| Csa3G903540 |
| ID: | 1434063376 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 463 (445) | ||
| Sequences: | 34793 (27249) | ||
| Seq/Len: | 78.187 | ||
| Nf(neff/√len): | 1291.7 |
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: 78.187).
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 |
| 313_A | 426_L | 3.135 | 1.00 |
| 255_R | 288_D | 3.135 | 1.00 |
| 323_I | 355_F | 3.085 | 1.00 |
| 313_A | 363_V | 3.028 | 1.00 |
| 316_H | 367_N | 3.005 | 1.00 |
| 382_N | 387_T | 2.779 | 1.00 |
| 329_E | 333_S | 2.743 | 1.00 |
| 380_N | 387_T | 2.699 | 1.00 |
| 325_Q | 329_E | 2.633 | 1.00 |
| 380_N | 390_K | 2.617 | 1.00 |
| 309_A | 422_M | 2.606 | 1.00 |
| 327_A | 359_F | 2.584 | 1.00 |
| 113_F | 381_V | 2.534 | 1.00 |
| 389_P | 392_W | 2.505 | 1.00 |
| 112_C | 379_T | 2.495 | 1.00 |
| 357_T | 423_T | 2.492 | 1.00 |
| 73_H | 77_L | 2.472 | 1.00 |
| 164_E | 428_H | 2.429 | 1.00 |
| 187_L | 425_L | 2.421 | 1.00 |
| 248_R | 292_I | 2.383 | 1.00 |
| 254_K | 269_S | 2.329 | 1.00 |
| 399_P | 403_I | 2.326 | 1.00 |
| 401_E | 404_P | 2.304 | 1.00 |
| 86_K | 93_P | 2.302 | 1.00 |
| 252_E | 288_D | 2.264 | 1.00 |
| 184_I | 314_L | 2.247 | 1.00 |
| 328_K | 332_E | 2.237 | 1.00 |
| 434_K | 461_V | 2.231 | 1.00 |
| 326_M | 355_F | 2.197 | 1.00 |
| 324_F | 328_K | 2.190 | 1.00 |
| 327_A | 430_V | 2.122 | 1.00 |
| 171_S | 432_N | 2.120 | 1.00 |
| 377_A | 388_I | 2.080 | 1.00 |
| 325_Q | 434_K | 2.074 | 1.00 |
| 343_K | 349_E | 2.047 | 1.00 |
| 248_R | 252_E | 2.045 | 1.00 |
| 429_F | 435_V | 2.045 | 1.00 |
| 328_K | 434_K | 2.004 | 1.00 |
| 49_W | 52_V | 1.982 | 1.00 |
| 71_F | 74_T | 1.962 | 1.00 |
| 324_F | 434_K | 1.953 | 1.00 |
| 99_N | 102_I | 1.928 | 1.00 |
| 67_D | 70_T | 1.919 | 1.00 |
| 316_H | 366_R | 1.907 | 1.00 |
| 382_N | 385_G | 1.897 | 1.00 |
| 327_A | 356_L | 1.895 | 1.00 |
| 360_I | 422_M | 1.890 | 1.00 |
| 436_E | 459_V | 1.885 | 1.00 |
| 313_A | 359_F | 1.862 | 1.00 |
| 171_S | 433_Y | 1.844 | 1.00 |
| 138_G | 294_L | 1.842 | 1.00 |
| 82_V | 97_V | 1.840 | 1.00 |
| 95_V | 392_W | 1.838 | 1.00 |
| 320_N | 323_I | 1.809 | 1.00 |
| 97_V | 106_I | 1.796 | 1.00 |
| 316_H | 320_N | 1.795 | 1.00 |
| 252_E | 256_K | 1.794 | 1.00 |
| 88_H | 93_P | 1.788 | 1.00 |
| 102_I | 384_N | 1.786 | 1.00 |
| 313_A | 317_I | 1.783 | 1.00 |
| 411_F | 415_S | 1.779 | 1.00 |
| 184_I | 310_A | 1.739 | 1.00 |
| 162_L | 194_H | 1.713 | 1.00 |
| 436_E | 461_V | 1.712 | 1.00 |
| 54_S | 57_A | 1.703 | 1.00 |
| 161_Q | 194_H | 1.703 | 1.00 |
| 249_C | 253_K | 1.690 | 1.00 |
| 26_N | 30_Y | 1.682 | 1.00 |
| 71_F | 75_H | 1.674 | 1.00 |
| 225_P | 229_P | 1.665 | 1.00 |
| 346_T | 349_E | 1.659 | 1.00 |
| 248_R | 288_D | 1.648 | 1.00 |
| 325_Q | 328_K | 1.644 | 1.00 |
| 253_K | 257_R | 1.634 | 1.00 |
| 287_S | 290_T | 1.633 | 1.00 |
| 310_A | 425_L | 1.630 | 1.00 |
| 357_T | 361_N | 1.627 | 1.00 |
| 162_L | 165_M | 1.627 | 1.00 |
| 160_E | 428_H | 1.626 | 1.00 |
| 52_V | 56_L | 1.580 | 1.00 |
| 238_K | 242_K | 1.537 | 1.00 |
| 359_F | 363_V | 1.532 | 1.00 |
| 331_Q | 427_H | 1.526 | 1.00 |
| 211_T | 215_E | 1.521 | 1.00 |
| 241_N | 245_K | 1.516 | 1.00 |
| 104_R | 108_L | 1.514 | 1.00 |
| 74_T | 78_R | 1.513 | 1.00 |
| 226_Y | 229_P | 1.509 | 1.00 |
| 399_P | 402_F | 1.501 | 1.00 |
| 101_E | 384_N | 1.497 | 1.00 |
| 379_T | 390_K | 1.489 | 1.00 |
| 252_E | 255_R | 1.487 | 1.00 |
| 323_I | 359_F | 1.484 | 1.00 |
| 245_K | 249_C | 1.477 | 1.00 |
| 212_L | 242_K | 1.476 | 1.00 |
| 81_R | 99_N | 1.471 | 1.00 |
| 177_P | 438_V | 1.465 | 1.00 |
| 314_L | 429_F | 1.453 | 1.00 |
| 272_D | 276_V | 1.445 | 1.00 |
| 160_E | 164_E | 1.431 | 1.00 |
| 376_K | 391_G | 1.424 | 1.00 |
| 192_V | 302_G | 1.424 | 1.00 |
| 45_G | 79_Y | 1.421 | 1.00 |
| 318_S | 324_F | 1.412 | 1.00 |
| 170_W | 183_K | 1.399 | 0.99 |
| 328_K | 430_V | 1.395 | 0.99 |
| 399_P | 404_P | 1.395 | 0.99 |
| 74_T | 77_L | 1.378 | 0.99 |
| 380_N | 389_P | 1.366 | 0.99 |
| 97_V | 102_I | 1.365 | 0.99 |
| 332_E | 431_L | 1.363 | 0.99 |
| 250_V | 253_K | 1.363 | 0.99 |
| 111_E | 379_T | 1.342 | 0.99 |
| 23_R | 27_E | 1.340 | 0.99 |
| 269_S | 272_D | 1.332 | 0.99 |
| 361_N | 419_K | 1.330 | 0.99 |
| 195_I | 417_L | 1.326 | 0.99 |
| 256_K | 260_K | 1.315 | 0.99 |
| 316_H | 363_V | 1.307 | 0.99 |
| 330_E | 353_M | 1.307 | 0.99 |
| 309_A | 369_V | 1.303 | 0.99 |
| 240_R | 244_E | 1.299 | 0.99 |
| 234_R | 238_K | 1.290 | 0.99 |
| 317_I | 327_A | 1.288 | 0.99 |
| 164_E | 344_G | 1.287 | 0.99 |
| 49_W | 56_L | 1.280 | 0.99 |
| 179_E | 182_D | 1.280 | 0.99 |
| 258_F | 276_V | 1.279 | 0.99 |
| 43_P | 95_V | 1.272 | 0.99 |
| 315_L | 319_Q | 1.269 | 0.99 |
| 253_K | 256_K | 1.264 | 0.99 |
| 334_I | 353_M | 1.256 | 0.99 |
| 215_E | 235_R | 1.246 | 0.98 |
| 50_P | 53_G | 1.237 | 0.98 |
| 151_V | 154_K | 1.237 | 0.98 |
| 169_E | 183_K | 1.236 | 0.98 |
| 50_P | 56_L | 1.234 | 0.98 |
| 122_K | 127_N | 1.234 | 0.98 |
| 158_F | 194_H | 1.232 | 0.98 |
| 194_H | 200_E | 1.232 | 0.98 |
| 85_Y | 96_I | 1.231 | 0.98 |
| 163_V | 187_L | 1.228 | 0.98 |
| 199_N | 253_K | 1.226 | 0.98 |
| 317_I | 323_I | 1.222 | 0.98 |
| 110_D | 381_V | 1.214 | 0.98 |
| 168_E | 171_S | 1.213 | 0.98 |
| 114_E | 378_K | 1.208 | 0.98 |
| 277_A | 280_E | 1.208 | 0.98 |
| 162_L | 190_K | 1.203 | 0.98 |
| 164_E | 168_E | 1.199 | 0.98 |
| 331_Q | 353_M | 1.195 | 0.98 |
| 163_V | 167_L | 1.194 | 0.98 |
| 428_H | 431_L | 1.193 | 0.98 |
| 244_E | 292_I | 1.190 | 0.98 |
| 103_C | 396_T | 1.189 | 0.98 |
| 167_L | 428_H | 1.185 | 0.98 |
| 227_D | 230_G | 1.183 | 0.98 |
| 326_M | 329_E | 1.181 | 0.98 |
| 331_Q | 356_L | 1.165 | 0.97 |
| 354_K | 358_K | 1.150 | 0.97 |
| 98_T | 397_P | 1.147 | 0.97 |
| 418_A | 422_M | 1.146 | 0.97 |
| 115_P | 378_K | 1.143 | 0.97 |
| 215_E | 239_A | 1.143 | 0.97 |
| 48_G | 54_S | 1.137 | 0.97 |
| 95_V | 388_I | 1.135 | 0.97 |
| 193_L | 201_I | 1.129 | 0.97 |
| 244_E | 248_R | 1.128 | 0.97 |
| 415_S | 419_K | 1.119 | 0.96 |
| 115_P | 133_I | 1.117 | 0.96 |
| 208_E | 212_L | 1.116 | 0.96 |
| 181_M | 311_M | 1.115 | 0.96 |
| 228_L | 231_F | 1.112 | 0.96 |
| 208_E | 242_K | 1.112 | 0.96 |
| 189_F | 303_H | 1.112 | 0.96 |
| 327_A | 355_F | 1.108 | 0.96 |
| 349_E | 352_Q | 1.106 | 0.96 |
| 117_Y | 120_S | 1.103 | 0.96 |
| 323_I | 326_M | 1.099 | 0.96 |
| 318_S | 435_V | 1.099 | 0.96 |
| 163_V | 424_I | 1.097 | 0.96 |
| 255_R | 258_F | 1.089 | 0.96 |
| 167_L | 432_N | 1.085 | 0.96 |
| 117_Y | 121_V | 1.085 | 0.96 |
| 376_K | 393_T | 1.078 | 0.95 |
| 76_L | 98_T | 1.075 | 0.95 |
| 400_G | 403_I | 1.073 | 0.95 |
| 350_I | 423_T | 1.072 | 0.95 |
| 150_E | 153_S | 1.069 | 0.95 |
| 165_M | 168_E | 1.069 | 0.95 |
| 137_I | 290_T | 1.065 | 0.95 |
| 289_D | 293_D | 1.061 | 0.95 |
| 337_Q | 342_Q | 1.061 | 0.95 |
| 166_G | 187_L | 1.059 | 0.95 |
| 388_I | 394_N | 1.058 | 0.95 |
| 377_A | 380_N | 1.057 | 0.95 |
| 158_F | 161_Q | 1.057 | 0.95 |
| 445_T | 453_M | 1.054 | 0.95 |
| 163_V | 428_H | 1.054 | 0.95 |
| 152_L | 420_L | 1.053 | 0.95 |
| 230_G | 233_Y | 1.050 | 0.94 |
| 435_V | 460_R | 1.048 | 0.94 |
| 254_K | 257_R | 1.047 | 0.94 |
| 254_K | 272_D | 1.046 | 0.94 |
| 187_L | 191_V | 1.045 | 0.94 |
| 235_R | 239_A | 1.040 | 0.94 |
| 177_P | 457_R | 1.037 | 0.94 |
| 314_L | 430_V | 1.035 | 0.94 |
| 167_L | 433_Y | 1.032 | 0.94 |
| 162_L | 200_E | 1.031 | 0.94 |
| 400_G | 404_P | 1.030 | 0.94 |
| 97_V | 103_C | 1.029 | 0.94 |
| 208_E | 211_T | 1.028 | 0.94 |
| 27_E | 31_S | 1.026 | 0.94 |
| 377_A | 392_W | 1.023 | 0.93 |
| 105_R | 110_D | 1.021 | 0.93 |
| 286_Y | 290_T | 1.020 | 0.93 |
| 324_F | 430_V | 1.018 | 0.93 |
| 215_E | 218_L | 1.015 | 0.93 |
| 242_K | 245_K | 1.013 | 0.93 |
| 149_S | 153_S | 1.012 | 0.93 |
| 105_R | 109_D | 1.012 | 0.93 |
| 94_T | 395_Y | 1.011 | 0.93 |
| 161_Q | 165_M | 1.008 | 0.93 |
| 159_I | 420_L | 1.006 | 0.93 |
| 112_C | 381_V | 1.006 | 0.93 |
| 357_T | 419_K | 1.005 | 0.93 |
| 419_K | 423_T | 1.002 | 0.92 |
| 310_A | 422_M | 1.002 | 0.92 |
| 335_I | 431_L | 1.002 | 0.92 |
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 | |
| 4lxjA | 1 | 0.959 | 100 | 0.254 | Contact Map |
| 3nxuA | 2 | 0.8812 | 100 | 0.262 | Contact Map |
| 3s79A | 1 | 0.8747 | 100 | 0.268 | Contact Map |
| 3k9vA | 2 | 0.8877 | 100 | 0.272 | Contact Map |
| 2ve3A | 2 | 0.8618 | 100 | 0.273 | Contact Map |
| 4r21A | 2 | 0.8294 | 100 | 0.273 | Contact Map |
| 3tbgA | 4 | 0.879 | 100 | 0.276 | Contact Map |
| 2hi4A | 1 | 0.8877 | 100 | 0.277 | Contact Map |
| 2ij2A | 2 | 0.8618 | 100 | 0.278 | Contact Map |
| 2cibA | 1 | 0.8186 | 100 | 0.281 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)