| T0851 |
| ID: | 1405019180 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 456 (435) | ||
| Sequences: | 3345 (2241.4) | ||
| Seq/Len: | 7.690 | ||
| Nf(neff/√len): | 107.5 |
HHblits Results: (2013_03)
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: 7.690).
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 |
| 48_P | 52_A | 5.388 | 1.00 |
| 142_R | 215_E | 4.826 | 1.00 |
| 371_F | 411_F | 4.627 | 1.00 |
| 345_D | 409_R | 3.818 | 1.00 |
| 189_G | 192_S | 3.739 | 1.00 |
| 163_A | 196_A | 3.315 | 1.00 |
| 319_I | 403_A | 3.219 | 1.00 |
| 334_T | 367_R | 2.992 | 1.00 |
| 17_K | 40_E | 2.790 | 1.00 |
| 212_P | 251_D | 2.757 | 1.00 |
| 19_V | 91_A | 2.731 | 1.00 |
| 336_A | 399_A | 2.713 | 1.00 |
| 337_V | 358_V | 2.623 | 1.00 |
| 53_D | 58_R | 2.587 | 1.00 |
| 334_T | 369_R | 2.548 | 1.00 |
| 118_E | 151_S | 2.509 | 1.00 |
| 243_A | 318_V | 2.474 | 1.00 |
| 213_S | 216_S | 2.457 | 1.00 |
| 36_G | 72_D | 2.456 | 1.00 |
| 161_G | 189_G | 2.447 | 1.00 |
| 55_R | 81_A | 2.333 | 1.00 |
| 319_I | 401_C | 2.278 | 1.00 |
| 224_T | 256_A | 2.261 | 1.00 |
| 32_V | 70_V | 2.239 | 1.00 |
| 357_V | 405_L | 2.226 | 1.00 |
| 341_A | 375_A | 2.208 | 1.00 |
| 336_A | 395_A | 2.179 | 1.00 |
| 93_V | 199_F | 2.149 | 1.00 |
| 52_A | 56_A | 2.142 | 1.00 |
| 226_W | 234_I | 2.136 | 1.00 |
| 59_C | 70_V | 2.135 | 1.00 |
| 118_E | 148_L | 2.093 | 1.00 |
| 146_A | 162_L | 2.087 | 1.00 |
| 391_S | 394_E | 2.072 | 1.00 |
| 125_R | 128_Q | 2.054 | 1.00 |
| 245_L | 294_R | 2.012 | 1.00 |
| 369_R | 399_A | 2.011 | 1.00 |
| 94_V | 128_Q | 2.010 | 1.00 |
| 219_V | 242_C | 1.974 | 1.00 |
| 130_V | 149_L | 1.948 | 1.00 |
| 273_V | 432_G | 1.937 | 1.00 |
| 248_D | 251_D | 1.928 | 1.00 |
| 114_V | 118_E | 1.914 | 1.00 |
| 176_A | 180_T | 1.893 | 1.00 |
| 299_R | 306_A | 1.889 | 1.00 |
| 45_D | 51_V | 1.874 | 1.00 |
| 39_A | 202_S | 1.817 | 1.00 |
| 335_I | 366_F | 1.806 | 1.00 |
| 212_P | 220_V | 1.797 | 1.00 |
| 242_C | 249_V | 1.782 | 1.00 |
| 115_A | 118_E | 1.781 | 1.00 |
| 320_A | 364_S | 1.779 | 1.00 |
| 313_R | 360_A | 1.768 | 1.00 |
| 23_A | 43_A | 1.760 | 1.00 |
| 230_A | 304_A | 1.748 | 1.00 |
| 34_L | 199_F | 1.741 | 1.00 |
| 404_F | 435_H | 1.723 | 1.00 |
| 49_G | 52_A | 1.720 | 1.00 |
| 344_N | 407_G | 1.719 | 1.00 |
| 40_E | 80_T | 1.713 | 1.00 |
| 129_L | 163_A | 1.710 | 1.00 |
| 396_V | 419_L | 1.676 | 1.00 |
| 227_W | 231_N | 1.674 | 1.00 |
| 193_A | 211_V | 1.664 | 1.00 |
| 400_G | 424_D | 1.638 | 1.00 |
| 52_A | 55_R | 1.619 | 1.00 |
| 292_R | 302_E | 1.617 | 1.00 |
| 36_G | 73_L | 1.605 | 1.00 |
| 18_V | 199_F | 1.602 | 1.00 |
| 244_V | 296_V | 1.577 | 1.00 |
| 338_L | 414_L | 1.563 | 1.00 |
| 51_V | 81_A | 1.559 | 1.00 |
| 297_P | 302_E | 1.554 | 1.00 |
| 21_A | 116_A | 1.523 | 1.00 |
| 300_T | 307_V | 1.517 | 1.00 |
| 420_A | 427_C | 1.506 | 0.99 |
| 300_T | 303_T | 1.470 | 0.99 |
| 314_H | 318_V | 1.451 | 0.99 |
| 262_G | 268_L | 1.447 | 0.99 |
| 129_L | 195_A | 1.444 | 0.99 |
| 194_A | 198_R | 1.442 | 0.99 |
| 393_D | 418_A | 1.421 | 0.99 |
| 33_T | 36_G | 1.420 | 0.99 |
| 243_A | 314_H | 1.419 | 0.99 |
| 322_E | 430_F | 1.410 | 0.99 |
| 240_R | 311_M | 1.405 | 0.99 |
| 50_T | 60_R | 1.391 | 0.99 |
| 360_A | 363_D | 1.390 | 0.99 |
| 322_E | 450_A | 1.387 | 0.99 |
| 47_D | 50_T | 1.369 | 0.99 |
| 259_L | 262_G | 1.366 | 0.99 |
| 241_Y | 298_L | 1.358 | 0.99 |
| 193_A | 197_E | 1.356 | 0.99 |
| 146_A | 150_E | 1.355 | 0.99 |
| 103_D | 107_E | 1.339 | 0.99 |
| 216_S | 247_V | 1.330 | 0.98 |
| 361_L | 366_F | 1.327 | 0.98 |
| 23_A | 31_A | 1.327 | 0.98 |
| 240_R | 314_H | 1.320 | 0.98 |
| 48_P | 83_T | 1.316 | 0.98 |
| 229_D | 305_R | 1.316 | 0.98 |
| 316_A | 357_V | 1.315 | 0.98 |
| 32_V | 69_A | 1.315 | 0.98 |
| 438_P | 442_R | 1.313 | 0.98 |
| 216_S | 252_V | 1.312 | 0.98 |
| 51_V | 83_T | 1.307 | 0.98 |
| 124_L | 149_L | 1.298 | 0.98 |
| 155_V | 158_R | 1.296 | 0.98 |
| 319_I | 430_F | 1.289 | 0.98 |
| 71_R | 75_A | 1.287 | 0.98 |
| 86_D | 89_G | 1.284 | 0.98 |
| 275_V | 305_R | 1.281 | 0.98 |
| 238_L | 249_V | 1.278 | 0.98 |
| 230_A | 300_T | 1.278 | 0.98 |
| 288_W | 302_E | 1.277 | 0.98 |
| 127_G | 161_G | 1.274 | 0.98 |
| 114_V | 144_L | 1.272 | 0.98 |
| 17_K | 42_V | 1.270 | 0.98 |
| 165_C | 200_W | 1.270 | 0.98 |
| 194_A | 210_Q | 1.269 | 0.98 |
| 114_V | 148_L | 1.265 | 0.98 |
| 223_A | 238_L | 1.261 | 0.98 |
| 93_V | 129_L | 1.249 | 0.97 |
| 93_V | 195_A | 1.246 | 0.97 |
| 358_V | 362_R | 1.244 | 0.97 |
| 124_L | 128_Q | 1.238 | 0.97 |
| 19_V | 87_P | 1.232 | 0.97 |
| 230_A | 234_I | 1.229 | 0.97 |
| 19_V | 94_V | 1.225 | 0.97 |
| 54_L | 81_A | 1.215 | 0.97 |
| 336_A | 402_L | 1.214 | 0.97 |
| 53_D | 60_R | 1.210 | 0.97 |
| 369_R | 389_A | 1.208 | 0.97 |
| 55_R | 80_T | 1.207 | 0.97 |
| 70_V | 79_L | 1.207 | 0.97 |
| 33_T | 178_V | 1.201 | 0.96 |
| 44_V | 82_S | 1.201 | 0.96 |
| 397_S | 422_R | 1.193 | 0.96 |
| 441_I | 444_L | 1.193 | 0.96 |
| 190_P | 194_A | 1.183 | 0.96 |
| 120_I | 130_V | 1.176 | 0.96 |
| 18_V | 34_L | 1.174 | 0.96 |
| 96_V | 113_L | 1.174 | 0.96 |
| 197_E | 211_V | 1.167 | 0.96 |
| 70_V | 74_A | 1.165 | 0.96 |
| 340_A | 370_I | 1.161 | 0.96 |
| 335_I | 401_C | 1.156 | 0.95 |
| 118_E | 122_P | 1.156 | 0.95 |
| 356_G | 359_A | 1.156 | 0.95 |
| 149_L | 152_G | 1.151 | 0.95 |
| 131_I | 199_F | 1.146 | 0.95 |
| 441_I | 449_F | 1.145 | 0.95 |
| 453_G | 456_R | 1.140 | 0.95 |
| 298_L | 301_V | 1.137 | 0.95 |
| 262_G | 267_N | 1.136 | 0.95 |
| 85_Y | 122_P | 1.136 | 0.95 |
| 401_C | 430_F | 1.134 | 0.95 |
| 235_A | 253_I | 1.131 | 0.95 |
| 42_V | 82_S | 1.131 | 0.95 |
| 340_A | 352_T | 1.128 | 0.95 |
| 42_V | 80_T | 1.123 | 0.94 |
| 42_V | 91_A | 1.122 | 0.94 |
| 161_G | 192_S | 1.121 | 0.94 |
| 69_A | 175_L | 1.118 | 0.94 |
| 82_S | 87_P | 1.117 | 0.94 |
| 36_G | 179_R | 1.117 | 0.94 |
| 42_V | 87_P | 1.106 | 0.94 |
| 261_K | 267_N | 1.099 | 0.93 |
| 355_R | 359_A | 1.095 | 0.93 |
| 404_F | 436_L | 1.094 | 0.93 |
| 407_G | 433_R | 1.090 | 0.93 |
| 418_A | 422_R | 1.081 | 0.93 |
| 438_P | 456_R | 1.078 | 0.93 |
| 89_G | 125_R | 1.076 | 0.93 |
| 319_I | 335_I | 1.075 | 0.92 |
| 17_K | 90_A | 1.071 | 0.92 |
| 92_D | 128_Q | 1.067 | 0.92 |
| 318_V | 430_F | 1.066 | 0.92 |
| 415_D | 418_A | 1.065 | 0.92 |
| 30_L | 183_V | 1.063 | 0.92 |
| 261_K | 268_L | 1.062 | 0.92 |
| 73_L | 78_R | 1.059 | 0.92 |
| 159_D | 191_R | 1.057 | 0.92 |
| 111_D | 115_A | 1.054 | 0.91 |
| 31_A | 43_A | 1.051 | 0.91 |
| 124_L | 160_F | 1.050 | 0.91 |
| 349_V | 354_V | 1.050 | 0.91 |
| 340_A | 349_V | 1.049 | 0.91 |
| 33_T | 179_R | 1.049 | 0.91 |
| 51_V | 55_R | 1.049 | 0.91 |
| 251_D | 254_G | 1.045 | 0.91 |
| 54_L | 79_L | 1.038 | 0.91 |
| 108_M | 137_S | 1.033 | 0.90 |
| 231_N | 269_L | 1.033 | 0.90 |
| 340_A | 380_I | 1.032 | 0.90 |
| 316_A | 364_S | 1.030 | 0.90 |
| 260_P | 267_N | 1.028 | 0.90 |
| 336_A | 369_R | 1.025 | 0.90 |
| 231_N | 235_A | 1.025 | 0.90 |
| 80_T | 86_D | 1.024 | 0.90 |
| 313_R | 317_A | 1.022 | 0.90 |
| 40_E | 78_R | 1.022 | 0.90 |
| 30_L | 178_V | 1.020 | 0.90 |
| 187_G | 193_A | 1.014 | 0.89 |
| 429_V | 436_L | 1.013 | 0.89 |
| 338_L | 402_L | 1.012 | 0.89 |
| 396_V | 402_L | 1.007 | 0.89 |
| 127_G | 191_R | 1.000 | 0.88 |
| 173_V | 176_A | 1.000 | 0.88 |
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 | |
| 2y0cA | 4 | 0.9496 | 100 | 0.278 | Contact Map |
| 3g79A | 2 | 0.9649 | 100 | 0.301 | Contact Map |
| 4a7pA | 2 | 0.9342 | 100 | 0.309 | Contact Map |
| 3gg2A | 4 | 0.932 | 100 | 0.31 | Contact Map |
| 2q3eA | 12 | 0.9518 | 100 | 0.312 | Contact Map |
| 2o3jA | 3 | 0.9518 | 100 | 0.313 | Contact Map |
| 3ojoA | 2 | 0.8991 | 100 | 0.322 | Contact Map |
| 3vtfA | 1 | 0.9276 | 100 | 0.33 | Contact Map |
| 1mv8A | 4 | 0.9145 | 100 | 0.358 | Contact Map |
| 3pidA | 1 | 0.8399 | 100 | 0.406 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)