| 5DA0 vs mutpend |
| ID: | 1472821865 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 505 (488) | ||
| Sequences: | 8974 (4378.5) | ||
| Seq/Len: | 18.389 | ||
| Nf(neff/√len): | 198.2 |
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: 18.389).
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 |
| 112_G | 264_R | 4.007 | 1.00 |
| 67_L | 268_V | 3.910 | 1.00 |
| 63_I | 272_V | 3.679 | 1.00 |
| 102_V | 274_G | 3.556 | 1.00 |
| 365_V | 378_I | 3.082 | 1.00 |
| 364_A | 368_F | 2.776 | 1.00 |
| 147_F | 158_V | 2.634 | 1.00 |
| 162_L | 334_V | 2.519 | 1.00 |
| 458_M | 468_V | 2.410 | 1.00 |
| 291_N | 301_S | 2.405 | 1.00 |
| 273_T | 278_G | 2.389 | 1.00 |
| 440_L | 443_A | 2.334 | 1.00 |
| 117_A | 260_N | 2.306 | 1.00 |
| 62_L | 306_G | 2.301 | 1.00 |
| 56_A | 281_G | 2.210 | 1.00 |
| 62_L | 303_F | 2.204 | 1.00 |
| 25_V | 304_V | 2.172 | 1.00 |
| 110_V | 114_A | 2.168 | 1.00 |
| 361_A | 382_L | 2.162 | 1.00 |
| 249_I | 288_S | 2.150 | 1.00 |
| 185_L | 327_A | 2.122 | 1.00 |
| 405_G | 434_R | 2.105 | 1.00 |
| 110_V | 113_W | 2.071 | 1.00 |
| 21_P | 25_V | 2.047 | 1.00 |
| 63_I | 268_V | 2.033 | 1.00 |
| 103_L | 231_A | 2.007 | 1.00 |
| 187_V | 191_V | 1.973 | 1.00 |
| 162_L | 330_A | 1.966 | 1.00 |
| 163_A | 167_L | 1.964 | 1.00 |
| 161_G | 330_A | 1.955 | 1.00 |
| 107_L | 228_F | 1.950 | 1.00 |
| 102_V | 271_I | 1.949 | 1.00 |
| 82_A | 279_M | 1.931 | 1.00 |
| 261_V | 264_R | 1.900 | 1.00 |
| 406_T | 437_V | 1.866 | 1.00 |
| 111_F | 116_L | 1.827 | 1.00 |
| 312_L | 316_L | 1.822 | 1.00 |
| 165_I | 181_A | 1.816 | 1.00 |
| 470_L | 473_L | 1.779 | 1.00 |
| 488_D | 492_A | 1.757 | 1.00 |
| 34_A | 290_I | 1.753 | 1.00 |
| 161_G | 181_A | 1.743 | 1.00 |
| 458_M | 462_M | 1.730 | 1.00 |
| 269_A | 273_T | 1.727 | 1.00 |
| 478_A | 482_E | 1.698 | 1.00 |
| 60_I | 281_G | 1.661 | 1.00 |
| 371_D | 374_L | 1.654 | 1.00 |
| 190_V | 322_Q | 1.653 | 1.00 |
| 20_N | 297_R | 1.640 | 1.00 |
| 24_D | 297_R | 1.632 | 1.00 |
| 104_T | 234_L | 1.631 | 1.00 |
| 64_T | 75_S | 1.623 | 1.00 |
| 112_G | 117_A | 1.611 | 1.00 |
| 311_V | 315_A | 1.606 | 1.00 |
| 253_T | 292_V | 1.604 | 1.00 |
| 106_V | 271_I | 1.599 | 1.00 |
| 304_V | 308_F | 1.587 | 1.00 |
| 162_L | 166_Y | 1.581 | 1.00 |
| 106_V | 110_V | 1.572 | 1.00 |
| 81_M | 234_L | 1.561 | 1.00 |
| 263_S | 266_Q | 1.554 | 1.00 |
| 39_A | 78_T | 1.548 | 1.00 |
| 420_T | 449_S | 1.535 | 1.00 |
| 28_G | 304_V | 1.534 | 1.00 |
| 389_R | 393_Q | 1.527 | 1.00 |
| 406_T | 435_R | 1.527 | 1.00 |
| 307_A | 311_V | 1.519 | 1.00 |
| 100_A | 227_I | 1.515 | 1.00 |
| 23_K | 297_R | 1.511 | 1.00 |
| 130_G | 390_K | 1.509 | 1.00 |
| 420_T | 453_A | 1.507 | 1.00 |
| 167_L | 171_V | 1.503 | 1.00 |
| 59_I | 276_F | 1.483 | 1.00 |
| 109_V | 113_W | 1.468 | 1.00 |
| 296_G | 301_S | 1.467 | 1.00 |
| 48_V | 279_M | 1.462 | 1.00 |
| 72_G | 292_V | 1.461 | 1.00 |
| 187_V | 190_V | 1.445 | 1.00 |
| 303_F | 307_A | 1.431 | 1.00 |
| 360_L | 364_A | 1.428 | 1.00 |
| 13_Y | 21_P | 1.415 | 1.00 |
| 113_W | 264_R | 1.402 | 0.99 |
| 134_A | 367_V | 1.391 | 0.99 |
| 136_A | 336_A | 1.386 | 0.99 |
| 48_V | 89_V | 1.385 | 0.99 |
| 27_A | 31_V | 1.381 | 0.99 |
| 137_I | 363_V | 1.381 | 0.99 |
| 36_I | 309_L | 1.372 | 0.99 |
| 21_P | 304_V | 1.362 | 0.99 |
| 133_N | 363_V | 1.360 | 0.99 |
| 231_A | 235_S | 1.358 | 0.99 |
| 362_T | 379_G | 1.357 | 0.99 |
| 120_L | 123_V | 1.357 | 0.99 |
| 267_G | 272_V | 1.355 | 0.99 |
| 183_V | 187_V | 1.353 | 0.99 |
| 185_L | 189_A | 1.353 | 0.99 |
| 22_R | 26_L | 1.345 | 0.99 |
| 105_G | 271_I | 1.344 | 0.99 |
| 137_I | 367_V | 1.343 | 0.99 |
| 346_R | 350_V | 1.339 | 0.99 |
| 109_V | 264_R | 1.336 | 0.99 |
| 146_Q | 329_V | 1.333 | 0.99 |
| 166_Y | 334_V | 1.330 | 0.99 |
| 484_L | 488_D | 1.329 | 0.99 |
| 147_F | 333_M | 1.308 | 0.99 |
| 366_T | 375_G | 1.301 | 0.99 |
| 140_F | 333_M | 1.296 | 0.99 |
| 85_M | 280_A | 1.285 | 0.99 |
| 307_A | 310_M | 1.283 | 0.99 |
| 156_A | 160_A | 1.282 | 0.99 |
| 343_G | 346_R | 1.282 | 0.99 |
| 100_A | 231_A | 1.275 | 0.99 |
| 107_L | 231_A | 1.266 | 0.99 |
| 39_A | 43_S | 1.263 | 0.99 |
| 184_V | 188_V | 1.262 | 0.99 |
| 459_L | 463_R | 1.255 | 0.99 |
| 103_L | 227_I | 1.253 | 0.99 |
| 25_V | 29_I | 1.248 | 0.99 |
| 95_Q | 213_Q | 1.247 | 0.99 |
| 107_L | 235_S | 1.245 | 0.98 |
| 228_F | 232_L | 1.242 | 0.98 |
| 76_A | 287_Q | 1.238 | 0.98 |
| 352_P | 355_E | 1.236 | 0.98 |
| 365_V | 370_H | 1.235 | 0.98 |
| 291_N | 296_G | 1.234 | 0.98 |
| 63_I | 67_L | 1.230 | 0.98 |
| 414_Q | 444_H | 1.229 | 0.98 |
| 313_I | 317_Q | 1.225 | 0.98 |
| 424_L | 456_K | 1.223 | 0.98 |
| 386_F | 390_K | 1.222 | 0.98 |
| 74_I | 78_T | 1.222 | 0.98 |
| 21_P | 300_L | 1.220 | 0.98 |
| 86_T | 90_K | 1.211 | 0.98 |
| 461_F | 466_T | 1.208 | 0.98 |
| 391_V | 416_F | 1.207 | 0.98 |
| 65_A | 302_T | 1.205 | 0.98 |
| 175_M | 180_V | 1.203 | 0.98 |
| 32_A | 308_F | 1.200 | 0.98 |
| 67_L | 265_G | 1.199 | 0.98 |
| 356_T | 360_L | 1.199 | 0.98 |
| 306_G | 310_M | 1.195 | 0.98 |
| 494_D | 498_G | 1.195 | 0.98 |
| 341_D | 344_S | 1.192 | 0.98 |
| 129_V | 359_M | 1.190 | 0.98 |
| 225_A | 228_F | 1.185 | 0.98 |
| 101_T | 280_A | 1.180 | 0.98 |
| 426_Q | 429_F | 1.179 | 0.98 |
| 492_A | 496_M | 1.176 | 0.98 |
| 42_F | 79_G | 1.172 | 0.98 |
| 381_V | 385_L | 1.168 | 0.97 |
| 487_H | 491_D | 1.166 | 0.97 |
| 104_T | 108_Q | 1.165 | 0.97 |
| 113_W | 116_L | 1.161 | 0.97 |
| 28_G | 32_A | 1.159 | 0.97 |
| 91_D | 230_V | 1.155 | 0.97 |
| 412_R | 442_D | 1.154 | 0.97 |
| 100_A | 234_L | 1.150 | 0.97 |
| 86_T | 419_S | 1.145 | 0.97 |
| 384_A | 388_A | 1.143 | 0.97 |
| 39_A | 57_S | 1.139 | 0.97 |
| 361_A | 364_A | 1.139 | 0.97 |
| 353_K | 356_T | 1.136 | 0.97 |
| 461_F | 468_V | 1.132 | 0.97 |
| 290_I | 294_S | 1.129 | 0.97 |
| 98_F | 101_T | 1.124 | 0.97 |
| 176_P | 179_L | 1.120 | 0.96 |
| 77_A | 287_Q | 1.119 | 0.96 |
| 479_T | 482_E | 1.117 | 0.96 |
| 79_G | 83_L | 1.117 | 0.96 |
| 52_V | 94_I | 1.113 | 0.96 |
| 451_V | 455_D | 1.111 | 0.96 |
| 65_A | 303_F | 1.107 | 0.96 |
| 91_D | 95_Q | 1.107 | 0.96 |
| 374_L | 377_L | 1.100 | 0.96 |
| 14_Q | 19_A | 1.099 | 0.96 |
| 284_M | 288_S | 1.098 | 0.96 |
| 377_L | 381_V | 1.098 | 0.96 |
| 214_F | 275_F | 1.097 | 0.96 |
| 475_A | 478_A | 1.097 | 0.96 |
| 239_L | 263_S | 1.092 | 0.96 |
| 133_N | 136_A | 1.091 | 0.96 |
| 436_V | 461_F | 1.090 | 0.96 |
| 264_R | 268_V | 1.090 | 0.96 |
| 56_A | 59_I | 1.084 | 0.96 |
| 12_Q | 16_E | 1.084 | 0.96 |
| 27_A | 301_S | 1.083 | 0.96 |
| 476_A | 479_T | 1.082 | 0.96 |
| 17_W | 20_N | 1.082 | 0.96 |
| 387_F | 416_F | 1.080 | 0.95 |
| 163_A | 166_Y | 1.079 | 0.95 |
| 52_V | 279_M | 1.077 | 0.95 |
| 66_F | 303_F | 1.077 | 0.95 |
| 258_D | 261_V | 1.076 | 0.95 |
| 166_Y | 337_I | 1.075 | 0.95 |
| 48_V | 52_V | 1.074 | 0.95 |
| 22_R | 29_I | 1.073 | 0.95 |
| 60_I | 64_T | 1.073 | 0.95 |
| 250_D | 257_S | 1.073 | 0.95 |
| 223_T | 226_I | 1.071 | 0.95 |
| 35_L | 61_A | 1.066 | 0.95 |
| 475_A | 479_T | 1.065 | 0.95 |
| 457_V | 468_V | 1.065 | 0.95 |
| 410_R | 442_D | 1.065 | 0.95 |
| 73_M | 283_A | 1.062 | 0.95 |
| 212_F | 215_P | 1.062 | 0.95 |
| 249_I | 292_V | 1.060 | 0.95 |
| 34_A | 38_E | 1.059 | 0.95 |
| 265_G | 269_A | 1.056 | 0.95 |
| 300_L | 304_V | 1.055 | 0.95 |
| 252_R | 289_M | 1.054 | 0.95 |
| 212_F | 276_F | 1.052 | 0.95 |
| 282_C | 286_G | 1.045 | 0.94 |
| 258_D | 262_E | 1.043 | 0.94 |
| 233_T | 257_S | 1.040 | 0.94 |
| 119_Y | 403_V | 1.040 | 0.94 |
| 177_S | 181_A | 1.038 | 0.94 |
| 42_F | 45_I | 1.038 | 0.94 |
| 272_V | 276_F | 1.032 | 0.94 |
| 84_L | 88_L | 1.029 | 0.94 |
| 101_T | 274_G | 1.026 | 0.94 |
| 318_P | 321_V | 1.026 | 0.94 |
| 435_R | 467_S | 1.025 | 0.93 |
| 168_L | 173_K | 1.023 | 0.93 |
| 87_G | 91_D | 1.023 | 0.93 |
| 347_T | 350_V | 1.023 | 0.93 |
| 168_L | 177_S | 1.022 | 0.93 |
| 477_S | 480_L | 1.021 | 0.93 |
| 180_V | 184_V | 1.020 | 0.93 |
| 61_A | 306_G | 1.019 | 0.93 |
| 15_R | 19_A | 1.018 | 0.93 |
| 161_G | 185_L | 1.017 | 0.93 |
| 186_T | 189_A | 1.015 | 0.93 |
| 75_S | 266_Q | 1.014 | 0.93 |
| 103_L | 106_V | 1.010 | 0.93 |
| 487_H | 490_P | 1.008 | 0.93 |
| 30_V | 294_S | 1.008 | 0.93 |
| 493_L | 496_M | 1.006 | 0.93 |
| 433_A | 436_V | 1.006 | 0.93 |
| 12_Q | 21_P | 1.006 | 0.93 |
| 345_L | 359_M | 1.003 | 0.93 |
| 136_A | 340_F | 1.003 | 0.93 |
| 14_Q | 20_N | 1.003 | 0.93 |
| 109_V | 271_I | 1.002 | 0.92 |
| 268_V | 271_I | 1.002 | 0.92 |
| 479_T | 483_R | 1.002 | 0.92 |
| 188_V | 192_T | 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 | |
| 3qe7A | 1 | 0.7307 | 100 | 0.666 | Contact Map |
| 3oizA | 1 | 0.1822 | 97.8 | 0.898 | Contact Map |
| 2klnA | 1 | 0.2257 | 97 | 0.912 | Contact Map |
| 3ny7A | 1 | 0.2218 | 96.9 | 0.913 | Contact Map |
| 3t6oA | 3 | 0.2178 | 96.7 | 0.916 | Contact Map |
| 3lloA | 1 | 0.2475 | 96.5 | 0.917 | Contact Map |
| 4dgfA | 2 | 0.2257 | 96.4 | 0.918 | Contact Map |
| 3zxnA | 2 | 0.2178 | 96.4 | 0.919 | Contact Map |
| 1sboA | 1 | 0.2079 | 96.4 | 0.919 | Contact Map |
| 1h4xA | 2 | 0.204 | 96.2 | 0.919 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)