_K | 338_M | 1.178 | 0.91 |
| 318_N | 370_V | 1.177 | 0.91 |
| 93_G | 96_V | 1.176 | 0.91 |
| 213_C | 510_P | 1.176 | 0.91 |
| 450_L | 537_V | 1.174 | 0.91 |
| 272_L | 528_T | 1.174 | 0.91 |
| 135_L | 327_V | 1.172 | 0.91 |
| 56_L | 464_S | 1.170 | 0.91 |
| 253_W | 495_T | 1.165 | 0.91 |
| 63_P | 416_G | 1.165 | 0.91 |
| 128_F | 155_I | 1.160 | 0.91 |
| 430_S | 434_G | 1.157 | 0.90 |
| 456_V | 498_A | 1.156 | 0.90 |
| 237_M | 491_M | 1.154 | 0.90 |
| 125_M | 406_V | 1.154 | 0.90 |
| 233_L | 473_L | 1.150 | 0.90 |
| 54_I | 62_M | 1.149 | 0.90 |
| 483_I | 490_I | 1.144 | 0.90 |
| 453_S | 461_E | 1.142 | 0.90 |
| 220_G | 230_N | 1.139 | 0.89 |
| 453_S | 537_V | 1.136 | 0.89 |
| 141_N | 498_A | 1.133 | 0.89 |
| 35_F | 38_C | 1.131 | 0.89 |
| 295_E | 298_A | 1.130 | 0.89 |
| 141_N | 226_G | 1.123 | 0.89 |
| 136_S | 141_N | 1.122 | 0.88 |
| 86_T | 89_L | 1.118 | 0.88 |
| 438_E | 479_M | 1.118 | 0.88 |
| 477_A | 491_M | 1.117 | 0.88 |
| 52_E | 515_F | 1.115 | 0.88 |
| 506_V | 511_N | 1.107 | 0.88 |
| 98_V | 101_E | 1.107 | 0.88 |
| 140_S | 143_A | 1.106 | 0.87 |
| 110_A | 114_L | 1.105 | 0.87 |
| 99_A | 396_L | 1.104 | 0.87 |
| 47_I | 53_V | 1.102 | 0.87 |
| 469_T | 498_A | 1.101 | 0.87 |
| 60_S | 413_L | 1.097 | 0.87 |
| 210_L | 525_M | 1.092 | 0.87 |
| 220_G | 223_T | 1.092 | 0.87 |
| 476_F | 480_S | 1.088 | 0.86 |
| 252_S | 255_A | 1.085 | 0.86 |
| 542_L | 545_N | 1.079 | 0.86 |
| 63_P | 68_P | 1.079 | 0.86 |
| 40_Y | 44_L | 1.073 | 0.85 |
| 141_N | 217_S | 1.066 | 0.85 |
| 64_V | 82_Y | 1.063 | 0.85 |
| 141_N | 460_T | 1.062 | 0.84 |
| 493_P | 497_S | 1.061 | 0.84 |
| 233_L | 469_T | 1.061 | 0.84 |
| 44_L | 538_F | 1.060 | 0.84 |
| 125_M | 269_W | 1.059 | 0.84 |
| 492_L | 545_N | 1.058 | 0.84 |
| 480_S | 485_L | 1.057 | 0.84 |
| 220_G | 227_T | 1.057 | 0.84 |
| 502_F | 511_N | 1.056 | 0.84 |
| 77_Q | 80_V | 1.050 | 0.84 |
| 86_T | 140_S | 1.049 | 0.83 |
| 253_W | 492_L | 1.045 | 0.83 |
| 411_V | 414_L | 1.043 | 0.83 |
| 41_V | 63_P | 1.043 | 0.83 |
| 57_A | 415_G | 1.041 | 0.83 |
| 507_A | 510_P | 1.039 | 0.83 |
| 61_L | 218_I | 1.038 | 0.83 |
| 313_S | 448_I | 1.036 | 0.82 |
| 228_G | 508_T | 1.033 | 0.82 |
| 140_S | 144_T | 1.033 | 0.82 |
| 506_V | 522_V | 1.033 | 0.82 |
| 93_G | 508_T | 1.033 | 0.82 |
| 314_F | 318_N | 1.031 | 0.82 |
| 84_K | 421_A | 1.030 | 0.82 |
| 62_M | 66_L | 1.029 | 0.82 |
| 429_L | 432_W | 1.026 | 0.82 |
| 371_P | 376_K | 1.025 | 0.81 |
| 267_F | 271_W | 1.024 | 0.81 |
| 26_P | 34_K | 1.024 | 0.81 |
| 216_A | 221_T | 1.022 | 0.81 |
| 201_R | 205_C | 1.022 | 0.81 |
| 324_F | 398_D | 1.020 | 0.81 |
| 235_G | 418_F | 1.017 | 0.81 |
| 87_N | 143_A | 1.016 | 0.81 |
| 489_Y | 545_N | 1.014 | 0.81 |
| 391_F | 396_L | 1.011 | 0.80 |
| 453_S | 533_N | 1.010 | 0.80 |
| 94_L | 396_L | 1.009 | 0.80 |
| 477_A | 481_R | 1.008 | 0.80 |
| 414_L | 500_F | 1.007 | 0.80 |
| 289_L | 379_F | 1.005 | 0.80 |
| 327_V | 330_W | 1.003 | 0.80 |
| 90_F | 466_V | 1.003 | 0.80 |
| 466_V | 510_P | 1.001 | 0.79 |
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 | |
| 4f35D | 4 | 0.7606 | 100 | 0.602 | Contact Map |
| 4r1iA | 2 | 0.7993 | 100 | 0.78 | Contact Map |
| 4r0cA | 4 | 0 | 99.9 | 0.83 | Contact Map |
| 2l1tA | 1 | 0.0739 | 29.2 | 0.976 | Contact Map |
| 3w9iA | 6 | 0.2782 | 8.8 | 0.981 | Contact Map |
| 4k0jA | 6 | 0.2658 | 8.3 | 0.981 | Contact Map |
| 4mt1A | 1 | 0.2746 | 8.2 | 0.981 | Contact Map |
| 4dx5A | 3 | 0.294 | 5.7 | 0.983 | Contact Map |
| 4pypA | 1 | 0.2148 | 3.2 | 0.985 | Contact Map |
| 3tx3A | 2 | 0.0951 | 2.8 | 0.985 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)