| C4H |
| ID: | 1415911590 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 505 (474) | ||
| Sequences: | 14211 (11041.8) | ||
| Seq/Len: | 29.981 | ||
| Nf(neff/√len): | 507.2 |
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: 29.981).
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 |
| 359_A | 422_F | 4.877 | 1.00 |
| 412_K | 415_E | 4.866 | 1.00 |
| 412_K | 417_R | 4.002 | 1.00 |
| 328_I | 356_Y | 3.754 | 1.00 |
| 318_G | 461_I | 3.743 | 1.00 |
| 334_N | 338_T | 3.671 | 1.00 |
| 330_S | 334_N | 3.510 | 1.00 |
| 318_G | 364_T | 3.508 | 1.00 |
| 332_L | 360_V | 3.450 | 1.00 |
| 332_L | 465_V | 3.194 | 1.00 |
| 382_D | 392_A | 3.139 | 1.00 |
| 333_R | 337_D | 3.021 | 1.00 |
| 464_M | 470_L | 3.016 | 1.00 |
| 321_E | 368_R | 2.936 | 1.00 |
| 331_K | 356_Y | 2.934 | 1.00 |
| 405_N | 414_E | 2.892 | 1.00 |
| 344_V | 350_D | 2.878 | 1.00 |
| 331_K | 419_E | 2.738 | 1.00 |
| 45_N | 48_Q | 2.720 | 1.00 |
| 384_K | 387_G | 2.639 | 1.00 |
| 382_D | 389_D | 2.615 | 1.00 |
| 358_Q | 458_G | 2.606 | 1.00 |
| 98_F | 383_A | 2.562 | 1.00 |
| 181_M | 460_T | 2.535 | 1.00 |
| 318_G | 322_L | 2.535 | 1.00 |
| 330_S | 469_E | 2.518 | 1.00 |
| 333_R | 469_E | 2.457 | 1.00 |
| 329_Q | 469_E | 2.448 | 1.00 |
| 407_P | 413_P | 2.423 | 1.00 |
| 40_I | 43_F | 2.351 | 1.00 |
| 356_Y | 419_E | 2.347 | 1.00 |
| 323_V | 329_Q | 2.326 | 1.00 |
| 43_F | 47_L | 2.317 | 1.00 |
| 81_V | 90_V | 2.309 | 1.00 |
| 332_L | 357_L | 2.287 | 1.00 |
| 41_P | 44_G | 2.267 | 1.00 |
| 384_K | 389_D | 2.262 | 1.00 |
| 361_V | 457_L | 2.244 | 1.00 |
| 360_V | 416_F | 2.217 | 1.00 |
| 39_P | 45_N | 2.202 | 1.00 |
| 262_K | 293_E | 2.193 | 1.00 |
| 178_L | 315_I | 2.185 | 1.00 |
| 314_S | 457_L | 2.164 | 1.00 |
| 379_N | 390_I | 2.157 | 1.00 |
| 330_S | 333_R | 2.156 | 1.00 |
| 336_L | 462_G | 2.156 | 1.00 |
| 259_D | 263_Q | 2.145 | 1.00 |
| 87_T | 403_L | 2.114 | 1.00 |
| 367_L | 405_N | 2.093 | 1.00 |
| 59_V | 63_K | 2.080 | 1.00 |
| 79_V | 394_S | 2.026 | 1.00 |
| 67_D | 83_S | 2.000 | 1.00 |
| 178_L | 319_I | 1.985 | 1.00 |
| 72_R | 77_N | 1.983 | 1.00 |
| 36_G | 45_N | 1.967 | 1.00 |
| 97_E | 381_H | 1.958 | 1.00 |
| 86_L | 386_A | 1.954 | 1.00 |
| 336_L | 354_L | 1.947 | 1.00 |
| 359_A | 419_E | 1.943 | 1.00 |
| 36_G | 65_F | 1.941 | 1.00 |
| 318_G | 360_V | 1.939 | 1.00 |
| 258_V | 261_R | 1.918 | 1.00 |
| 162_K | 467_N | 1.916 | 1.00 |
| 57_N | 60_D | 1.916 | 1.00 |
| 69_F | 80_V | 1.894 | 1.00 |
| 391_P | 394_S | 1.886 | 1.00 |
| 321_E | 367_L | 1.822 | 1.00 |
| 339_V | 354_L | 1.821 | 1.00 |
| 329_Q | 333_R | 1.815 | 1.00 |
| 292_N | 295_N | 1.798 | 1.00 |
| 68_L | 81_V | 1.795 | 1.00 |
| 362_K | 437_Y | 1.793 | 1.00 |
| 162_K | 468_F | 1.785 | 1.00 |
| 155_A | 463_R | 1.776 | 1.00 |
| 328_I | 360_V | 1.756 | 1.00 |
| 319_I | 464_M | 1.751 | 1.00 |
| 321_E | 325_H | 1.744 | 1.00 |
| 407_P | 414_E | 1.741 | 1.00 |
| 60_D | 63_K | 1.720 | 1.00 |
| 453_A | 457_L | 1.712 | 1.00 |
| 40_I | 47_L | 1.706 | 1.00 |
| 314_S | 370_A | 1.699 | 1.00 |
| 34_P | 79_V | 1.693 | 1.00 |
| 315_I | 460_T | 1.687 | 1.00 |
| 81_V | 87_T | 1.652 | 1.00 |
| 322_L | 328_I | 1.648 | 1.00 |
| 189_I | 452_L | 1.639 | 1.00 |
| 401_W | 405_N | 1.631 | 1.00 |
| 60_D | 64_K | 1.628 | 1.00 |
| 68_L | 86_L | 1.619 | 1.00 |
| 333_R | 465_V | 1.612 | 1.00 |
| 83_S | 86_L | 1.606 | 1.00 |
| 322_L | 332_L | 1.604 | 1.00 |
| 404_A | 439_P | 1.564 | 1.00 |
| 67_D | 408_N | 1.550 | 1.00 |
| 94_Q | 383_A | 1.546 | 1.00 |
| 360_V | 364_T | 1.546 | 1.00 |
| 70_L | 77_N | 1.543 | 1.00 |
| 335_E | 354_L | 1.511 | 1.00 |
| 154_A | 158_V | 1.507 | 1.00 |
| 378_M | 393_E | 1.492 | 1.00 |
| 85_D | 386_A | 1.482 | 1.00 |
| 181_M | 185_N | 1.474 | 1.00 |
| 291_I | 295_N | 1.461 | 1.00 |
| 299_I | 302_N | 1.426 | 1.00 |
| 358_Q | 362_K | 1.417 | 1.00 |
| 152_F | 188_R | 1.414 | 1.00 |
| 446_S | 450_I | 1.409 | 1.00 |
| 381_H | 392_A | 1.405 | 0.99 |
| 118_V | 448_P | 1.404 | 0.99 |
| 79_V | 390_I | 1.398 | 0.99 |
| 63_K | 407_P | 1.393 | 0.99 |
| 325_H | 328_I | 1.387 | 0.99 |
| 357_L | 360_V | 1.370 | 0.99 |
| 82_S | 399_N | 1.346 | 0.99 |
| 59_V | 402_W | 1.338 | 0.99 |
| 350_D | 353_K | 1.328 | 0.99 |
| 261_R | 277_C | 1.326 | 0.99 |
| 337_D | 466_Q | 1.312 | 0.99 |
| 319_I | 461_I | 1.310 | 0.99 |
| 128_K | 295_N | 1.299 | 0.99 |
| 433_N | 436_R | 1.285 | 0.99 |
| 174_L | 319_I | 1.271 | 0.99 |
| 363_E | 366_R | 1.266 | 0.99 |
| 186_M | 190_M | 1.260 | 0.99 |
| 240_K | 244_D | 1.253 | 0.99 |
| 37_P | 65_F | 1.243 | 0.98 |
| 193_R | 260_E | 1.243 | 0.98 |
| 35_P | 388_Y | 1.234 | 0.98 |
| 318_G | 361_V | 1.233 | 0.98 |
| 322_L | 461_I | 1.230 | 0.98 |
| 276_K | 280_D | 1.224 | 0.98 |
| 315_I | 457_L | 1.221 | 0.98 |
| 327_E | 331_K | 1.219 | 0.98 |
| 351_L | 458_G | 1.218 | 0.98 |
| 332_L | 336_L | 1.213 | 0.98 |
| 356_Y | 360_V | 1.212 | 0.98 |
| 318_G | 416_F | 1.211 | 0.98 |
| 400_A | 438_V | 1.204 | 0.98 |
| 157_V | 181_M | 1.201 | 0.98 |
| 187_F | 195_F | 1.199 | 0.98 |
| 319_I | 470_L | 1.195 | 0.98 |
| 322_L | 465_V | 1.194 | 0.98 |
| 254_K | 297_L | 1.192 | 0.98 |
| 365_L | 437_Y | 1.187 | 0.98 |
| 347_T | 350_D | 1.186 | 0.98 |
| 314_S | 364_T | 1.185 | 0.98 |
| 147_R | 151_E | 1.182 | 0.98 |
| 404_A | 437_Y | 1.179 | 0.98 |
| 320_A | 324_N | 1.177 | 0.98 |
| 57_N | 61_Y | 1.173 | 0.98 |
| 412_K | 420_R | 1.172 | 0.98 |
| 319_I | 465_V | 1.171 | 0.98 |
| 153_E | 188_R | 1.163 | 0.97 |
| 124_E | 128_K | 1.161 | 0.97 |
| 326_P | 330_S | 1.160 | 0.97 |
| 100_S | 121_V | 1.156 | 0.97 |
| 123_G | 126_W | 1.149 | 0.97 |
| 152_F | 194_R | 1.148 | 0.97 |
| 357_L | 458_G | 1.140 | 0.97 |
| 160_D | 163_K | 1.140 | 0.97 |
| 328_I | 419_E | 1.140 | 0.97 |
| 322_L | 329_Q | 1.136 | 0.97 |
| 61_Y | 69_F | 1.135 | 0.97 |
| 379_N | 393_E | 1.134 | 0.97 |
| 390_I | 396_I | 1.134 | 0.97 |
| 330_S | 337_D | 1.128 | 0.97 |
| 336_L | 357_L | 1.124 | 0.97 |
| 379_N | 382_D | 1.122 | 0.97 |
| 94_Q | 97_E | 1.117 | 0.96 |
| 153_E | 194_R | 1.116 | 0.96 |
| 277_C | 283_L | 1.116 | 0.96 |
| 154_A | 181_M | 1.112 | 0.96 |
| 259_D | 262_K | 1.110 | 0.96 |
| 331_K | 334_N | 1.108 | 0.96 |
| 247_D | 251_A | 1.101 | 0.96 |
| 81_V | 86_L | 1.100 | 0.96 |
| 261_R | 264_I | 1.099 | 0.96 |
| 321_E | 324_N | 1.097 | 0.96 |
| 124_E | 127_R | 1.096 | 0.96 |
| 138_F | 143_V | 1.095 | 0.96 |
| 157_V | 161_V | 1.095 | 0.96 |
| 151_E | 463_R | 1.088 | 0.96 |
| 365_L | 457_L | 1.085 | 0.96 |
| 336_L | 466_Q | 1.084 | 0.96 |
| 441_G | 446_S | 1.081 | 0.95 |
| 355_P | 359_A | 1.078 | 0.95 |
| 126_W | 130_R | 1.075 | 0.95 |
| 38_I | 45_N | 1.075 | 0.95 |
| 258_V | 262_K | 1.072 | 0.95 |
| 186_M | 307_A | 1.071 | 0.95 |
| 85_D | 408_N | 1.067 | 0.95 |
| 186_M | 456_I | 1.067 | 0.95 |
| 173_V | 176_K | 1.060 | 0.95 |
| 362_K | 454_L | 1.060 | 0.95 |
| 89_E | 94_Q | 1.051 | 0.94 |
| 409_S | 436_R | 1.048 | 0.94 |
| 365_L | 439_P | 1.047 | 0.94 |
| 153_E | 156_S | 1.046 | 0.94 |
| 158_V | 463_R | 1.045 | 0.94 |
| 280_D | 284_E | 1.043 | 0.94 |
| 142_V | 145_Q | 1.040 | 0.94 |
| 351_L | 358_Q | 1.040 | 0.94 |
| 100_S | 380_L | 1.038 | 0.94 |
| 37_P | 45_N | 1.038 | 0.94 |
| 259_D | 293_E | 1.035 | 0.94 |
| 340_L | 346_V | 1.033 | 0.94 |
| 86_L | 89_E | 1.026 | 0.94 |
| 310_T | 456_I | 1.026 | 0.94 |
| 450_I | 454_L | 1.023 | 0.93 |
| 328_I | 417_R | 1.023 | 0.93 |
| 154_A | 463_R | 1.022 | 0.93 |
| 315_I | 319_I | 1.021 | 0.93 |
| 133_M | 448_P | 1.018 | 0.93 |
| 374_L | 400_A | 1.018 | 0.93 |
| 407_P | 411_K | 1.014 | 0.93 |
| 306_A | 310_T | 1.010 | 0.93 |
| 410_W | 421_F | 1.009 | 0.93 |
| 322_L | 325_H | 1.008 | 0.93 |
| 411_K | 417_R | 1.001 | 0.92 |
| 34_P | 388_Y | 1.000 | 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 | |
| 3swzA | 4 | 0.897 | 100 | 0.257 | Contact Map |
| 3tbgA | 4 | 0.905 | 100 | 0.261 | Contact Map |
| 3pm0A | 1 | 0.8634 | 100 | 0.265 | Contact Map |
| 3nxuA | 2 | 0.897 | 100 | 0.268 | Contact Map |
| 2hi4A | 1 | 0.9129 | 100 | 0.269 | Contact Map |
| 3czhA | 2 | 0.899 | 100 | 0.274 | Contact Map |
| 1r9oA | 1 | 0.8832 | 100 | 0.274 | Contact Map |
| 3e6iA | 2 | 0.897 | 100 | 0.278 | Contact Map |
| 1po5A | 1 | 0.903 | 100 | 0.281 | Contact Map |
| 3k9vA | 2 | 0.899 | 100 | 0.282 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)