| TM_SLC26A4 resubmit |
| ID: | 1496222558 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 420 (393) | ||
| Sequences: | 20798 (11060) | ||
| Seq/Len: | 52.921 | ||
| Nf(neff/√len): | 557.9 |
Jackhmmer Results: (2016_04)
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: 52.921).
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 |
| 152_V | 188_G | 3.399 | 1.00 |
| 107_L | 309_G | 2.721 | 1.00 |
| 117_G | 299_I | 2.690 | 1.00 |
| 401_V | 413_A | 2.602 | 1.00 |
| 41_F | 338_I | 2.491 | 1.00 |
| 38_L | 338_I | 2.161 | 1.00 |
| 36_P | 304_S | 2.110 | 1.00 |
| 195_C | 219_V | 2.085 | 1.00 |
| 107_L | 306_I | 2.065 | 1.00 |
| 186_T | 190_L | 2.030 | 1.00 |
| 38_L | 341_A | 2.009 | 1.00 |
| 331_G | 336_A | 2.001 | 1.00 |
| 4_G | 339_I | 1.934 | 1.00 |
| 225_A | 229_G | 1.885 | 1.00 |
| 397_F | 417_F | 1.883 | 1.00 |
| 32_S | 316_A | 1.880 | 1.00 |
| 39_T | 307_F | 1.877 | 1.00 |
| 176_N | 179_D | 1.859 | 1.00 |
| 190_L | 194_V | 1.850 | 1.00 |
| 223_A | 362_V | 1.820 | 1.00 |
| 241_V | 245_P | 1.758 | 1.00 |
| 110_G | 306_I | 1.754 | 1.00 |
| 226_I | 230_A | 1.745 | 1.00 |
| 54_F | 57_V | 1.732 | 1.00 |
| 180_T | 185_F | 1.726 | 1.00 |
| 115_I | 119_L | 1.724 | 1.00 |
| 53_P | 56_V | 1.718 | 1.00 |
| 392_A | 396_V | 1.715 | 1.00 |
| 342_A | 346_I | 1.705 | 1.00 |
| 24_V | 27_G | 1.702 | 1.00 |
| 308_S | 313_C | 1.671 | 1.00 |
| 108_L | 266_S | 1.666 | 1.00 |
| 112_I | 267_F | 1.662 | 1.00 |
| 239_G | 242_K | 1.648 | 1.00 |
| 192_I | 369_A | 1.646 | 1.00 |
| 326_Q | 336_A | 1.631 | 1.00 |
| 401_V | 405_L | 1.600 | 1.00 |
| 236_Y | 240_I | 1.589 | 1.00 |
| 382_P | 386_R | 1.584 | 1.00 |
| 43_F | 303_I | 1.580 | 1.00 |
| 34_F | 341_A | 1.572 | 1.00 |
| 34_F | 345_M | 1.563 | 1.00 |
| 181_N | 184_D | 1.559 | 1.00 |
| 158_K | 176_N | 1.554 | 1.00 |
| 339_I | 343_I | 1.547 | 1.00 |
| 111_I | 115_I | 1.541 | 1.00 |
| 23_A | 26_V | 1.540 | 1.00 |
| 114_L | 302_G | 1.539 | 1.00 |
| 114_L | 299_I | 1.525 | 1.00 |
| 56_V | 59_L | 1.503 | 1.00 |
| 111_I | 306_I | 1.479 | 1.00 |
| 37_I | 341_A | 1.474 | 1.00 |
| 400_I | 404_I | 1.446 | 1.00 |
| 406_G | 409_L | 1.444 | 1.00 |
| 114_L | 306_I | 1.437 | 1.00 |
| 379_C | 382_P | 1.435 | 1.00 |
| 194_V | 198_V | 1.433 | 1.00 |
| 171_V | 175_Q | 1.429 | 1.00 |
| 396_V | 399_C | 1.416 | 1.00 |
| 284_Y | 323_T | 1.415 | 1.00 |
| 398_T | 414_G | 1.414 | 1.00 |
| 221_I | 225_A | 1.413 | 1.00 |
| 118_G | 299_I | 1.410 | 1.00 |
| 62_G | 66_L | 1.400 | 0.99 |
| 182_L | 186_T | 1.398 | 0.99 |
| 330_G | 333_T | 1.395 | 0.99 |
| 307_F | 311_F | 1.392 | 0.99 |
| 195_C | 199_K | 1.386 | 0.99 |
| 3_S | 331_G | 1.383 | 0.99 |
| 34_F | 38_L | 1.383 | 0.99 |
| 231_N | 234_K | 1.381 | 0.99 |
| 122_G | 295_N | 1.378 | 0.99 |
| 183_A | 186_T | 1.378 | 0.99 |
| 192_I | 365_A | 1.367 | 0.99 |
| 236_Y | 239_G | 1.365 | 0.99 |
| 405_L | 409_L | 1.364 | 0.99 |
| 39_T | 43_F | 1.360 | 0.99 |
| 14_Q | 30_L | 1.355 | 0.99 |
| 188_G | 365_A | 1.351 | 0.99 |
| 165_S | 168_Y | 1.345 | 0.99 |
| 190_L | 226_I | 1.343 | 0.99 |
| 184_D | 361_S | 1.332 | 0.99 |
| 289_D | 292_I | 1.331 | 0.99 |
| 252_E | 255_P | 1.329 | 0.99 |
| 94_R | 97_A | 1.328 | 0.99 |
| 394_I | 399_C | 1.326 | 0.99 |
| 243_S | 246_R | 1.323 | 0.99 |
| 385_W | 389_K | 1.313 | 0.99 |
| 3_S | 336_A | 1.309 | 0.99 |
| 191_T | 365_A | 1.307 | 0.99 |
| 179_D | 182_L | 1.306 | 0.99 |
| 393_V | 397_F | 1.302 | 0.99 |
| 388_N | 391_D | 1.297 | 0.99 |
| 199_K | 373_G | 1.293 | 0.99 |
| 238_A | 241_V | 1.290 | 0.99 |
| 32_S | 311_F | 1.276 | 0.99 |
| 48_H | 318_T | 1.276 | 0.99 |
| 184_D | 188_G | 1.274 | 0.99 |
| 223_A | 227_S | 1.274 | 0.99 |
| 41_F | 337_G | 1.273 | 0.99 |
| 385_W | 391_D | 1.262 | 0.99 |
| 249_L | 252_E | 1.260 | 0.99 |
| 189_L | 193_V | 1.259 | 0.99 |
| 52_G | 56_V | 1.255 | 0.99 |
| 339_I | 342_A | 1.250 | 0.99 |
| 389_K | 393_V | 1.248 | 0.99 |
| 63_S | 67_S | 1.242 | 0.98 |
| 193_V | 197_A | 1.238 | 0.98 |
| 117_G | 302_G | 1.234 | 0.98 |
| 172_E | 175_Q | 1.231 | 0.98 |
| 393_V | 396_V | 1.231 | 0.98 |
| 10_V | 325_V | 1.230 | 0.98 |
| 55_P | 59_L | 1.225 | 0.98 |
| 53_P | 59_L | 1.225 | 0.98 |
| 251_P | 254_P | 1.217 | 0.98 |
| 141_A | 371_L | 1.212 | 0.98 |
| 225_A | 228_Y | 1.211 | 0.98 |
| 218_I | 222_I | 1.207 | 0.98 |
| 116_F | 270_A | 1.202 | 0.98 |
| 49_I | 52_G | 1.201 | 0.98 |
| 192_I | 196_M | 1.200 | 0.98 |
| 156_S | 159_N | 1.200 | 0.98 |
| 395_W | 399_C | 1.199 | 0.98 |
| 146_V | 170_L | 1.193 | 0.98 |
| 191_T | 219_V | 1.193 | 0.98 |
| 211_V | 214_P | 1.188 | 0.98 |
| 112_I | 270_A | 1.187 | 0.98 |
| 288_Y | 327_E | 1.186 | 0.98 |
| 397_F | 401_V | 1.183 | 0.98 |
| 97_A | 100_L | 1.180 | 0.98 |
| 53_P | 57_V | 1.175 | 0.98 |
| 112_I | 263_L | 1.170 | 0.97 |
| 229_G | 232_L | 1.170 | 0.97 |
| 8_G | 343_I | 1.170 | 0.97 |
| 55_P | 58_S | 1.169 | 0.97 |
| 242_K | 245_P | 1.169 | 0.97 |
| 250_P | 253_L | 1.167 | 0.97 |
| 394_I | 397_F | 1.167 | 0.97 |
| 219_V | 223_A | 1.164 | 0.97 |
| 5_V | 343_I | 1.157 | 0.97 |
| 52_G | 322_R | 1.156 | 0.97 |
| 23_A | 27_G | 1.156 | 0.97 |
| 47_R | 51_V | 1.155 | 0.97 |
| 157_T | 160_Y | 1.154 | 0.97 |
| 237_N | 240_I | 1.153 | 0.97 |
| 64_V | 265_A | 1.146 | 0.97 |
| 49_I | 340_S | 1.145 | 0.97 |
| 58_S | 314_F | 1.140 | 0.97 |
| 303_I | 307_F | 1.139 | 0.97 |
| 51_V | 54_F | 1.134 | 0.97 |
| 194_V | 222_I | 1.133 | 0.97 |
| 255_P | 258_L | 1.130 | 0.97 |
| 142_F | 403_I | 1.129 | 0.97 |
| 109_V | 113_Q | 1.128 | 0.97 |
| 331_G | 334_Q | 1.128 | 0.97 |
| 290_Y | 293_D | 1.124 | 0.97 |
| 281_G | 297_E | 1.124 | 0.97 |
| 196_M | 369_A | 1.123 | 0.97 |
| 171_V | 174_F | 1.123 | 0.97 |
| 151_I | 360_K | 1.117 | 0.96 |
| 226_I | 229_G | 1.117 | 0.96 |
| 392_A | 395_W | 1.114 | 0.96 |
| 250_P | 254_P | 1.110 | 0.96 |
| 244_I | 247_G | 1.108 | 0.96 |
| 54_F | 58_S | 1.106 | 0.96 |
| 191_T | 362_V | 1.103 | 0.96 |
| 47_R | 50_S | 1.103 | 0.96 |
| 338_I | 342_A | 1.102 | 0.96 |
| 396_V | 400_I | 1.101 | 0.96 |
| 108_L | 262_M | 1.099 | 0.96 |
| 394_I | 398_T | 1.096 | 0.96 |
| 241_V | 244_I | 1.093 | 0.96 |
| 330_G | 334_Q | 1.091 | 0.96 |
| 123_F | 126_R | 1.088 | 0.96 |
| 383_R | 386_R | 1.086 | 0.96 |
| 98_R | 101_I | 1.086 | 0.96 |
| 168_Y | 172_E | 1.085 | 0.96 |
| 51_V | 57_V | 1.083 | 0.96 |
| 194_V | 219_V | 1.080 | 0.95 |
| 24_V | 314_F | 1.079 | 0.95 |
| 235_N | 238_A | 1.079 | 0.95 |
| 185_F | 189_L | 1.078 | 0.95 |
| 335_V | 339_I | 1.076 | 0.95 |
| 115_I | 118_G | 1.076 | 0.95 |
| 306_I | 310_F | 1.075 | 0.95 |
| 182_L | 185_F | 1.075 | 0.95 |
| 51_V | 59_L | 1.075 | 0.95 |
| 191_T | 195_C | 1.074 | 0.95 |
| 168_Y | 171_V | 1.074 | 0.95 |
| 52_G | 59_L | 1.069 | 0.95 |
| 105_L | 109_V | 1.067 | 0.95 |
| 112_I | 266_S | 1.066 | 0.95 |
| 106_T | 309_G | 1.064 | 0.95 |
| 187_A | 223_A | 1.062 | 0.95 |
| 174_F | 177_I | 1.059 | 0.95 |
| 186_T | 189_L | 1.058 | 0.95 |
| 224_T | 227_S | 1.058 | 0.95 |
| 49_I | 53_P | 1.056 | 0.95 |
| 346_I | 350_A | 1.055 | 0.95 |
| 276_I | 280_V | 1.054 | 0.95 |
| 11_A | 14_Q | 1.052 | 0.95 |
| 383_R | 387_Q | 1.051 | 0.94 |
| 191_T | 223_A | 1.051 | 0.94 |
| 293_D | 296_Q | 1.050 | 0.94 |
| 224_T | 357_P | 1.048 | 0.94 |
| 131_P | 135_G | 1.042 | 0.94 |
| 103_S | 309_G | 1.041 | 0.94 |
| 145_L | 368_I | 1.040 | 0.94 |
| 102_A | 106_T | 1.039 | 0.94 |
| 110_G | 117_G | 1.038 | 0.94 |
| 54_F | 59_L | 1.035 | 0.94 |
| 198_V | 218_I | 1.034 | 0.94 |
| 198_V | 215_I | 1.032 | 0.94 |
| 134_G | 383_R | 1.030 | 0.94 |
| 52_G | 55_P | 1.029 | 0.94 |
| 66_L | 69_A | 1.029 | 0.94 |
| 55_P | 60_M | 1.024 | 0.93 |
| 172_E | 176_N | 1.023 | 0.93 |
| 138_T | 399_C | 1.023 | 0.93 |
| 65_V | 68_M | 1.022 | 0.93 |
| 227_S | 232_L | 1.021 | 0.93 |
| 50_S | 56_V | 1.020 | 0.93 |
| 187_A | 227_S | 1.019 | 0.93 |
| 42_I | 338_I | 1.019 | 0.93 |
| 151_I | 364_A | 1.019 | 0.93 |
| 393_V | 398_T | 1.017 | 0.93 |
| 261_E | 264_A | 1.016 | 0.93 |
| 116_F | 121_I | 1.013 | 0.93 |
| 131_P | 391_D | 1.013 | 0.93 |
| 243_S | 247_G | 1.013 | 0.93 |
| 183_A | 232_L | 1.013 | 0.93 |
| 13_L | 17_A | 1.012 | 0.93 |
| 187_A | 230_A | 1.011 | 0.93 |
| 306_I | 309_G | 1.010 | 0.93 |
| 102_A | 105_L | 1.008 | 0.93 |
| 64_V | 68_M | 1.005 | 0.93 |
| 260_S | 264_A | 1.005 | 0.93 |
| 190_L | 223_A | 1.003 | 0.93 |
| 228_Y | 357_P | 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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 3qe7A | 1 | 0.8571 | 100 | 0.43 | Contact Map |
| 1btsA | 1 | 0.05 | 12.7 | 0.962 | Contact Map |
| 4k0jA | 6 | 0.3452 | 3.7 | 0.97 | Contact Map |
| 1colA | 2 | 0.1381 | 2.6 | 0.972 | Contact Map |
| 1a87A | 1 | 0.1452 | 2.2 | 0.973 | Contact Map |
| 3orgA | 4 | 0.5667 | 2.2 | 0.973 | Contact Map |
| 4dx5A | 3 | 0.3786 | 2 | 0.974 | Contact Map |
| 4b19A | 1 | 0.0476 | 1.8 | 0.975 | Contact Map |
| 2mwrA | 1 | 0.0548 | 1.8 | 0.975 | Contact Map |
| 2k1aA | 1 | 0.0929 | 1.4 | 0.976 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)