| 4I5S |
| ID: | 1387788812 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 450 (409) | ||
| Sequences: | 7724 (6307.1) | ||
| Seq/Len: | 18.885 | ||
| Nf(neff/√len): | 311.9 |
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: 18.885).
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 |
| 230_L | 250_S | 4.143 | 1.00 |
| 105_D | 196_H | 3.779 | 1.00 |
| 420_E | 423_E | 3.380 | 1.00 |
| 365_S | 426_T | 3.210 | 1.00 |
| 343_S | 367_Q | 3.192 | 1.00 |
| 416_W | 428_T | 3.009 | 1.00 |
| 376_L | 417_A | 2.892 | 1.00 |
| 405_K | 409_K | 2.752 | 1.00 |
| 404_A | 415_I | 2.751 | 1.00 |
| 282_T | 323_I | 2.651 | 1.00 |
| 111_D | 115_K | 2.634 | 1.00 |
| 352_T | 363_S | 2.554 | 1.00 |
| 417_A | 427_F | 2.531 | 1.00 |
| 372_P | 375_D | 2.506 | 1.00 |
| 93_K | 97_T | 2.468 | 1.00 |
| 362_L | 429_I | 2.323 | 1.00 |
| 106_G | 126_Q | 2.313 | 1.00 |
| 331_V | 408_V | 2.293 | 1.00 |
| 331_V | 407_I | 2.277 | 1.00 |
| 313_D | 352_T | 2.219 | 1.00 |
| 371_I | 375_D | 2.205 | 1.00 |
| 361_I | 430_V | 2.193 | 1.00 |
| 283_N | 286_A | 2.192 | 1.00 |
| 108_L | 193_A | 2.142 | 1.00 |
| 352_T | 365_S | 2.138 | 1.00 |
| 350_T | 365_S | 2.134 | 1.00 |
| 122_M | 125_K | 2.130 | 1.00 |
| 323_I | 411_H | 2.126 | 1.00 |
| 408_V | 429_I | 2.100 | 1.00 |
| 366_D | 370_G | 2.078 | 1.00 |
| 227_K | 254_T | 2.074 | 1.00 |
| 92_E | 95_R | 2.064 | 1.00 |
| 280_E | 325_T | 2.056 | 1.00 |
| 100_L | 118_V | 2.026 | 1.00 |
| 285_T | 353_M | 2.009 | 1.00 |
| 311_I | 348_K | 2.005 | 1.00 |
| 103_M | 107_V | 1.988 | 1.00 |
| 363_S | 426_T | 1.987 | 1.00 |
| 309_E | 348_K | 1.949 | 1.00 |
| 108_L | 116_I | 1.949 | 1.00 |
| 281_L | 322_E | 1.943 | 1.00 |
| 361_I | 428_T | 1.934 | 1.00 |
| 359_Q | 430_V | 1.929 | 1.00 |
| 106_G | 195_L | 1.924 | 1.00 |
| 407_I | 411_H | 1.898 | 1.00 |
| 121_D | 125_K | 1.894 | 1.00 |
| 363_S | 428_T | 1.890 | 1.00 |
| 331_V | 404_A | 1.890 | 1.00 |
| 342_Y | 385_R | 1.880 | 1.00 |
| 408_V | 413_G | 1.868 | 1.00 |
| 419_S | 425_S | 1.835 | 1.00 |
| 137_C | 141_D | 1.832 | 1.00 |
| 311_I | 350_T | 1.813 | 1.00 |
| 348_K | 367_Q | 1.798 | 1.00 |
| 372_P | 421_E | 1.797 | 1.00 |
| 183_R | 187_F | 1.785 | 1.00 |
| 347_G | 367_Q | 1.776 | 1.00 |
| 419_S | 422_G | 1.775 | 1.00 |
| 380_F | 415_I | 1.774 | 1.00 |
| 290_Y | 329_T | 1.768 | 1.00 |
| 50_S | 55_H | 1.765 | 1.00 |
| 234_D | 248_K | 1.762 | 1.00 |
| 373_K | 376_L | 1.743 | 1.00 |
| 201_Q | 205_E | 1.737 | 1.00 |
| 343_S | 349_V | 1.737 | 1.00 |
| 355_T | 433_Y | 1.731 | 1.00 |
| 109_A | 190_G | 1.727 | 1.00 |
| 313_D | 350_T | 1.718 | 1.00 |
| 234_D | 251_L | 1.712 | 1.00 |
| 108_L | 123_A | 1.684 | 1.00 |
| 175_R | 196_H | 1.660 | 1.00 |
| 354_Q | 361_I | 1.651 | 1.00 |
| 66_S | 69_S | 1.651 | 1.00 |
| 371_I | 379_I | 1.632 | 1.00 |
| 343_S | 347_G | 1.628 | 1.00 |
| 202_E | 205_E | 1.626 | 1.00 |
| 200_E | 203_K | 1.614 | 1.00 |
| 324_D | 327_K | 1.610 | 1.00 |
| 97_T | 101_S | 1.589 | 1.00 |
| 354_Q | 363_S | 1.589 | 1.00 |
| 323_I | 328_M | 1.579 | 1.00 |
| 418_N | 428_T | 1.567 | 1.00 |
| 409_K | 414_F | 1.553 | 1.00 |
| 332_I | 362_L | 1.549 | 1.00 |
| 414_F | 430_V | 1.542 | 1.00 |
| 90_A | 93_K | 1.541 | 1.00 |
| 327_K | 330_Q | 1.532 | 1.00 |
| 418_N | 426_T | 1.514 | 1.00 |
| 376_L | 419_S | 1.512 | 1.00 |
| 123_A | 127_L | 1.481 | 1.00 |
| 129_V | 133_Q | 1.473 | 1.00 |
| 124_Q | 131_R | 1.461 | 1.00 |
| 119_I | 123_A | 1.459 | 1.00 |
| 227_K | 255_N | 1.452 | 1.00 |
| 96_L | 100_L | 1.448 | 1.00 |
| 419_S | 423_E | 1.441 | 1.00 |
| 356_T | 361_I | 1.405 | 0.99 |
| 290_Y | 325_T | 1.401 | 0.99 |
| 295_F | 333_D | 1.398 | 0.99 |
| 225_S | 253_E | 1.384 | 0.99 |
| 130_T | 133_Q | 1.374 | 0.99 |
| 121_D | 124_Q | 1.369 | 0.99 |
| 259_R | 326_D | 1.367 | 0.99 |
| 331_V | 429_I | 1.357 | 0.99 |
| 296_D | 300_S | 1.347 | 0.99 |
| 226_V | 254_T | 1.339 | 0.99 |
| 285_T | 314_Y | 1.323 | 0.99 |
| 360_L | 433_Y | 1.319 | 0.99 |
| 175_R | 201_Q | 1.314 | 0.99 |
| 82_F | 85_T | 1.313 | 0.99 |
| 101_S | 121_D | 1.307 | 0.99 |
| 332_I | 336_L | 1.305 | 0.99 |
| 119_I | 124_Q | 1.303 | 0.99 |
| 314_Y | 353_M | 1.299 | 0.99 |
| 230_L | 251_L | 1.282 | 0.99 |
| 233_L | 243_A | 1.270 | 0.99 |
| 373_K | 420_E | 1.260 | 0.99 |
| 180_L | 188_I | 1.260 | 0.99 |
| 379_I | 417_A | 1.255 | 0.99 |
| 64_D | 69_S | 1.252 | 0.99 |
| 378_L | 381_D | 1.249 | 0.99 |
| 258_M | 262_T | 1.248 | 0.99 |
| 375_D | 378_L | 1.246 | 0.98 |
| 226_V | 250_S | 1.241 | 0.98 |
| 291_I | 336_L | 1.230 | 0.98 |
| 350_T | 367_Q | 1.229 | 0.98 |
| 295_F | 340_I | 1.224 | 0.98 |
| 337_N | 341_K | 1.223 | 0.98 |
| 229_Y | 249_V | 1.222 | 0.98 |
| 120_N | 123_A | 1.211 | 0.98 |
| 339_A | 349_V | 1.209 | 0.98 |
| 231_E | 251_L | 1.208 | 0.98 |
| 96_L | 99_I | 1.207 | 0.98 |
| 109_A | 118_V | 1.200 | 0.98 |
| 164_R | 202_E | 1.195 | 0.98 |
| 229_Y | 246_F | 1.193 | 0.98 |
| 416_W | 429_I | 1.181 | 0.98 |
| 176_I | 195_L | 1.181 | 0.98 |
| 110_T | 193_A | 1.180 | 0.98 |
| 369_L | 394_Q | 1.177 | 0.98 |
| 230_L | 254_T | 1.171 | 0.98 |
| 284_F | 362_L | 1.170 | 0.97 |
| 291_I | 329_T | 1.170 | 0.97 |
| 124_Q | 130_T | 1.169 | 0.97 |
| 86_H | 90_A | 1.169 | 0.97 |
| 288_M | 351_I | 1.164 | 0.97 |
| 119_I | 134_A | 1.161 | 0.97 |
| 299_Q | 340_I | 1.159 | 0.97 |
| 408_V | 431_L | 1.158 | 0.97 |
| 253_E | 256_R | 1.154 | 0.97 |
| 230_L | 234_D | 1.153 | 0.97 |
| 371_I | 376_L | 1.153 | 0.97 |
| 380_F | 417_A | 1.149 | 0.97 |
| 378_L | 384_Y | 1.146 | 0.97 |
| 249_V | 253_E | 1.138 | 0.97 |
| 244_P | 248_K | 1.137 | 0.97 |
| 330_Q | 407_I | 1.131 | 0.97 |
| 295_F | 336_L | 1.126 | 0.97 |
| 335_I | 404_A | 1.122 | 0.97 |
| 93_K | 96_L | 1.116 | 0.96 |
| 138_N | 141_D | 1.112 | 0.96 |
| 335_I | 364_I | 1.109 | 0.96 |
| 91_Q | 95_R | 1.102 | 0.96 |
| 230_L | 247_I | 1.097 | 0.96 |
| 115_K | 138_N | 1.095 | 0.96 |
| 413_G | 431_L | 1.095 | 0.96 |
| 336_L | 351_I | 1.087 | 0.96 |
| 109_A | 192_I | 1.082 | 0.96 |
| 298_I | 305_N | 1.080 | 0.95 |
| 109_A | 117_T | 1.078 | 0.95 |
| 106_G | 127_L | 1.078 | 0.95 |
| 299_Q | 349_V | 1.078 | 0.95 |
| 106_G | 123_A | 1.076 | 0.95 |
| 408_V | 415_I | 1.075 | 0.95 |
| 283_N | 318_S | 1.067 | 0.95 |
| 379_I | 427_F | 1.066 | 0.95 |
| 218_E | 222_P | 1.064 | 0.95 |
| 218_E | 221_T | 1.061 | 0.95 |
| 251_L | 255_N | 1.060 | 0.95 |
| 82_F | 86_H | 1.054 | 0.95 |
| 75_V | 78_L | 1.054 | 0.95 |
| 381_D | 384_Y | 1.049 | 0.94 |
| 233_L | 250_S | 1.047 | 0.94 |
| 129_V | 167_E | 1.041 | 0.94 |
| 88_N | 92_E | 1.040 | 0.94 |
| 179_A | 182_R | 1.038 | 0.94 |
| 327_K | 407_I | 1.036 | 0.94 |
| 392_R | 395_G | 1.029 | 0.94 |
| 281_L | 320_W | 1.029 | 0.94 |
| 198_A | 202_E | 1.028 | 0.94 |
| 285_T | 289_N | 1.027 | 0.94 |
| 233_L | 247_I | 1.025 | 0.93 |
| 218_E | 253_E | 1.024 | 0.93 |
| 83_R | 86_H | 1.024 | 0.93 |
| 124_Q | 134_A | 1.024 | 0.93 |
| 204_E | 207_E | 1.022 | 0.93 |
| 89_L | 93_K | 1.021 | 0.93 |
| 327_K | 410_Q | 1.021 | 0.93 |
| 110_T | 116_I | 1.020 | 0.93 |
| 288_M | 332_I | 1.020 | 0.93 |
| 417_A | 425_S | 1.017 | 0.93 |
| 283_N | 320_W | 1.015 | 0.93 |
| 266_S | 327_K | 1.011 | 0.93 |
| 416_W | 430_V | 1.009 | 0.93 |
| 382_R | 406_E | 1.007 | 0.93 |
| 328_M | 411_H | 1.006 | 0.93 |
| 59_K | 83_R | 1.003 | 0.93 |
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 | |
| 4i5sA | 2 | 0.8822 | 100 | 0.209 | Contact Map |
| 4gczA | 2 | 0.7644 | 100 | 0.439 | Contact Map |
| 3a0rA | 1 | 0.7111 | 100 | 0.439 | Contact Map |
| 2c2aA | 1 | 0.5067 | 100 | 0.564 | Contact Map |
| 1y8oA | 1 | 0.6978 | 100 | 0.592 | Contact Map |
| 3jz3A | 2 | 0.36 | 100 | 0.595 | Contact Map |
| 4ew8A | 2 | 0.5178 | 100 | 0.598 | Contact Map |
| 4mpcA | 1 | 0.6933 | 100 | 0.601 | Contact Map |
| 3d36A | 2 | 0.4911 | 100 | 0.602 | Contact Map |
| 2e0aA | 2 | 0.6889 | 100 | 0.607 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)