| T0826 |
| ID: | 1403201243 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 544 (536) | ||
| Sequences: | 1892 (1591.5) | ||
| Seq/Len: | 3.530 | ||
| Nf(neff/√len): | 68.7 |
Jackhmmer Results: (2014_04_16)
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: 3.530).
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 |
| 259_L | 431_D | 3.350 | 1.00 |
| 271_P | 506_E | 3.347 | 1.00 |
| 517_T | 537_L | 3.080 | 1.00 |
| 520_G | 535_D | 2.877 | 1.00 |
| 248_G | 257_T | 2.683 | 1.00 |
| 237_V | 430_I | 2.305 | 1.00 |
| 307_L | 518_V | 2.265 | 1.00 |
| 330_V | 334_V | 2.261 | 1.00 |
| 431_D | 435_R | 2.251 | 1.00 |
| 237_V | 449_Y | 2.215 | 1.00 |
| 250_N | 269_N | 2.209 | 1.00 |
| 433_V | 447_V | 2.207 | 1.00 |
| 284_L | 289_S | 2.128 | 1.00 |
| 335_P | 338_D | 2.073 | 1.00 |
| 285_P | 288_F | 2.062 | 1.00 |
| 331_C | 335_P | 2.055 | 1.00 |
| 397_K | 424_L | 2.042 | 1.00 |
| 509_Y | 536_I | 1.926 | 1.00 |
| 280_T | 283_S | 1.916 | 1.00 |
| 311_V | 522_M | 1.907 | 1.00 |
| 176_D | 179_S | 1.898 | 1.00 |
| 276_C | 280_T | 1.884 | 1.00 |
| 435_R | 438_E | 1.883 | 1.00 |
| 280_T | 284_L | 1.879 | 1.00 |
| 331_C | 334_V | 1.844 | 0.99 |
| 363_D | 436_K | 1.835 | 0.99 |
| 284_L | 290_T | 1.831 | 0.99 |
| 273_V | 509_Y | 1.827 | 0.99 |
| 382_S | 422_T | 1.816 | 0.99 |
| 327_C | 331_C | 1.811 | 0.99 |
| 367_N | 440_R | 1.797 | 0.99 |
| 284_L | 288_F | 1.785 | 0.99 |
| 438_E | 442_D | 1.764 | 0.99 |
| 277_G | 280_T | 1.758 | 0.99 |
| 286_C | 291_F | 1.751 | 0.99 |
| 190_L | 193_P | 1.743 | 0.99 |
| 285_P | 289_S | 1.739 | 0.99 |
| 331_C | 336_N | 1.739 | 0.99 |
| 115_S | 118_L | 1.732 | 0.99 |
| 450_V | 511_H | 1.723 | 0.99 |
| 110_T | 114_E | 1.705 | 0.99 |
| 263_R | 431_D | 1.702 | 0.99 |
| 171_M | 174_Y | 1.680 | 0.99 |
| 173_Q | 177_Y | 1.679 | 0.99 |
| 259_L | 262_A | 1.676 | 0.99 |
| 182_R | 185_K | 1.673 | 0.99 |
| 168_G | 172_L | 1.654 | 0.99 |
| 338_D | 342_L | 1.639 | 0.98 |
| 235_V | 447_V | 1.639 | 0.98 |
| 242_T | 423_V | 1.628 | 0.98 |
| 392_T | 425_Y | 1.611 | 0.98 |
| 124_V | 128_V | 1.595 | 0.98 |
| 281_A | 284_L | 1.590 | 0.98 |
| 279_S | 282_H | 1.571 | 0.98 |
| 286_C | 289_S | 1.566 | 0.98 |
| 285_P | 291_F | 1.563 | 0.98 |
| 242_T | 246_N | 1.559 | 0.98 |
| 455_E | 459_E | 1.557 | 0.98 |
| 383_H | 452_D | 1.554 | 0.98 |
| 174_Y | 178_A | 1.553 | 0.98 |
| 165_C | 168_G | 1.541 | 0.97 |
| 292_D | 297_D | 1.533 | 0.97 |
| 172_L | 176_D | 1.528 | 0.97 |
| 330_V | 335_P | 1.521 | 0.97 |
| 474_S | 477_T | 1.516 | 0.97 |
| 287_M | 297_D | 1.510 | 0.97 |
| 284_L | 292_D | 1.500 | 0.97 |
| 338_D | 344_L | 1.499 | 0.97 |
| 234_V | 522_M | 1.490 | 0.97 |
| 232_R | 444_E | 1.484 | 0.97 |
| 285_P | 290_T | 1.483 | 0.97 |
| 171_M | 175_Q | 1.478 | 0.96 |
| 126_W | 129_C | 1.467 | 0.96 |
| 64_V | 68_I | 1.465 | 0.96 |
| 286_C | 290_T | 1.461 | 0.96 |
| 287_M | 291_F | 1.460 | 0.96 |
| 242_T | 426_V | 1.451 | 0.96 |
| 26_V | 37_E | 1.446 | 0.96 |
| 454_G | 457_L | 1.443 | 0.96 |
| 217_L | 220_A | 1.441 | 0.96 |
| 289_S | 292_D | 1.435 | 0.96 |
| 189_H | 193_P | 1.435 | 0.96 |
| 356_N | 425_Y | 1.430 | 0.96 |
| 126_W | 132_V | 1.428 | 0.95 |
| 285_P | 293_R | 1.428 | 0.95 |
| 334_V | 338_D | 1.428 | 0.95 |
| 255_Q | 424_L | 1.426 | 0.95 |
| 187_V | 190_L | 1.425 | 0.95 |
| 332_G | 335_P | 1.425 | 0.95 |
| 462_M | 465_H | 1.424 | 0.95 |
| 216_Q | 219_M | 1.423 | 0.95 |
| 317_E | 371_K | 1.422 | 0.95 |
| 393_E | 396_R | 1.404 | 0.95 |
| 213_P | 217_L | 1.400 | 0.95 |
| 259_L | 428_Q | 1.388 | 0.94 |
| 191_I | 198_G | 1.388 | 0.94 |
| 276_C | 286_C | 1.372 | 0.94 |
| 289_S | 294_T | 1.371 | 0.94 |
| 131_G | 135_A | 1.370 | 0.94 |
| 396_R | 401_T | 1.363 | 0.94 |
| 267_I | 482_V | 1.359 | 0.94 |
| 246_N | 423_V | 1.358 | 0.94 |
| 398_F | 421_N | 1.352 | 0.93 |
| 334_V | 337_T | 1.352 | 0.93 |
| 382_S | 423_V | 1.351 | 0.93 |
| 255_Q | 261_A | 1.351 | 0.93 |
| 463_Y | 466_A | 1.350 | 0.93 |
| 294_T | 297_D | 1.346 | 0.93 |
| 174_Y | 179_S | 1.340 | 0.93 |
| 435_R | 439_N | 1.337 | 0.93 |
| 293_R | 296_Y | 1.335 | 0.93 |
| 208_K | 211_N | 1.332 | 0.93 |
| 170_A | 174_Y | 1.332 | 0.93 |
| 456_S | 460_N | 1.331 | 0.93 |
| 191_I | 195_N | 1.328 | 0.93 |
| 337_T | 340_T | 1.322 | 0.92 |
| 172_L | 177_Y | 1.319 | 0.92 |
| 20_S | 28_N | 1.319 | 0.92 |
| 339_V | 342_L | 1.314 | 0.92 |
| 169_I | 173_Q | 1.311 | 0.92 |
| 333_K | 336_N | 1.310 | 0.92 |
| 275_S | 280_T | 1.309 | 0.92 |
| 392_T | 395_E | 1.309 | 0.92 |
| 258_P | 427_D | 1.308 | 0.92 |
| 242_T | 247_W | 1.295 | 0.91 |
| 25_L | 28_N | 1.288 | 0.91 |
| 114_E | 118_L | 1.286 | 0.91 |
| 25_L | 29_Y | 1.286 | 0.91 |
| 27_L | 32_F | 1.284 | 0.91 |
| 29_Y | 36_V | 1.283 | 0.91 |
| 195_N | 198_G | 1.276 | 0.91 |
| 257_T | 261_A | 1.273 | 0.90 |
| 276_C | 279_S | 1.271 | 0.90 |
| 233_F | 443_L | 1.264 | 0.90 |
| 214_Y | 217_L | 1.263 | 0.90 |
| 181_F | 185_K | 1.263 | 0.90 |
| 244_A | 478_H | 1.262 | 0.90 |
| 280_T | 286_C | 1.250 | 0.89 |
| 330_V | 336_N | 1.250 | 0.89 |
| 363_D | 440_R | 1.249 | 0.89 |
| 26_V | 29_Y | 1.248 | 0.89 |
| 244_A | 269_N | 1.248 | 0.89 |
| 114_E | 117_R | 1.242 | 0.89 |
| 469_Y | 472_A | 1.236 | 0.89 |
| 395_E | 428_Q | 1.231 | 0.88 |
| 462_M | 467_A | 1.229 | 0.88 |
| 236_L | 374_V | 1.227 | 0.88 |
| 268_V | 537_L | 1.222 | 0.88 |
| 434_I | 447_V | 1.221 | 0.88 |
| 474_S | 478_H | 1.218 | 0.88 |
| 287_M | 290_T | 1.217 | 0.88 |
| 126_W | 130_L | 1.215 | 0.87 |
| 175_Q | 178_A | 1.211 | 0.87 |
| 173_Q | 176_D | 1.209 | 0.87 |
| 188_T | 191_I | 1.207 | 0.87 |
| 172_L | 175_Q | 1.198 | 0.86 |
| 29_Y | 33_A | 1.196 | 0.86 |
| 163_F | 166_A | 1.194 | 0.86 |
| 28_N | 33_A | 1.187 | 0.86 |
| 424_L | 428_Q | 1.185 | 0.86 |
| 236_L | 514_Y | 1.183 | 0.86 |
| 180_F | 185_K | 1.182 | 0.85 |
| 288_F | 292_D | 1.180 | 0.85 |
| 179_S | 183_N | 1.177 | 0.85 |
| 28_N | 32_F | 1.176 | 0.85 |
| 280_T | 383_H | 1.176 | 0.85 |
| 276_C | 283_S | 1.176 | 0.85 |
| 27_L | 30_A | 1.176 | 0.85 |
| 330_V | 333_K | 1.174 | 0.85 |
| 170_A | 179_S | 1.174 | 0.85 |
| 284_L | 291_F | 1.174 | 0.85 |
| 233_F | 445_S | 1.174 | 0.85 |
| 463_Y | 467_A | 1.173 | 0.85 |
| 168_G | 176_D | 1.171 | 0.85 |
| 248_G | 255_Q | 1.166 | 0.84 |
| 171_M | 178_A | 1.166 | 0.84 |
| 29_Y | 37_E | 1.163 | 0.84 |
| 262_A | 431_D | 1.162 | 0.84 |
| 290_T | 304_Q | 1.158 | 0.84 |
| 166_A | 169_I | 1.157 | 0.84 |
| 63_F | 66_H | 1.156 | 0.84 |
| 174_Y | 177_Y | 1.151 | 0.83 |
| 289_S | 296_Y | 1.149 | 0.83 |
| 284_L | 293_R | 1.146 | 0.83 |
| 28_N | 37_E | 1.145 | 0.83 |
| 233_F | 373_A | 1.142 | 0.83 |
| 277_G | 282_H | 1.138 | 0.82 |
| 187_V | 191_I | 1.134 | 0.82 |
| 288_F | 294_T | 1.133 | 0.82 |
| 383_H | 453_H | 1.132 | 0.82 |
| 202_S | 206_D | 1.130 | 0.82 |
| 335_P | 340_T | 1.129 | 0.82 |
| 282_H | 286_C | 1.129 | 0.82 |
| 222_V | 225_R | 1.126 | 0.81 |
| 481_M | 514_Y | 1.125 | 0.81 |
| 235_V | 445_S | 1.122 | 0.81 |
| 277_G | 281_A | 1.122 | 0.81 |
| 171_M | 176_D | 1.122 | 0.81 |
| 213_P | 216_Q | 1.121 | 0.81 |
| 301_A | 304_Q | 1.120 | 0.81 |
| 289_S | 293_R | 1.119 | 0.81 |
| 263_R | 434_I | 1.119 | 0.81 |
| 446_V | 483_M | 1.116 | 0.81 |
| 456_S | 459_E | 1.116 | 0.81 |
| 275_S | 279_S | 1.116 | 0.81 |
| 286_C | 292_D | 1.114 | 0.80 |
| 168_G | 171_M | 1.113 | 0.80 |
| 404_T | 417_N | 1.113 | 0.80 |
| 65_F | 68_I | 1.112 | 0.80 |
| 230_L | 444_E | 1.109 | 0.80 |
| 132_V | 135_A | 1.108 | 0.80 |
| 276_C | 281_A | 1.108 | 0.80 |
| 33_A | 36_V | 1.107 | 0.80 |
| 191_I | 199_A | 1.105 | 0.80 |
| 232_R | 446_V | 1.104 | 0.80 |
| 281_A | 288_F | 1.103 | 0.80 |
| 171_M | 177_Y | 1.103 | 0.80 |
| 289_S | 297_D | 1.102 | 0.79 |
| 128_V | 132_V | 1.102 | 0.79 |
| 138_Y | 142_K | 1.099 | 0.79 |
| 32_F | 37_E | 1.099 | 0.79 |
| 169_I | 172_L | 1.097 | 0.79 |
| 285_P | 297_D | 1.094 | 0.79 |
| 283_S | 286_C | 1.093 | 0.79 |
| 213_P | 218_D | 1.090 | 0.78 |
| 22_Y | 27_L | 1.086 | 0.78 |
| 248_G | 261_A | 1.086 | 0.78 |
| 272_Q | 508_E | 1.085 | 0.78 |
| 437_L | 447_V | 1.084 | 0.78 |
| 442_D | 447_V | 1.083 | 0.78 |
| 234_V | 446_V | 1.083 | 0.78 |
| 287_M | 294_T | 1.083 | 0.78 |
| 356_N | 432_K | 1.082 | 0.78 |
| 530_Y | 535_D | 1.082 | 0.78 |
| 358_L | 429_F | 1.079 | 0.77 |
| 300_K | 304_Q | 1.078 | 0.77 |
| 276_C | 282_H | 1.078 | 0.77 |
| 338_D | 341_S | 1.077 | 0.77 |
| 59_F | 165_C | 1.077 | 0.77 |
| 11_G | 14_A | 1.076 | 0.77 |
| 25_L | 32_F | 1.076 | 0.77 |
| 168_G | 173_Q | 1.076 | 0.77 |
| 193_P | 199_A | 1.072 | 0.77 |
| 284_L | 287_M | 1.066 | 0.76 |
| 287_M | 293_R | 1.062 | 0.76 |
| 465_H | 468_P | 1.058 | 0.76 |
| 32_F | 36_V | 1.057 | 0.75 |
| 398_F | 401_T | 1.057 | 0.75 |
| 264_G | 267_I | 1.057 | 0.75 |
| 464_L | 467_A | 1.056 | 0.75 |
| 246_N | 420_D | 1.055 | 0.75 |
| 118_L | 123_Y | 1.053 | 0.75 |
| 316_V | 372_D | 1.052 | 0.75 |
| 252_Y | 420_D | 1.048 | 0.75 |
| 113_A | 118_L | 1.048 | 0.75 |
| 234_V | 448_H | 1.047 | 0.74 |
| 92_E | 99_F | 1.046 | 0.74 |
| 27_L | 36_V | 1.046 | 0.74 |
| 338_D | 343_N | 1.045 | 0.74 |
| 271_P | 505_A | 1.043 | 0.74 |
| 334_V | 343_N | 1.042 | 0.74 |
| 337_T | 342_L | 1.040 | 0.74 |
| 330_V | 338_D | 1.038 | 0.74 |
| 414_T | 418_T | 1.037 | 0.73 |
| 292_D | 296_Y | 1.036 | 0.73 |
| 335_P | 342_L | 1.035 | 0.73 |
| 396_R | 399_T | 1.033 | 0.73 |
| 395_E | 425_Y | 1.029 | 0.73 |
| 26_V | 30_A | 1.024 | 0.72 |
| 170_A | 173_Q | 1.024 | 0.72 |
| 499_C | 540_C | 1.023 | 0.72 |
| 40_P | 45_G | 1.022 | 0.72 |
| 240_E | 452_D | 1.021 | 0.72 |
| 47_D | 50_L | 1.020 | 0.72 |
| 287_M | 450_V | 1.019 | 0.72 |
| 240_E | 383_H | 1.017 | 0.71 |
| 234_V | 374_V | 1.016 | 0.71 |
| 331_C | 338_D | 1.016 | 0.71 |
| 363_D | 367_N | 1.015 | 0.71 |
| 137_A | 141_V | 1.015 | 0.71 |
| 103_M | 106_N | 1.013 | 0.71 |
| 175_Q | 179_S | 1.013 | 0.71 |
| 188_T | 198_G | 1.010 | 0.71 |
| 136_L | 140_A | 1.010 | 0.71 |
| 246_N | 256_T | 1.010 | 0.71 |
| 324_D | 378_H | 1.006 | 0.70 |
| 280_T | 452_D | 1.004 | 0.70 |
| 287_M | 292_D | 1.004 | 0.70 |
| 188_T | 199_A | 1.003 | 0.70 |
| 33_A | 37_E | 1.002 | 0.70 |
| 245_A | 475_G | 1.001 | 0.70 |
| 275_S | 282_H | 1.001 | 0.70 |
| 358_L | 377_L | 1.001 | 0.70 |
| 29_Y | 32_F | 1.001 | 0.70 |
| 140_A | 144_K | 1.000 | 0.70 |
| 135_A | 138_Y | 1.000 | 0.70 |
| 238_V | 284_L | 1.000 | 0.70 |
| 479_I | 509_Y | 1.000 | 0.70 |
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 | |
| 4kavA | 1 | 0.6085 | 100 | 0.521 | Contact Map |
| 2w8dA | 2 | 0.5772 | 100 | 0.553 | Contact Map |
| 2w5qA | 1 | 0.579 | 100 | 0.554 | Contact Map |
| 3lxqA | 2 | 0.5846 | 100 | 0.56 | Contact Map |
| 3b5qA | 2 | 0.5368 | 100 | 0.593 | Contact Map |
| 2vqrA | 1 | 0.5441 | 100 | 0.599 | Contact Map |
| 2qzuA | 1 | 0.5607 | 100 | 0.601 | Contact Map |
| 1fsuA | 1 | 0.5312 | 100 | 0.607 | Contact Map |
| 1aukA | 1 | 0.5165 | 100 | 0.61 | Contact Map |
| 3ed4A | 4 | 0.5607 | 100 | 0.61 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)