| FliI-FliI interactions |
| ID: | 1484232907 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 446 (412) | ||
| Sequences: | 4152 (1728.7) | ||
| Seq/Len: | 10.078 | ||
| Nf(neff/√len): | 85.2 |
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: 10.078).
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 |
| 174_R | 256_H | 5.061 | 1.00 |
| 122_D | 126_K | 4.393 | 1.00 |
| 197_G | 243_A | 4.235 | 1.00 |
| 381_F | 418_L | 3.993 | 1.00 |
| 165_A | 356_I | 3.867 | 1.00 |
| 344_S | 357_D | 3.844 | 1.00 |
| 119_R | 129_D | 3.372 | 1.00 |
| 431_D | 434_D | 3.358 | 1.00 |
| 244_T | 316_Y | 3.351 | 1.00 |
| 67_S | 79_L | 3.113 | 1.00 |
| 157_H | 174_R | 2.656 | 1.00 |
| 370_I | 375_Y | 2.618 | 1.00 |
| 172_V | 315_F | 2.587 | 1.00 |
| 380_L | 410_K | 2.508 | 1.00 |
| 216_P | 220_A | 2.474 | 1.00 |
| 33_R | 40_E | 2.468 | 1.00 |
| 347_L | 352_H | 2.382 | 1.00 |
| 164_R | 430_A | 2.348 | 1.00 |
| 207_K | 211_E | 2.325 | 1.00 |
| 248_E | 301_R | 2.321 | 1.00 |
| 377_R | 440_D | 2.283 | 1.00 |
| 373_Q | 440_D | 2.265 | 1.00 |
| 160_D | 167_N | 2.255 | 1.00 |
| 52_C | 79_L | 2.246 | 1.00 |
| 169_L | 381_F | 2.240 | 1.00 |
| 377_R | 443_F | 2.228 | 1.00 |
| 225_I | 246_I | 2.210 | 1.00 |
| 351_G | 379_R | 2.208 | 1.00 |
| 247_A | 312_I | 2.140 | 1.00 |
| 380_L | 383_Q | 2.124 | 1.00 |
| 41_A | 44_L | 2.109 | 1.00 |
| 389_Q | 392_R | 2.066 | 1.00 |
| 195_V | 246_I | 2.066 | 1.00 |
| 415_W | 419_E | 2.050 | 1.00 |
| 41_A | 79_L | 2.045 | 1.00 |
| 171_T | 366_M | 2.024 | 1.00 |
| 41_A | 94_V | 1.966 | 1.00 |
| 402_K | 413_T | 1.941 | 1.00 |
| 119_R | 132_P | 1.898 | 1.00 |
| 31_L | 39_L | 1.880 | 1.00 |
| 50_A | 96_A | 1.863 | 1.00 |
| 352_H | 423_Q | 1.863 | 1.00 |
| 183_G | 186_V | 1.835 | 1.00 |
| 395_V | 412_I | 1.814 | 1.00 |
| 392_R | 396_S | 1.814 | 1.00 |
| 391_N | 408_L | 1.798 | 1.00 |
| 28_Y | 93_R | 1.775 | 1.00 |
| 47_P | 50_A | 1.760 | 1.00 |
| 223_V | 246_I | 1.750 | 1.00 |
| 299_V | 336_I | 1.739 | 1.00 |
| 117_L | 223_V | 1.734 | 1.00 |
| 215_G | 218_G | 1.718 | 1.00 |
| 140_G | 249_D | 1.707 | 1.00 |
| 55_E | 95_Y | 1.706 | 1.00 |
| 161_T | 172_V | 1.675 | 1.00 |
| 140_G | 245_R | 1.656 | 1.00 |
| 199_I | 239_G | 1.650 | 1.00 |
| 109_Q | 139_T | 1.608 | 1.00 |
| 190_V | 426_I | 1.607 | 1.00 |
| 383_Q | 407_M | 1.606 | 1.00 |
| 410_K | 414_L | 1.599 | 1.00 |
| 140_G | 252_D | 1.585 | 1.00 |
| 119_R | 127_P | 1.561 | 1.00 |
| 114_P | 253_R | 1.549 | 1.00 |
| 179_G | 337_L | 1.536 | 1.00 |
| 299_V | 333_A | 1.524 | 1.00 |
| 327_D | 330_A | 1.521 | 1.00 |
| 151_Q | 306_I | 1.512 | 1.00 |
| 210_I | 224_V | 1.510 | 1.00 |
| 53_I | 95_Y | 1.508 | 1.00 |
| 197_G | 261_M | 1.506 | 1.00 |
| 31_L | 88_I | 1.505 | 1.00 |
| 53_I | 64_E | 1.482 | 1.00 |
| 155_I | 173_G | 1.475 | 1.00 |
| 193_V | 250_F | 1.470 | 1.00 |
| 396_S | 405_D | 1.461 | 1.00 |
| 168_A | 435_S | 1.459 | 1.00 |
| 350_A | 419_E | 1.453 | 1.00 |
| 320_T | 327_D | 1.453 | 1.00 |
| 195_V | 247_A | 1.450 | 1.00 |
| 251_R | 305_G | 1.450 | 1.00 |
| 198_L | 206_V | 1.445 | 1.00 |
| 352_H | 422_L | 1.445 | 1.00 |
| 193_V | 255_Q | 1.430 | 1.00 |
| 116_L | 223_V | 1.424 | 1.00 |
| 275_A | 283_A | 1.423 | 1.00 |
| 111_P | 139_T | 1.421 | 1.00 |
| 271_Q | 294_K | 1.407 | 0.99 |
| 172_V | 313_T | 1.407 | 0.99 |
| 110_L | 242_Y | 1.398 | 0.99 |
| 367_T | 375_Y | 1.389 | 0.99 |
| 264_L | 333_A | 1.388 | 0.99 |
| 323_D | 326_Q | 1.380 | 0.99 |
| 178_M | 315_F | 1.376 | 0.99 |
| 161_T | 315_F | 1.367 | 0.99 |
| 53_I | 66_E | 1.347 | 0.99 |
| 54_I | 67_S | 1.331 | 0.99 |
| 106_S | 109_Q | 1.330 | 0.99 |
| 256_H | 311_S | 1.302 | 0.99 |
| 323_D | 345_R | 1.301 | 0.99 |
| 183_G | 345_R | 1.300 | 0.99 |
| 374_H | 436_L | 1.300 | 0.99 |
| 366_M | 378_V | 1.298 | 0.99 |
| 32_T | 42_T | 1.295 | 0.99 |
| 366_M | 370_I | 1.290 | 0.99 |
| 381_F | 439_L | 1.282 | 0.99 |
| 231_V | 235_L | 1.280 | 0.99 |
| 38_V | 78_F | 1.275 | 0.99 |
| 243_A | 259_L | 1.273 | 0.99 |
| 352_H | 419_E | 1.264 | 0.99 |
| 85_V | 88_I | 1.262 | 0.99 |
| 50_A | 98_N | 1.258 | 0.99 |
| 171_T | 432_W | 1.250 | 0.99 |
| 241_A | 294_K | 1.244 | 0.98 |
| 157_H | 304_N | 1.243 | 0.98 |
| 414_L | 417_Q | 1.236 | 0.98 |
| 403_G | 409_D | 1.229 | 0.98 |
| 420_A | 423_Q | 1.227 | 0.98 |
| 434_D | 438_A | 1.218 | 0.98 |
| 295_L | 336_I | 1.214 | 0.98 |
| 201_E | 205_E | 1.211 | 0.98 |
| 437_Q | 441_L | 1.209 | 0.98 |
| 245_R | 249_D | 1.204 | 0.98 |
| 66_E | 126_K | 1.203 | 0.98 |
| 377_R | 436_L | 1.200 | 0.98 |
| 249_D | 253_R | 1.196 | 0.98 |
| 117_L | 193_V | 1.194 | 0.98 |
| 192_D | 256_H | 1.194 | 0.98 |
| 197_G | 259_L | 1.193 | 0.98 |
| 438_A | 441_L | 1.193 | 0.98 |
| 393_D | 399_A | 1.187 | 0.98 |
| 161_T | 167_N | 1.183 | 0.98 |
| 199_I | 261_M | 1.179 | 0.98 |
| 180_L | 341_I | 1.179 | 0.98 |
| 53_I | 97_R | 1.177 | 0.98 |
| 65_V | 88_I | 1.171 | 0.98 |
| 166_I | 341_I | 1.168 | 0.97 |
| 240_A | 298_L | 1.167 | 0.97 |
| 183_G | 323_D | 1.165 | 0.97 |
| 320_T | 330_A | 1.164 | 0.97 |
| 127_P | 132_P | 1.163 | 0.97 |
| 55_E | 93_R | 1.162 | 0.97 |
| 183_G | 331_D | 1.158 | 0.97 |
| 325_Q | 330_A | 1.151 | 0.97 |
| 123_G | 242_Y | 1.148 | 0.97 |
| 38_V | 278_I | 1.144 | 0.97 |
| 440_D | 443_F | 1.143 | 0.97 |
| 380_L | 384_L | 1.138 | 0.97 |
| 244_T | 302_A | 1.137 | 0.97 |
| 108_K | 238_Q | 1.132 | 0.97 |
| 167_N | 435_S | 1.131 | 0.97 |
| 121_L | 246_I | 1.126 | 0.97 |
| 110_L | 246_I | 1.126 | 0.97 |
| 83_E | 232_S | 1.124 | 0.97 |
| 183_G | 324_D | 1.123 | 0.97 |
| 172_V | 178_M | 1.119 | 0.96 |
| 349_E | 360_A | 1.116 | 0.96 |
| 116_L | 121_L | 1.108 | 0.96 |
| 170_L | 341_I | 1.102 | 0.96 |
| 123_G | 231_V | 1.096 | 0.96 |
| 425_G | 428_E | 1.096 | 0.96 |
| 244_T | 312_I | 1.095 | 0.96 |
| 30_R | 42_T | 1.090 | 0.96 |
| 339_G | 364_R | 1.084 | 0.96 |
| 34_A | 88_I | 1.082 | 0.96 |
| 160_D | 432_W | 1.080 | 0.95 |
| 402_K | 412_I | 1.077 | 0.95 |
| 51_T | 97_R | 1.076 | 0.95 |
| 194_I | 260_I | 1.063 | 0.95 |
| 158_V | 171_T | 1.062 | 0.95 |
| 241_A | 267_Y | 1.062 | 0.95 |
| 52_C | 67_S | 1.061 | 0.95 |
| 371_T | 436_L | 1.060 | 0.95 |
| 414_L | 442_I | 1.060 | 0.95 |
| 239_G | 243_A | 1.056 | 0.95 |
| 267_Y | 298_L | 1.052 | 0.95 |
| 142_L | 242_Y | 1.051 | 0.94 |
| 28_Y | 95_Y | 1.050 | 0.94 |
| 123_G | 235_L | 1.047 | 0.94 |
| 374_H | 432_W | 1.045 | 0.94 |
| 99_G | 107_G | 1.043 | 0.94 |
| 236_R | 273_E | 1.041 | 0.94 |
| 295_L | 332_S | 1.038 | 0.94 |
| 54_I | 92_A | 1.035 | 0.94 |
| 264_L | 299_V | 1.035 | 0.94 |
| 181_F | 330_A | 1.035 | 0.94 |
| 434_D | 437_Q | 1.029 | 0.94 |
| 215_G | 219_R | 1.029 | 0.94 |
| 194_I | 222_S | 1.028 | 0.94 |
| 211_E | 214_L | 1.027 | 0.94 |
| 295_L | 333_A | 1.023 | 0.93 |
| 55_E | 64_E | 1.019 | 0.93 |
| 218_G | 222_S | 1.016 | 0.93 |
| 194_I | 197_G | 1.014 | 0.93 |
| 111_P | 137_L | 1.012 | 0.93 |
| 304_N | 311_S | 1.012 | 0.93 |
| 202_R | 205_E | 1.008 | 0.93 |
| 192_D | 255_Q | 1.001 | 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 | |
| 3oaaA | 12 | 0.9103 | 100 | 0.128 | Contact Map |
| 2qe7A | 3 | 0.9036 | 100 | 0.134 | Contact Map |
| 1fx0A | 1 | 0.9103 | 100 | 0.144 | Contact Map |
| 2ck3A | 3 | 0.917 | 100 | 0.147 | Contact Map |
| 2r9vA | 1 | 0.9283 | 100 | 0.149 | Contact Map |
| 3vr4D | 3 | 0.917 | 100 | 0.165 | Contact Map |
| 3gqbB | 2 | 0.9126 | 100 | 0.167 | Contact Map |
| 2c61A | 2 | 0.8632 | 100 | 0.17 | Contact Map |
| 1fx0B | 1 | 0.9193 | 100 | 0.182 | Contact Map |
| 3mfyA | 1 | 0.7377 | 100 | 0.184 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)