| ANEH coverage 75 |
| ID: | 1446726273 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 398 (376) | ||
| Sequences: | 1781 (1231.3) | ||
| Seq/Len: | 4.737 | ||
| Nf(neff/√len): | 63.5 |
HHblits Results: (2015_06)
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: 4.737).
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 |
| 25_D | 29_D | 4.306 | 1.00 |
| 189_Q | 214_N | 3.491 | 1.00 |
| 299_S | 303_L | 3.334 | 1.00 |
| 33_T | 37_L | 3.317 | 1.00 |
| 174_D | 186_Y | 3.055 | 1.00 |
| 127_I | 293_T | 3.039 | 1.00 |
| 354_R | 358_A | 2.939 | 1.00 |
| 75_R | 78_E | 2.936 | 1.00 |
| 169_N | 313_T | 2.861 | 1.00 |
| 114_L | 173_V | 2.809 | 1.00 |
| 114_L | 198_G | 2.756 | 1.00 |
| 89_T | 179_D | 2.600 | 1.00 |
| 66_E | 70_S | 2.577 | 1.00 |
| 36_R | 69_L | 2.556 | 1.00 |
| 188_I | 198_G | 2.512 | 1.00 |
| 380_R | 383_E | 2.510 | 1.00 |
| 72_F | 296_E | 2.461 | 1.00 |
| 341_G | 365_F | 2.412 | 1.00 |
| 30_D | 34_L | 2.374 | 1.00 |
| 343_S | 369_H | 2.354 | 1.00 |
| 152_Y | 313_T | 2.257 | 1.00 |
| 187_I | 392_V | 2.219 | 1.00 |
| 67_K | 292_E | 2.135 | 1.00 |
| 267_S | 305_E | 2.109 | 1.00 |
| 367_R | 390_A | 2.099 | 1.00 |
| 149_L | 197_V | 2.080 | 1.00 |
| 25_D | 75_R | 2.080 | 1.00 |
| 304_T | 307_F | 2.027 | 1.00 |
| 27_Q | 303_L | 2.019 | 1.00 |
| 128_L | 384_L | 2.012 | 1.00 |
| 120_S | 124_F | 1.970 | 1.00 |
| 163_D | 316_E | 1.912 | 1.00 |
| 185_G | 209_K | 1.911 | 1.00 |
| 73_D | 76_P | 1.903 | 1.00 |
| 77_F | 296_E | 1.828 | 1.00 |
| 65_R | 271_I | 1.828 | 1.00 |
| 28_L | 75_R | 1.821 | 1.00 |
| 17_N | 88_T | 1.818 | 1.00 |
| 101_L | 144_L | 1.794 | 1.00 |
| 365_F | 390_A | 1.782 | 1.00 |
| 112_A | 173_V | 1.776 | 1.00 |
| 140_L | 393_E | 1.759 | 1.00 |
| 280_K | 284_W | 1.756 | 1.00 |
| 21_V | 81_L | 1.756 | 1.00 |
| 345_F | 376_A | 1.755 | 1.00 |
| 58_S | 62_T | 1.750 | 1.00 |
| 40_I | 65_R | 1.741 | 1.00 |
| 67_K | 71_E | 1.737 | 1.00 |
| 186_Y | 207_A | 1.711 | 0.99 |
| 63_T | 291_S | 1.704 | 0.99 |
| 72_F | 77_F | 1.702 | 0.99 |
| 274_L | 298_V | 1.670 | 0.99 |
| 258_R | 283_Q | 1.658 | 0.99 |
| 290_P | 293_T | 1.656 | 0.99 |
| 114_L | 188_I | 1.618 | 0.99 |
| 131_F | 385_K | 1.608 | 0.99 |
| 202_G | 211_V | 1.572 | 0.99 |
| 16_P | 89_T | 1.564 | 0.99 |
| 128_L | 385_K | 1.562 | 0.99 |
| 27_Q | 39_K | 1.560 | 0.99 |
| 250_A | 255_H | 1.559 | 0.99 |
| 341_G | 391_F | 1.557 | 0.99 |
| 174_D | 205_F | 1.553 | 0.99 |
| 41_A | 264_H | 1.549 | 0.99 |
| 113_L | 146_V | 1.546 | 0.99 |
| 89_T | 98_F | 1.542 | 0.99 |
| 97_H | 148_S | 1.517 | 0.98 |
| 38_S | 271_I | 1.505 | 0.98 |
| 85_P | 101_L | 1.504 | 0.98 |
| 125_Y | 129_Q | 1.485 | 0.98 |
| 149_L | 169_N | 1.480 | 0.98 |
| 28_L | 303_L | 1.479 | 0.98 |
| 384_L | 388_L | 1.478 | 0.98 |
| 109_V | 209_K | 1.460 | 0.98 |
| 210_A | 395_V | 1.457 | 0.98 |
| 143_H | 182_F | 1.454 | 0.98 |
| 354_R | 366_F | 1.448 | 0.98 |
| 58_S | 264_H | 1.437 | 0.98 |
| 191_G | 214_N | 1.436 | 0.98 |
| 21_V | 154_F | 1.422 | 0.97 |
| 16_P | 179_D | 1.417 | 0.97 |
| 363_L | 366_F | 1.409 | 0.97 |
| 118_P | 124_F | 1.409 | 0.97 |
| 174_D | 207_A | 1.408 | 0.97 |
| 88_T | 156_S | 1.404 | 0.97 |
| 281_Y | 297_M | 1.402 | 0.97 |
| 72_F | 299_S | 1.396 | 0.97 |
| 382_R | 386_T | 1.394 | 0.97 |
| 66_E | 69_L | 1.393 | 0.97 |
| 64_M | 291_S | 1.376 | 0.97 |
| 91_I | 176_L | 1.371 | 0.97 |
| 232_A | 236_E | 1.364 | 0.96 |
| 136_T | 140_L | 1.363 | 0.96 |
| 60_W | 278_G | 1.360 | 0.96 |
| 345_F | 384_L | 1.357 | 0.96 |
| 108_A | 143_H | 1.355 | 0.96 |
| 66_E | 71_E | 1.353 | 0.96 |
| 293_T | 378_L | 1.352 | 0.96 |
| 23_I | 303_L | 1.347 | 0.96 |
| 16_P | 98_F | 1.347 | 0.96 |
| 56_I | 61_L | 1.321 | 0.95 |
| 102_F | 143_H | 1.306 | 0.95 |
| 164_F | 172_V | 1.303 | 0.95 |
| 131_F | 382_R | 1.302 | 0.95 |
| 164_F | 169_N | 1.293 | 0.95 |
| 343_S | 367_R | 1.289 | 0.95 |
| 40_I | 62_T | 1.288 | 0.95 |
| 312_H | 316_E | 1.281 | 0.94 |
| 285_V | 289_L | 1.281 | 0.94 |
| 112_A | 188_I | 1.270 | 0.94 |
| 120_S | 214_N | 1.266 | 0.94 |
| 87_F | 98_F | 1.265 | 0.94 |
| 265_V | 272_A | 1.262 | 0.94 |
| 21_V | 82_N | 1.257 | 0.94 |
| 121_F | 124_F | 1.256 | 0.94 |
| 30_D | 39_K | 1.255 | 0.94 |
| 201_L | 208_C | 1.247 | 0.93 |
| 315_R | 319_P | 1.242 | 0.93 |
| 113_L | 125_Y | 1.242 | 0.93 |
| 189_Q | 384_L | 1.242 | 0.93 |
| 189_Q | 376_A | 1.233 | 0.93 |
| 123_E | 126_P | 1.231 | 0.93 |
| 281_Y | 378_L | 1.216 | 0.92 |
| 54_F | 312_H | 1.214 | 0.92 |
| 65_R | 69_L | 1.210 | 0.92 |
| 123_E | 297_M | 1.197 | 0.91 |
| 33_T | 36_R | 1.194 | 0.91 |
| 32_K | 36_R | 1.193 | 0.91 |
| 86_Q | 122_V | 1.190 | 0.91 |
| 101_L | 146_V | 1.174 | 0.90 |
| 279_E | 284_W | 1.171 | 0.90 |
| 262_I | 265_V | 1.163 | 0.90 |
| 292_E | 295_L | 1.161 | 0.90 |
| 260_S | 264_H | 1.161 | 0.90 |
| 243_K | 247_D | 1.159 | 0.90 |
| 74_W | 78_E | 1.145 | 0.89 |
| 99_A | 122_V | 1.145 | 0.89 |
| 353_P | 356_W | 1.143 | 0.89 |
| 111_I | 142_F | 1.142 | 0.89 |
| 189_Q | 388_L | 1.141 | 0.89 |
| 31_L | 302_W | 1.140 | 0.88 |
| 39_K | 302_W | 1.134 | 0.88 |
| 136_T | 139_T | 1.133 | 0.88 |
| 54_F | 315_R | 1.132 | 0.88 |
| 295_L | 299_S | 1.129 | 0.88 |
| 30_D | 37_L | 1.126 | 0.88 |
| 103_S | 143_H | 1.124 | 0.88 |
| 193_I | 313_T | 1.123 | 0.87 |
| 386_T | 390_A | 1.123 | 0.87 |
| 174_D | 201_L | 1.122 | 0.87 |
| 151_G | 159_P | 1.117 | 0.87 |
| 174_D | 178_K | 1.116 | 0.87 |
| 30_D | 302_W | 1.114 | 0.87 |
| 385_K | 389_T | 1.112 | 0.87 |
| 183_G | 207_A | 1.108 | 0.86 |
| 96_I | 173_V | 1.108 | 0.86 |
| 60_W | 63_T | 1.108 | 0.86 |
| 254_E | 258_R | 1.107 | 0.86 |
| 92_E | 175_Q | 1.105 | 0.86 |
| 170_A | 201_L | 1.105 | 0.86 |
| 295_L | 298_V | 1.098 | 0.86 |
| 81_L | 86_Q | 1.094 | 0.86 |
| 199_R | 360_T | 1.089 | 0.85 |
| 119_G | 124_F | 1.082 | 0.85 |
| 371_E | 380_R | 1.072 | 0.84 |
| 91_I | 175_Q | 1.066 | 0.83 |
| 231_S | 234_E | 1.065 | 0.83 |
| 118_P | 121_F | 1.064 | 0.83 |
| 35_V | 65_R | 1.056 | 0.83 |
| 142_F | 392_V | 1.044 | 0.82 |
| 343_S | 365_F | 1.044 | 0.82 |
| 109_V | 187_I | 1.040 | 0.81 |
| 77_F | 80_R | 1.040 | 0.81 |
| 367_R | 387_D | 1.035 | 0.81 |
| 114_L | 169_N | 1.035 | 0.81 |
| 112_A | 177_M | 1.030 | 0.81 |
| 273_L | 302_W | 1.029 | 0.80 |
| 64_M | 278_G | 1.029 | 0.80 |
| 255_H | 311_I | 1.027 | 0.80 |
| 261_T | 280_K | 1.027 | 0.80 |
| 188_I | 201_L | 1.026 | 0.80 |
| 18_P | 87_F | 1.026 | 0.80 |
| 114_L | 149_L | 1.024 | 0.80 |
| 52_G | 282_L | 1.023 | 0.80 |
| 268_S | 272_A | 1.021 | 0.80 |
| 165_G | 168_D | 1.018 | 0.79 |
| 60_W | 287_K | 1.018 | 0.79 |
| 129_Q | 132_R | 1.016 | 0.79 |
| 35_V | 69_L | 1.010 | 0.79 |
| 152_Y | 193_I | 1.003 | 0.78 |
| 153_T | 300_L | 1.002 | 0.78 |
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 | |
| 3g02A | 2 | 0.9698 | 100 | 0.421 | Contact Map |
| 4qa9A | 1 | 0.9422 | 100 | 0.46 | Contact Map |
| 4qlaA | 2 | 0.9724 | 100 | 0.468 | Contact Map |
| 2jbwA | 4 | 0.696 | 99.9 | 0.819 | Contact Map |
| 1ehyA | 4 | 0.6809 | 99.9 | 0.82 | Contact Map |
| 3r40A | 2 | 0.706 | 99.9 | 0.838 | Contact Map |
| 5bovA | 4 | 0 | 99.8 | 0.842 | Contact Map |
| 4inzA | 2 | 0.701 | 99.8 | 0.842 | Contact Map |
| 3qyjA | 2 | 0.7035 | 99.8 | 0.845 | Contact Map |
| 2e3jA | 1 | 0.7412 | 99.8 | 0.85 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)