| rhod1480 |
| ID: | 1695872372 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 464 (460) | ||
| Sequences: | 9274 (3996.6) | ||
| Seq/Len: | 20.161 | ||
| Nf(neff/√len): | 186.3 |
HHblits Results: (2016_02)
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 |
| 60_K | 70_A | 3.854 | 1.00 |
| 53_K | 78_N | 3.774 | 1.00 |
| 69_L | 133_H | 3.771 | 1.00 |
| 61_A | 249_Q | 3.223 | 1.00 |
| 397_R | 400_K | 3.199 | 1.00 |
| 285_A | 340_V | 3.197 | 1.00 |
| 57_L | 253_I | 3.083 | 1.00 |
| 158_D | 219_L | 2.877 | 1.00 |
| 113_R | 117_M | 2.821 | 1.00 |
| 21_Y | 116_E | 2.801 | 1.00 |
| 221_H | 276_F | 2.770 | 1.00 |
| 343_N | 372_S | 2.768 | 1.00 |
| 197_L | 393_A | 2.761 | 1.00 |
| 57_L | 74_A | 2.746 | 1.00 |
| 310_I | 392_Q | 2.730 | 1.00 |
| 336_V | 379_S | 2.673 | 1.00 |
| 153_A | 223_Y | 2.636 | 1.00 |
| 47_A | 155_H | 2.608 | 1.00 |
| 282_K | 344_D | 2.603 | 1.00 |
| 312_S | 390_G | 2.597 | 1.00 |
| 170_A | 389_V | 2.579 | 1.00 |
| 43_P | 374_Q | 2.563 | 1.00 |
| 168_S | 209_D | 2.527 | 1.00 |
| 310_I | 394_N | 2.489 | 1.00 |
| 249_Q | 252_E | 2.432 | 1.00 |
| 339_H | 368_N | 2.369 | 1.00 |
| 180_D | 395_T | 2.356 | 1.00 |
| 174_K | 177_E | 2.282 | 1.00 |
| 161_I | 212_I | 2.264 | 1.00 |
| 427_T | 431_N | 2.256 | 1.00 |
| 223_Y | 257_P | 2.251 | 1.00 |
| 4_T | 15_E | 2.237 | 1.00 |
| 166_K | 385_D | 2.164 | 1.00 |
| 170_A | 388_V | 2.147 | 1.00 |
| 165_E | 212_I | 2.118 | 1.00 |
| 161_I | 216_K | 2.072 | 1.00 |
| 225_L | 251_A | 2.012 | 1.00 |
| 173_A | 389_V | 2.011 | 1.00 |
| 210_R | 266_E | 2.010 | 1.00 |
| 66_D | 69_L | 1.984 | 1.00 |
| 60_K | 67_P | 1.943 | 1.00 |
| 399_D | 403_K | 1.905 | 1.00 |
| 79_E | 117_M | 1.902 | 1.00 |
| 165_E | 216_K | 1.901 | 1.00 |
| 168_S | 212_I | 1.884 | 1.00 |
| 249_Q | 253_I | 1.846 | 1.00 |
| 211_G | 287_S | 1.837 | 1.00 |
| 163_G | 381_S | 1.810 | 1.00 |
| 57_L | 249_Q | 1.810 | 1.00 |
| 227_Q | 246_I | 1.803 | 1.00 |
| 214_R | 276_F | 1.795 | 1.00 |
| 72_A | 118_L | 1.787 | 1.00 |
| 67_P | 71_D | 1.775 | 1.00 |
| 178_F | 181_I | 1.768 | 1.00 |
| 286_A | 341_M | 1.754 | 1.00 |
| 217_L | 221_H | 1.704 | 1.00 |
| 446_D | 449_T | 1.690 | 1.00 |
| 217_L | 220_P | 1.690 | 1.00 |
| 288_L | 333_L | 1.676 | 1.00 |
| 6_T | 15_E | 1.675 | 1.00 |
| 434_T | 437_E | 1.675 | 1.00 |
| 282_K | 348_G | 1.670 | 1.00 |
| 210_R | 272_D | 1.664 | 1.00 |
| 173_A | 177_E | 1.651 | 1.00 |
| 157_R | 277_F | 1.635 | 1.00 |
| 70_A | 74_A | 1.635 | 1.00 |
| 275_V | 351_G | 1.620 | 1.00 |
| 168_S | 205_A | 1.616 | 1.00 |
| 174_K | 178_F | 1.607 | 1.00 |
| 346_A | 364_M | 1.599 | 1.00 |
| 201_F | 204_Y | 1.583 | 1.00 |
| 53_K | 74_A | 1.579 | 1.00 |
| 339_H | 371_Q | 1.572 | 1.00 |
| 212_I | 216_K | 1.558 | 1.00 |
| 197_L | 201_F | 1.557 | 1.00 |
| 27_Q | 30_I | 1.550 | 1.00 |
| 115_I | 123_G | 1.544 | 1.00 |
| 204_Y | 357_E | 1.542 | 1.00 |
| 69_L | 127_P | 1.527 | 1.00 |
| 113_R | 116_E | 1.519 | 1.00 |
| 271_H | 362_N | 1.515 | 1.00 |
| 330_A | 387_M | 1.502 | 1.00 |
| 278_S | 347_I | 1.499 | 1.00 |
| 395_T | 399_D | 1.497 | 1.00 |
| 137_G | 238_T | 1.491 | 1.00 |
| 170_A | 385_D | 1.487 | 1.00 |
| 156_A | 377_G | 1.485 | 1.00 |
| 297_L | 355_H | 1.479 | 1.00 |
| 114_A | 128_V | 1.478 | 1.00 |
| 433_T | 441_A | 1.476 | 1.00 |
| 174_K | 388_V | 1.468 | 1.00 |
| 8_T | 13_P | 1.466 | 1.00 |
| 175_S | 205_A | 1.465 | 1.00 |
| 394_N | 397_R | 1.455 | 1.00 |
| 261_A | 267_A | 1.451 | 1.00 |
| 172_W | 209_D | 1.434 | 1.00 |
| 279_G | 283_T | 1.433 | 1.00 |
| 347_I | 369_V | 1.431 | 1.00 |
| 64_D | 136_M | 1.426 | 1.00 |
| 79_E | 113_R | 1.419 | 1.00 |
| 399_D | 457_E | 1.418 | 1.00 |
| 167_L | 388_V | 1.411 | 1.00 |
| 106_A | 110_I | 1.407 | 0.99 |
| 22_W | 27_Q | 1.404 | 0.99 |
| 14_L | 31_Q | 1.404 | 0.99 |
| 6_T | 13_P | 1.402 | 0.99 |
| 49_G | 106_A | 1.395 | 0.99 |
| 384_T | 389_V | 1.392 | 0.99 |
| 385_D | 389_V | 1.391 | 0.99 |
| 58_V | 249_Q | 1.390 | 0.99 |
| 181_I | 398_I | 1.380 | 0.99 |
| 213_E | 221_H | 1.372 | 0.99 |
| 224_E | 259_V | 1.370 | 0.99 |
| 71_D | 75_A | 1.367 | 0.99 |
| 53_K | 81_I | 1.364 | 0.99 |
| 25_Q | 316_P | 1.362 | 0.99 |
| 436_R | 451_D | 1.361 | 0.99 |
| 245_R | 248_A | 1.360 | 0.99 |
| 115_I | 120_G | 1.358 | 0.99 |
| 345_A | 349_F | 1.352 | 0.99 |
| 248_A | 252_E | 1.351 | 0.99 |
| 53_K | 57_L | 1.343 | 0.99 |
| 161_I | 219_L | 1.343 | 0.99 |
| 49_G | 81_I | 1.341 | 0.99 |
| 48_L | 143_T | 1.340 | 0.99 |
| 202_S | 263_N | 1.338 | 0.99 |
| 152_I | 277_F | 1.337 | 0.99 |
| 164_L | 284_I | 1.337 | 0.99 |
| 220_P | 257_P | 1.336 | 0.99 |
| 344_D | 348_G | 1.335 | 0.99 |
| 137_G | 239_R | 1.324 | 0.99 |
| 49_G | 80_V | 1.316 | 0.99 |
| 176_E | 179_K | 1.309 | 0.99 |
| 333_L | 379_S | 1.308 | 0.99 |
| 163_G | 377_G | 1.306 | 0.99 |
| 54_A | 253_I | 1.300 | 0.99 |
| 427_T | 442_L | 1.295 | 0.99 |
| 341_M | 349_F | 1.294 | 0.99 |
| 251_A | 257_P | 1.291 | 0.99 |
| 204_Y | 291_I | 1.279 | 0.99 |
| 342_G | 346_A | 1.278 | 0.99 |
| 46_R | 50_V | 1.268 | 0.99 |
| 166_K | 384_T | 1.267 | 0.99 |
| 191_D | 302_P | 1.261 | 0.99 |
| 280_A | 284_I | 1.254 | 0.99 |
| 292_A | 333_L | 1.251 | 0.99 |
| 152_I | 369_V | 1.247 | 0.99 |
| 195_L | 232_V | 1.242 | 0.98 |
| 148_M | 366_S | 1.241 | 0.98 |
| 186_R | 191_D | 1.238 | 0.98 |
| 199_Q | 264_K | 1.237 | 0.98 |
| 164_L | 208_V | 1.230 | 0.98 |
| 229_G | 267_A | 1.229 | 0.98 |
| 168_S | 208_V | 1.227 | 0.98 |
| 295_M | 330_A | 1.226 | 0.98 |
| 275_V | 283_T | 1.225 | 0.98 |
| 14_L | 27_Q | 1.211 | 0.98 |
| 74_A | 78_N | 1.202 | 0.98 |
| 241_G | 245_R | 1.200 | 0.98 |
| 455_R | 458_D | 1.198 | 0.98 |
| 21_Y | 122_M | 1.197 | 0.98 |
| 99_G | 105_N | 1.194 | 0.98 |
| 43_P | 155_H | 1.192 | 0.98 |
| 79_E | 84_K | 1.190 | 0.98 |
| 447_G | 451_D | 1.187 | 0.98 |
| 179_K | 198_G | 1.179 | 0.98 |
| 197_L | 398_I | 1.174 | 0.98 |
| 51_I | 143_T | 1.166 | 0.97 |
| 277_F | 369_V | 1.162 | 0.97 |
| 188_H | 331_E | 1.162 | 0.97 |
| 46_R | 81_I | 1.162 | 0.97 |
| 167_L | 385_D | 1.157 | 0.97 |
| 51_I | 146_T | 1.156 | 0.97 |
| 194_P | 402_M | 1.155 | 0.97 |
| 27_Q | 31_Q | 1.148 | 0.97 |
| 292_A | 383_F | 1.146 | 0.97 |
| 213_E | 217_L | 1.145 | 0.97 |
| 166_K | 389_V | 1.145 | 0.97 |
| 184_I | 304_S | 1.141 | 0.97 |
| 186_R | 302_P | 1.138 | 0.97 |
| 69_L | 128_V | 1.135 | 0.97 |
| 314_N | 386_N | 1.133 | 0.97 |
| 397_R | 401_L | 1.127 | 0.97 |
| 116_E | 122_M | 1.126 | 0.97 |
| 148_M | 274_M | 1.126 | 0.97 |
| 218_A | 280_A | 1.123 | 0.97 |
| 56_A | 65_L | 1.122 | 0.97 |
| 171_L | 291_I | 1.119 | 0.96 |
| 11_F | 14_L | 1.116 | 0.96 |
| 172_W | 205_A | 1.105 | 0.96 |
| 35_I | 332_A | 1.105 | 0.96 |
| 60_K | 71_D | 1.105 | 0.96 |
| 288_L | 380_A | 1.100 | 0.96 |
| 223_Y | 251_A | 1.099 | 0.96 |
| 170_A | 384_T | 1.096 | 0.96 |
| 50_V | 253_I | 1.093 | 0.96 |
| 278_S | 344_D | 1.091 | 0.96 |
| 48_L | 51_I | 1.085 | 0.96 |
| 153_A | 256_L | 1.083 | 0.96 |
| 3_A | 18_A | 1.081 | 0.95 |
| 62_Q | 239_R | 1.081 | 0.95 |
| 400_K | 404_E | 1.080 | 0.95 |
| 50_V | 155_H | 1.079 | 0.95 |
| 78_N | 81_I | 1.074 | 0.95 |
| 298_L | 356_F | 1.073 | 0.95 |
| 367_Y | 371_Q | 1.072 | 0.95 |
| 124_S | 127_P | 1.067 | 0.95 |
| 61_A | 253_I | 1.064 | 0.95 |
| 177_E | 392_Q | 1.064 | 0.95 |
| 309_L | 391_T | 1.064 | 0.95 |
| 245_R | 249_Q | 1.058 | 0.95 |
| 183_K | 398_I | 1.055 | 0.95 |
| 167_L | 208_V | 1.050 | 0.94 |
| 337_C | 341_M | 1.047 | 0.94 |
| 161_I | 165_E | 1.042 | 0.94 |
| 269_A | 357_E | 1.038 | 0.94 |
| 38_E | 371_Q | 1.037 | 0.94 |
| 170_A | 173_A | 1.036 | 0.94 |
| 286_A | 351_G | 1.035 | 0.94 |
| 270_A | 287_S | 1.028 | 0.94 |
| 279_G | 344_D | 1.028 | 0.94 |
| 195_L | 265_F | 1.026 | 0.94 |
| 4_T | 18_A | 1.021 | 0.93 |
| 47_A | 151_A | 1.016 | 0.93 |
| 179_K | 196_T | 1.013 | 0.93 |
| 163_G | 166_K | 1.012 | 0.93 |
| 200_E | 298_L | 1.011 | 0.93 |
| 171_L | 208_V | 1.008 | 0.93 |
| 156_A | 277_F | 1.007 | 0.93 |
| 191_D | 301_G | 1.005 | 0.93 |
| 433_T | 438_E | 1.005 | 0.93 |
| 17_P | 20_K | 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 | |
| 1furA | 2 | 0.9828 | 100 | -0.015 | Contact Map |
| 1yfmA | 1 | 0.9634 | 100 | -0.011 | Contact Map |
| 1vdkA | 2 | 0.9828 | 100 | -0.011 | Contact Map |
| 1jswA | 4 | 0.9784 | 100 | -0.005 | Contact Map |
| 3gtdA | 2 | 0.9784 | 100 | -0.003 | Contact Map |
| 3r6qA | 8 | 0.9871 | 100 | -0.001 | Contact Map |
| 4hgvA | 4 | 0.9914 | 100 | -0 | Contact Map |
| 3e04A | 4 | 0.9892 | 100 | 0.002 | Contact Map |
| 3ocfA | 4 | 0.9591 | 100 | 0.012 | Contact Map |
| 4admA | 4 | 0.9763 | 100 | 0.028 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)