| T0770 |
| ID: | 1401238439 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 488 (483) | ||
| Sequences: | 1409 (1302.4) | ||
| Seq/Len: | 2.917 | ||
| Nf(neff/√len): | 59.3 |
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: 2.917).
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 |
| 370_N | 374_K | 5.577 | 1.00 |
| 165_S | 168_S | 4.362 | 1.00 |
| 208_T | 247_D | 3.845 | 1.00 |
| 202_D | 205_K | 3.614 | 1.00 |
| 349_L | 372_L | 3.578 | 1.00 |
| 178_D | 214_K | 3.266 | 1.00 |
| 142_T | 166_Q | 3.249 | 1.00 |
| 135_A | 173_V | 3.172 | 1.00 |
| 212_S | 348_Q | 3.087 | 1.00 |
| 167_E | 225_D | 3.076 | 1.00 |
| 281_N | 285_K | 2.984 | 1.00 |
| 471_I | 475_K | 2.934 | 1.00 |
| 142_T | 485_W | 2.918 | 1.00 |
| 139_Y | 217_T | 2.874 | 1.00 |
| 152_E | 162_K | 2.835 | 1.00 |
| 467_M | 474_P | 2.666 | 1.00 |
| 371_E | 375_K | 2.608 | 1.00 |
| 32_D | 35_T | 2.574 | 1.00 |
| 151_T | 164_D | 2.519 | 1.00 |
| 288_Q | 295_I | 2.514 | 1.00 |
| 171_N | 228_K | 2.505 | 1.00 |
| 167_E | 171_N | 2.474 | 1.00 |
| 175_S | 179_E | 2.471 | 1.00 |
| 245_A | 248_N | 2.455 | 1.00 |
| 345_C | 379_E | 2.431 | 1.00 |
| 205_K | 247_D | 2.402 | 1.00 |
| 132_I | 210_A | 2.385 | 1.00 |
| 378_R | 392_D | 2.377 | 1.00 |
| 219_M | 351_L | 2.302 | 1.00 |
| 417_Q | 431_Q | 2.279 | 1.00 |
| 242_V | 247_D | 2.231 | 1.00 |
| 352_E | 372_L | 2.223 | 1.00 |
| 163_F | 466_E | 2.205 | 1.00 |
| 349_L | 352_E | 2.204 | 1.00 |
| 132_I | 184_M | 2.179 | 1.00 |
| 148_I | 169_V | 2.141 | 1.00 |
| 131_K | 176_L | 2.119 | 1.00 |
| 233_G | 236_L | 2.112 | 1.00 |
| 242_V | 345_C | 2.109 | 1.00 |
| 181_L | 214_K | 2.083 | 1.00 |
| 244_S | 345_C | 2.038 | 1.00 |
| 184_M | 203_M | 2.012 | 1.00 |
| 345_C | 349_L | 2.007 | 1.00 |
| 232_I | 236_L | 1.992 | 1.00 |
| 349_L | 376_G | 1.974 | 1.00 |
| 458_R | 483_K | 1.965 | 1.00 |
| 365_N | 371_E | 1.948 | 0.99 |
| 113_I | 131_K | 1.946 | 0.99 |
| 349_L | 375_K | 1.942 | 0.99 |
| 220_V | 430_V | 1.924 | 0.99 |
| 112_A | 130_C | 1.923 | 0.99 |
| 185_D | 207_M | 1.920 | 0.99 |
| 199_Y | 249_L | 1.890 | 0.99 |
| 374_K | 378_R | 1.848 | 0.99 |
| 355_A | 362_V | 1.845 | 0.99 |
| 166_Q | 485_W | 1.838 | 0.99 |
| 131_K | 179_E | 1.837 | 0.99 |
| 222_V | 358_R | 1.830 | 0.99 |
| 405_T | 408_K | 1.828 | 0.99 |
| 173_V | 217_T | 1.824 | 0.99 |
| 375_K | 378_R | 1.798 | 0.99 |
| 48_V | 109_L | 1.785 | 0.99 |
| 225_D | 228_K | 1.772 | 0.99 |
| 458_R | 487_D | 1.765 | 0.99 |
| 106_G | 154_W | 1.762 | 0.99 |
| 143_M | 220_V | 1.757 | 0.99 |
| 483_K | 487_D | 1.746 | 0.99 |
| 279_A | 299_F | 1.733 | 0.99 |
| 141_A | 148_I | 1.720 | 0.98 |
| 178_D | 181_L | 1.714 | 0.98 |
| 169_V | 172_G | 1.704 | 0.98 |
| 216_R | 347_E | 1.699 | 0.98 |
| 143_M | 170_L | 1.697 | 0.98 |
| 199_Y | 242_V | 1.696 | 0.98 |
| 128_A | 183_I | 1.695 | 0.98 |
| 136_E | 209_L | 1.678 | 0.98 |
| 151_T | 172_G | 1.670 | 0.98 |
| 232_I | 235_L | 1.659 | 0.98 |
| 233_G | 237_Q | 1.658 | 0.98 |
| 381_C | 386_V | 1.646 | 0.98 |
| 283_M | 287_M | 1.599 | 0.97 |
| 411_Y | 415_M | 1.582 | 0.97 |
| 204_N | 208_T | 1.560 | 0.97 |
| 414_H | 417_Q | 1.560 | 0.97 |
| 181_L | 210_A | 1.541 | 0.96 |
| 17_C | 20_F | 1.529 | 0.96 |
| 244_S | 247_D | 1.527 | 0.96 |
| 280_S | 312_N | 1.515 | 0.96 |
| 70_Q | 74_D | 1.503 | 0.95 |
| 387_A | 390_D | 1.494 | 0.95 |
| 421_L | 431_Q | 1.485 | 0.95 |
| 110_M | 134_L | 1.479 | 0.95 |
| 132_I | 177_L | 1.477 | 0.95 |
| 164_D | 168_S | 1.475 | 0.95 |
| 377_I | 395_V | 1.464 | 0.95 |
| 349_L | 379_E | 1.456 | 0.94 |
| 131_K | 183_I | 1.454 | 0.94 |
| 414_H | 435_S | 1.451 | 0.94 |
| 45_F | 129_Q | 1.440 | 0.94 |
| 98_W | 163_F | 1.429 | 0.94 |
| 209_L | 249_L | 1.423 | 0.93 |
| 279_A | 284_L | 1.422 | 0.93 |
| 178_D | 182_Q | 1.421 | 0.93 |
| 214_K | 232_I | 1.415 | 0.93 |
| 350_L | 417_Q | 1.412 | 0.93 |
| 110_M | 114_K | 1.405 | 0.93 |
| 409_A | 412_E | 1.402 | 0.93 |
| 116_A | 127_I | 1.398 | 0.93 |
| 286_P | 418_W | 1.398 | 0.93 |
| 172_G | 175_S | 1.397 | 0.93 |
| 151_T | 168_S | 1.383 | 0.92 |
| 214_K | 235_L | 1.380 | 0.92 |
| 407_E | 437_T | 1.377 | 0.92 |
| 166_Q | 484_L | 1.372 | 0.92 |
| 49_A | 197_I | 1.371 | 0.92 |
| 391_I | 395_V | 1.369 | 0.92 |
| 432_W | 456_L | 1.366 | 0.91 |
| 49_A | 198_Y | 1.364 | 0.91 |
| 132_I | 180_A | 1.357 | 0.91 |
| 346_Q | 376_G | 1.357 | 0.91 |
| 98_W | 102_Y | 1.356 | 0.91 |
| 176_L | 179_E | 1.347 | 0.91 |
| 343_Y | 348_Q | 1.341 | 0.90 |
| 174_L | 214_K | 1.338 | 0.90 |
| 134_L | 176_L | 1.337 | 0.90 |
| 5_K | 8_L | 1.335 | 0.90 |
| 284_L | 309_G | 1.333 | 0.90 |
| 373_Y | 412_E | 1.333 | 0.90 |
| 473_A | 477_S | 1.330 | 0.90 |
| 215_F | 241_M | 1.320 | 0.90 |
| 223_D | 358_R | 1.319 | 0.89 |
| 221_M | 228_K | 1.317 | 0.89 |
| 48_V | 112_A | 1.308 | 0.89 |
| 438_A | 445_L | 1.304 | 0.89 |
| 375_K | 379_E | 1.300 | 0.89 |
| 168_S | 171_N | 1.299 | 0.89 |
| 150_F | 172_G | 1.294 | 0.88 |
| 438_A | 443_P | 1.290 | 0.88 |
| 473_A | 476_E | 1.271 | 0.87 |
| 356_Y | 372_L | 1.265 | 0.87 |
| 16_T | 20_F | 1.264 | 0.87 |
| 290_R | 394_Y | 1.255 | 0.86 |
| 466_E | 470_N | 1.251 | 0.86 |
| 172_G | 176_L | 1.250 | 0.86 |
| 111_L | 114_K | 1.236 | 0.85 |
| 365_N | 368_K | 1.229 | 0.85 |
| 143_M | 486_F | 1.228 | 0.84 |
| 386_V | 391_I | 1.217 | 0.84 |
| 174_L | 221_M | 1.217 | 0.84 |
| 435_S | 438_A | 1.216 | 0.84 |
| 162_K | 476_E | 1.210 | 0.83 |
| 220_V | 427_E | 1.208 | 0.83 |
| 150_F | 176_L | 1.207 | 0.83 |
| 26_W | 31_H | 1.196 | 0.82 |
| 181_L | 207_M | 1.191 | 0.82 |
| 143_M | 484_L | 1.187 | 0.82 |
| 474_P | 478_P | 1.186 | 0.82 |
| 68_S | 71_C | 1.182 | 0.81 |
| 223_D | 487_D | 1.181 | 0.81 |
| 150_F | 164_D | 1.171 | 0.80 |
| 97_T | 145_W | 1.171 | 0.80 |
| 392_D | 396_T | 1.170 | 0.80 |
| 244_S | 379_E | 1.170 | 0.80 |
| 283_M | 299_F | 1.170 | 0.80 |
| 135_A | 176_L | 1.168 | 0.80 |
| 165_S | 485_W | 1.166 | 0.80 |
| 408_K | 411_Y | 1.151 | 0.79 |
| 404_L | 408_K | 1.150 | 0.79 |
| 356_Y | 369_A | 1.149 | 0.79 |
| 215_F | 232_I | 1.137 | 0.78 |
| 389_A | 393_T | 1.134 | 0.77 |
| 214_K | 218_L | 1.132 | 0.77 |
| 350_L | 420_D | 1.130 | 0.77 |
| 4_K | 8_L | 1.128 | 0.77 |
| 352_E | 362_V | 1.125 | 0.77 |
| 378_R | 382_A | 1.123 | 0.76 |
| 295_I | 299_F | 1.113 | 0.75 |
| 127_I | 131_K | 1.109 | 0.75 |
| 242_V | 343_Y | 1.103 | 0.75 |
| 356_Y | 364_Q | 1.103 | 0.75 |
| 66_S | 70_Q | 1.102 | 0.74 |
| 411_Y | 439_G | 1.098 | 0.74 |
| 125_N | 185_D | 1.094 | 0.74 |
| 128_A | 180_A | 1.085 | 0.73 |
| 382_A | 391_I | 1.081 | 0.72 |
| 45_F | 49_A | 1.077 | 0.72 |
| 237_Q | 355_A | 1.076 | 0.72 |
| 117_E | 127_I | 1.076 | 0.72 |
| 382_A | 388_E | 1.072 | 0.72 |
| 143_M | 427_E | 1.070 | 0.71 |
| 125_N | 207_M | 1.068 | 0.71 |
| 283_M | 419_I | 1.062 | 0.71 |
| 372_L | 375_K | 1.061 | 0.70 |
| 174_L | 232_I | 1.059 | 0.70 |
| 109_L | 133_L | 1.056 | 0.70 |
| 152_E | 158_I | 1.053 | 0.70 |
| 226_P | 230_T | 1.052 | 0.69 |
| 181_L | 239_G | 1.051 | 0.69 |
| 378_R | 395_V | 1.048 | 0.69 |
| 113_I | 127_I | 1.046 | 0.69 |
| 352_E | 356_Y | 1.045 | 0.69 |
| 174_L | 218_L | 1.041 | 0.68 |
| 414_H | 431_Q | 1.041 | 0.68 |
| 346_Q | 420_D | 1.037 | 0.68 |
| 142_T | 484_L | 1.035 | 0.68 |
| 216_R | 427_E | 1.032 | 0.67 |
| 227_S | 230_T | 1.031 | 0.67 |
| 372_L | 376_G | 1.031 | 0.67 |
| 135_A | 180_A | 1.031 | 0.67 |
| 232_I | 237_Q | 1.030 | 0.67 |
| 228_K | 231_A | 1.027 | 0.67 |
| 174_L | 217_T | 1.023 | 0.66 |
| 198_Y | 249_L | 1.020 | 0.66 |
| 291_N | 397_G | 1.019 | 0.66 |
| 380_A | 384_Y | 1.017 | 0.66 |
| 234_T | 362_V | 1.015 | 0.65 |
| 327_S | 330_S | 1.015 | 0.65 |
| 347_E | 417_Q | 1.014 | 0.65 |
| 16_T | 19_L | 1.011 | 0.65 |
| 344_S | 383_F | 1.011 | 0.65 |
| 229_A | 360_L | 1.010 | 0.65 |
| 147_D | 166_Q | 1.009 | 0.65 |
| 132_I | 207_M | 1.009 | 0.65 |
| 234_T | 361_G | 1.007 | 0.65 |
| 142_T | 169_V | 1.000 | 0.64 |
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 | |
| 3mx3A | 2 | 0.8668 | 100 | 0.391 | Contact Map |
| 4f53A | 2 | 0.8709 | 100 | 0.4 | Contact Map |
| 3sghA | 2 | 0.8811 | 100 | 0.403 | Contact Map |
| 3p1uA | 2 | 0.8893 | 100 | 0.412 | Contact Map |
| 3ehmA | 2 | 0.8791 | 100 | 0.413 | Contact Map |
| 3ejnA | 1 | 0.832 | 100 | 0.415 | Contact Map |
| 3gzsA | 2 | 0.877 | 100 | 0.417 | Contact Map |
| 3cghA | 1 | 0.9057 | 100 | 0.42 | Contact Map |
| 4mruA | 2 | 0.8566 | 100 | 0.421 | Contact Map |
| 3fdhA | 1 | 0.8586 | 100 | 0.442 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)