| 4F35 |
| ID: | 1507574531 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 449 (435) | ||
| Sequences: | 8340 (4771.4) | ||
| Seq/Len: | 19.172 | ||
| Nf(neff/√len): | 228.8 |
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: 19.172).
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 |
| 71_E | 74_A | 4.005 | 1.00 |
| 117_K | 120_V | 3.702 | 1.00 |
| 99_H | 300_E | 3.538 | 1.00 |
| 330_V | 334_N | 3.424 | 1.00 |
| 258_T | 286_A | 3.167 | 1.00 |
| 421_K | 424_E | 2.878 | 1.00 |
| 129_T | 145_M | 2.875 | 1.00 |
| 423_S | 427_R | 2.805 | 1.00 |
| 184_L | 194_A | 2.664 | 1.00 |
| 74_A | 325_Q | 2.657 | 1.00 |
| 88_L | 310_L | 2.639 | 1.00 |
| 169_L | 414_V | 2.573 | 1.00 |
| 96_A | 290_L | 2.512 | 1.00 |
| 344_G | 347_V | 2.460 | 1.00 |
| 109_K | 113_M | 2.453 | 1.00 |
| 424_E | 427_R | 2.369 | 1.00 |
| 297_H | 300_E | 2.325 | 1.00 |
| 109_K | 112_A | 2.292 | 1.00 |
| 42_I | 60_V | 2.288 | 1.00 |
| 331_F | 335_A | 2.170 | 1.00 |
| 64_A | 322_V | 2.121 | 1.00 |
| 254_I | 286_A | 2.071 | 1.00 |
| 357_V | 433_N | 2.065 | 1.00 |
| 246_K | 250_V | 2.060 | 1.00 |
| 200_S | 203_D | 2.058 | 1.00 |
| 205_M | 209_L | 1.992 | 1.00 |
| 434_I | 438_G | 1.985 | 1.00 |
| 38_M | 63_M | 1.974 | 1.00 |
| 149_V | 172_V | 1.968 | 1.00 |
| 321_N | 325_Q | 1.966 | 1.00 |
| 170_L | 174_Y | 1.960 | 1.00 |
| 131_L | 135_W | 1.937 | 1.00 |
| 249_V | 253_G | 1.930 | 1.00 |
| 18_L | 44_V | 1.909 | 1.00 |
| 105_V | 109_K | 1.908 | 1.00 |
| 166_V | 424_E | 1.896 | 1.00 |
| 206_K | 210_P | 1.895 | 1.00 |
| 92_A | 287_I | 1.873 | 1.00 |
| 356_V | 372_L | 1.852 | 1.00 |
| 202_T | 206_K | 1.846 | 1.00 |
| 353_A | 397_A | 1.834 | 1.00 |
| 130_A | 212_A | 1.806 | 1.00 |
| 41_F | 45_L | 1.795 | 1.00 |
| 264_F | 268_I | 1.789 | 1.00 |
| 178_I | 215_M | 1.784 | 1.00 |
| 36_I | 328_T | 1.782 | 1.00 |
| 299_K | 303_K | 1.778 | 1.00 |
| 89_G | 283_A | 1.777 | 1.00 |
| 123_F | 220_I | 1.765 | 1.00 |
| 61_P | 76_L | 1.730 | 1.00 |
| 28_F | 32_V | 1.728 | 1.00 |
| 126_F | 175_S | 1.723 | 1.00 |
| 218_M | 439_L | 1.719 | 1.00 |
| 182_A | 212_A | 1.711 | 1.00 |
| 129_T | 176_A | 1.699 | 1.00 |
| 335_A | 338_D | 1.697 | 1.00 |
| 218_M | 435_A | 1.689 | 1.00 |
| 119_S | 224_Y | 1.665 | 1.00 |
| 89_G | 287_I | 1.634 | 1.00 |
| 215_M | 436_C | 1.630 | 1.00 |
| 30_H | 34_L | 1.625 | 1.00 |
| 185_V | 201_F | 1.617 | 1.00 |
| 213_M | 217_P | 1.612 | 1.00 |
| 95_A | 98_H | 1.602 | 1.00 |
| 264_F | 267_P | 1.578 | 1.00 |
| 358_F | 362_F | 1.573 | 1.00 |
| 426_M | 430_L | 1.562 | 1.00 |
| 133_S | 179_G | 1.561 | 1.00 |
| 361_E | 433_N | 1.550 | 1.00 |
| 203_D | 206_K | 1.547 | 1.00 |
| 16_V | 41_F | 1.546 | 1.00 |
| 405_P | 415_F | 1.546 | 1.00 |
| 350_L | 441_T | 1.545 | 1.00 |
| 323_L | 328_T | 1.539 | 1.00 |
| 95_A | 304_T | 1.528 | 1.00 |
| 346_F | 445_M | 1.517 | 1.00 |
| 354_T | 437_I | 1.505 | 1.00 |
| 299_K | 302_Q | 1.473 | 1.00 |
| 38_M | 60_V | 1.461 | 1.00 |
| 443_I | 447_F | 1.458 | 1.00 |
| 105_V | 248_K | 1.456 | 1.00 |
| 125_L | 149_V | 1.456 | 1.00 |
| 369_A | 398_A | 1.446 | 1.00 |
| 130_A | 216_L | 1.427 | 1.00 |
| 353_A | 393_L | 1.422 | 1.00 |
| 84_I | 310_L | 1.415 | 1.00 |
| 45_L | 48_T | 1.415 | 1.00 |
| 209_L | 213_M | 1.414 | 1.00 |
| 442_A | 446_L | 1.393 | 0.99 |
| 324_K | 330_V | 1.392 | 0.99 |
| 88_L | 92_A | 1.386 | 0.99 |
| 334_N | 337_S | 1.385 | 0.99 |
| 15_D | 45_L | 1.385 | 0.99 |
| 260_F | 264_F | 1.379 | 0.99 |
| 321_N | 324_K | 1.376 | 0.99 |
| 170_L | 428_V | 1.361 | 0.99 |
| 38_M | 64_A | 1.361 | 0.99 |
| 237_L | 240_A | 1.359 | 0.99 |
| 256_G | 260_F | 1.355 | 0.99 |
| 403_M | 433_N | 1.353 | 0.99 |
| 354_T | 441_T | 1.346 | 0.99 |
| 437_I | 441_T | 1.346 | 0.99 |
| 430_L | 434_I | 1.338 | 0.99 |
| 173_A | 414_V | 1.334 | 0.99 |
| 335_A | 339_M | 1.334 | 0.99 |
| 343_M | 347_V | 1.332 | 0.99 |
| 51_L | 55_V | 1.331 | 0.99 |
| 323_L | 329_S | 1.329 | 0.99 |
| 126_F | 219_A | 1.326 | 0.99 |
| 96_A | 251_T | 1.321 | 0.99 |
| 182_A | 209_L | 1.319 | 0.99 |
| 440_L | 444_A | 1.316 | 0.99 |
| 29_E | 32_V | 1.311 | 0.99 |
| 389_L | 393_L | 1.310 | 0.99 |
| 393_L | 444_A | 1.307 | 0.99 |
| 203_D | 388_V | 1.296 | 0.99 |
| 93_L | 258_T | 1.285 | 0.99 |
| 134_M | 182_A | 1.283 | 0.99 |
| 44_V | 48_T | 1.282 | 0.99 |
| 380_A | 390_L | 1.262 | 0.99 |
| 222_I | 435_A | 1.262 | 0.99 |
| 354_T | 358_F | 1.253 | 0.99 |
| 104_K | 108_D | 1.250 | 0.99 |
| 137_S | 140_A | 1.248 | 0.99 |
| 221_A | 225_F | 1.248 | 0.99 |
| 385_M | 390_L | 1.245 | 0.98 |
| 442_A | 445_M | 1.243 | 0.98 |
| 82_S | 280_T | 1.240 | 0.98 |
| 254_I | 289_M | 1.239 | 0.98 |
| 146_L | 413_I | 1.235 | 0.98 |
| 126_F | 171_G | 1.231 | 0.98 |
| 244_W | 248_K | 1.229 | 0.98 |
| 13_L | 17_A | 1.226 | 0.98 |
| 126_F | 216_L | 1.225 | 0.98 |
| 257_L | 261_L | 1.222 | 0.98 |
| 365_N | 401_A | 1.218 | 0.98 |
| 245_D | 248_K | 1.218 | 0.98 |
| 423_S | 426_M | 1.215 | 0.98 |
| 214_M | 439_L | 1.204 | 0.98 |
| 178_I | 219_A | 1.202 | 0.98 |
| 360_T | 365_N | 1.201 | 0.98 |
| 48_T | 51_L | 1.194 | 0.98 |
| 211_T | 439_L | 1.189 | 0.98 |
| 125_L | 152_V | 1.187 | 0.98 |
| 52_H | 56_T | 1.186 | 0.98 |
| 75_A | 318_C | 1.184 | 0.98 |
| 65_V | 75_A | 1.183 | 0.98 |
| 169_L | 420_I | 1.179 | 0.98 |
| 192_I | 373_I | 1.178 | 0.98 |
| 62_V | 288_L | 1.178 | 0.98 |
| 222_I | 226_L | 1.172 | 0.98 |
| 78_N | 318_C | 1.171 | 0.98 |
| 403_M | 426_M | 1.167 | 0.97 |
| 188_P | 366_T | 1.167 | 0.97 |
| 252_L | 256_G | 1.152 | 0.97 |
| 376_F | 394_I | 1.147 | 0.97 |
| 236_E | 240_A | 1.144 | 0.97 |
| 9_S | 13_L | 1.131 | 0.97 |
| 98_H | 304_T | 1.128 | 0.97 |
| 18_L | 40_A | 1.120 | 0.96 |
| 114_A | 124_M | 1.117 | 0.96 |
| 175_S | 179_G | 1.116 | 0.96 |
| 123_F | 127_G | 1.114 | 0.96 |
| 225_F | 228_K | 1.113 | 0.96 |
| 334_N | 338_D | 1.113 | 0.96 |
| 227_L | 428_V | 1.111 | 0.96 |
| 54_T | 308_G | 1.109 | 0.96 |
| 23_Y | 34_L | 1.105 | 0.96 |
| 171_G | 223_L | 1.102 | 0.96 |
| 105_V | 108_D | 1.098 | 0.96 |
| 373_I | 391_S | 1.096 | 0.96 |
| 361_E | 403_M | 1.096 | 0.96 |
| 93_L | 286_A | 1.096 | 0.96 |
| 20_L | 23_Y | 1.091 | 0.96 |
| 74_A | 77_N | 1.090 | 0.96 |
| 357_V | 437_I | 1.087 | 0.96 |
| 210_P | 443_I | 1.086 | 0.96 |
| 37_S | 40_A | 1.083 | 0.96 |
| 51_L | 56_T | 1.083 | 0.96 |
| 250_V | 295_V | 1.072 | 0.95 |
| 57_A | 315_G | 1.069 | 0.95 |
| 129_T | 172_V | 1.067 | 0.95 |
| 142_A | 176_A | 1.067 | 0.95 |
| 95_A | 99_H | 1.067 | 0.95 |
| 31_N | 34_L | 1.062 | 0.95 |
| 119_S | 220_I | 1.059 | 0.95 |
| 173_A | 411_N | 1.058 | 0.95 |
| 193_A | 391_S | 1.057 | 0.95 |
| 35_G | 322_V | 1.055 | 0.95 |
| 166_V | 170_L | 1.049 | 0.94 |
| 45_L | 56_T | 1.046 | 0.94 |
| 22_L | 40_A | 1.045 | 0.94 |
| 244_W | 249_V | 1.044 | 0.94 |
| 65_V | 281_L | 1.042 | 0.94 |
| 78_N | 321_N | 1.032 | 0.94 |
| 358_F | 433_N | 1.030 | 0.94 |
| 71_E | 75_A | 1.029 | 0.94 |
| 359_L | 368_S | 1.026 | 0.94 |
| 132_L | 141_T | 1.021 | 0.93 |
| 32_V | 331_F | 1.020 | 0.93 |
| 61_P | 315_G | 1.019 | 0.93 |
| 146_L | 417_S | 1.019 | 0.93 |
| 147_P | 151_G | 1.017 | 0.93 |
| 139_T | 364_S | 1.014 | 0.93 |
| 38_M | 42_I | 1.009 | 0.93 |
| 180_G | 187_S | 1.005 | 0.93 |
| 100_Q | 251_T | 1.004 | 0.93 |
| 438_G | 442_A | 1.004 | 0.93 |
| 59_L | 63_M | 1.004 | 0.93 |
| 403_M | 430_L | 1.000 | 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 | |
| 4f35D | 4 | 0.971 | 100 | 0.303 | Contact Map |
| 4r1iA | 2 | 0.9488 | 100 | 0.661 | Contact Map |
| 4r0cA | 4 | 0 | 99.9 | 0.706 | Contact Map |
| 2kncA | 1 | 0.1158 | 12.1 | 0.967 | Contact Map |
| 4pd6A | 1 | 0.7773 | 11.8 | 0.967 | Contact Map |
| 2m20A | 2 | 0.118 | 9.5 | 0.968 | Contact Map |
| 3tdsE | 5 | 0.4967 | 3.5 | 0.974 | Contact Map |
| 2rddB | 1 | 0.0824 | 3.2 | 0.975 | Contact Map |
| 2ksfA | 1 | 0.2361 | 3.1 | 0.975 | Contact Map |
| 2a65A | 1 | 0.5011 | 2.6 | 0.976 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)