| Csa6M088160 |
| ID: | 1434063406 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 508 (495) | ||
| Sequences: | 34582 (26912.6) | ||
| Seq/Len: | 69.863 | ||
| Nf(neff/√len): | 1209.6 |
Jackhmmer Results: (2015_01_07)
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: 69.863).
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 |
| 414_D | 417_S | 3.915 | 1.00 |
| 361_Y | 424_E | 3.888 | 1.00 |
| 414_D | 419_K | 3.574 | 1.00 |
| 469_D | 499_K | 2.995 | 1.00 |
| 265_R | 295_D | 2.964 | 1.00 |
| 320_A | 461_L | 2.948 | 1.00 |
| 330_V | 358_Y | 2.894 | 1.00 |
| 320_A | 366_T | 2.830 | 1.00 |
| 323_N | 370_Y | 2.826 | 1.00 |
| 471_K | 499_K | 2.772 | 1.00 |
| 332_K | 336_A | 2.695 | 1.00 |
| 336_A | 340_S | 2.692 | 1.00 |
| 407_R | 416_T | 2.671 | 1.00 |
| 333_K | 421_E | 2.638 | 1.00 |
| 386_R | 391_D | 2.622 | 1.00 |
| 384_D | 394_R | 2.602 | 1.00 |
| 384_D | 391_D | 2.589 | 1.00 |
| 316_T | 457_M | 2.543 | 1.00 |
| 100_F | 385_C | 2.542 | 1.00 |
| 334_A | 362_I | 2.497 | 1.00 |
| 360_R | 458_G | 2.474 | 1.00 |
| 99_I | 383_A | 2.461 | 1.00 |
| 61_Q | 65_Q | 2.439 | 1.00 |
| 471_K | 497_L | 2.393 | 1.00 |
| 393_P | 396_T | 2.356 | 1.00 |
| 183_L | 460_M | 2.311 | 1.00 |
| 157_R | 463_T | 2.304 | 1.00 |
| 43_I | 46_I | 2.263 | 1.00 |
| 335_R | 339_E | 2.217 | 1.00 |
| 264_H | 277_C | 2.190 | 1.00 |
| 258_Q | 299_K | 2.186 | 1.00 |
| 164_Y | 467_C | 2.161 | 1.00 |
| 72_S | 79_S | 2.159 | 1.00 |
| 180_V | 321_M | 2.147 | 1.00 |
| 262_D | 295_D | 2.136 | 1.00 |
| 258_Q | 262_D | 2.127 | 1.00 |
| 335_R | 469_D | 2.124 | 1.00 |
| 332_K | 469_D | 2.086 | 1.00 |
| 381_S | 392_I | 2.070 | 1.00 |
| 334_A | 465_I | 2.056 | 1.00 |
| 331_L | 335_R | 2.026 | 1.00 |
| 346_K | 352_D | 2.018 | 1.00 |
| 70_V | 83_V | 1.999 | 1.00 |
| 59_T | 62_T | 1.964 | 1.00 |
| 331_L | 469_D | 1.945 | 1.00 |
| 164_Y | 500_A | 1.917 | 1.00 |
| 320_A | 362_I | 1.894 | 1.00 |
| 464_L | 470_W | 1.889 | 1.00 |
| 69_P | 85_S | 1.885 | 1.00 |
| 333_K | 358_Y | 1.880 | 1.00 |
| 55_P | 58_R | 1.854 | 1.00 |
| 334_A | 359_L | 1.853 | 1.00 |
| 363_I | 457_M | 1.821 | 1.00 |
| 320_A | 324_L | 1.802 | 1.00 |
| 323_N | 369_L | 1.801 | 1.00 |
| 262_D | 266_R | 1.801 | 1.00 |
| 386_R | 389_G | 1.789 | 1.00 |
| 154_D | 190_R | 1.784 | 1.00 |
| 83_V | 92_C | 1.770 | 1.00 |
| 74_R | 79_S | 1.748 | 1.00 |
| 85_S | 88_A | 1.736 | 1.00 |
| 403_W | 407_R | 1.729 | 1.00 |
| 88_A | 388_S | 1.722 | 1.00 |
| 131_L | 301_L | 1.720 | 1.00 |
| 259_G | 263_E | 1.720 | 1.00 |
| 180_V | 317_I | 1.720 | 1.00 |
| 323_N | 327_H | 1.718 | 1.00 |
| 327_H | 330_V | 1.713 | 1.00 |
| 446_A | 450_T | 1.710 | 1.00 |
| 46_I | 50_H | 1.709 | 1.00 |
| 210_T | 252_R | 1.702 | 1.00 |
| 48_H | 51_L | 1.686 | 1.00 |
| 164_Y | 468_F | 1.682 | 1.00 |
| 349_E | 352_D | 1.652 | 1.00 |
| 361_Y | 421_E | 1.647 | 1.00 |
| 409_P | 416_T | 1.644 | 1.00 |
| 81_V | 396_T | 1.644 | 1.00 |
| 155_E | 190_R | 1.640 | 1.00 |
| 59_T | 63_L | 1.635 | 1.00 |
| 62_T | 66_K | 1.613 | 1.00 |
| 258_Q | 295_D | 1.609 | 1.00 |
| 213_A | 217_E | 1.609 | 1.00 |
| 294_T | 297_I | 1.605 | 1.00 |
| 332_K | 335_R | 1.601 | 1.00 |
| 317_I | 460_M | 1.591 | 1.00 |
| 255_A | 259_G | 1.574 | 1.00 |
| 248_K | 252_R | 1.571 | 1.00 |
| 409_P | 415_P | 1.570 | 1.00 |
| 87_E | 388_S | 1.567 | 1.00 |
| 360_R | 364_L | 1.567 | 1.00 |
| 369_L | 407_R | 1.561 | 1.00 |
| 362_I | 418_F | 1.549 | 1.00 |
| 39_S | 67_Y | 1.545 | 1.00 |
| 24_I | 28_L | 1.542 | 1.00 |
| 25_K | 29_K | 1.529 | 1.00 |
| 153_R | 463_T | 1.513 | 1.00 |
| 362_I | 366_T | 1.501 | 1.00 |
| 155_E | 158_R | 1.499 | 1.00 |
| 89_A | 405_I | 1.496 | 1.00 |
| 321_M | 464_L | 1.487 | 1.00 |
| 338_I | 462_G | 1.478 | 1.00 |
| 251_T | 255_A | 1.474 | 1.00 |
| 262_D | 265_R | 1.465 | 1.00 |
| 263_E | 267_G | 1.456 | 1.00 |
| 62_T | 65_Q | 1.451 | 1.00 |
| 330_V | 362_I | 1.442 | 1.00 |
| 69_P | 410_V | 1.437 | 1.00 |
| 380_K | 395_D | 1.411 | 1.00 |
| 481_N | 491_A | 1.410 | 1.00 |
| 173_K | 495_E | 1.408 | 1.00 |
| 335_R | 465_I | 1.406 | 0.99 |
| 173_K | 473_I | 1.379 | 0.99 |
| 266_R | 270_S | 1.362 | 0.99 |
| 325_L | 331_L | 1.349 | 0.99 |
| 163_I | 179_L | 1.348 | 0.99 |
| 470_W | 498_C | 1.346 | 0.99 |
| 280_A | 284_K | 1.336 | 0.99 |
| 406_H | 439_A | 1.332 | 0.99 |
| 90_E | 94_I | 1.329 | 0.99 |
| 188_T | 309_G | 1.328 | 0.99 |
| 175_E | 178_P | 1.327 | 0.99 |
| 384_D | 393_P | 1.326 | 0.99 |
| 44_P | 47_G | 1.318 | 0.99 |
| 358_Y | 421_E | 1.313 | 0.99 |
| 126_D | 130_K | 1.310 | 0.99 |
| 277_C | 280_A | 1.308 | 0.99 |
| 71_L | 82_V | 1.296 | 0.99 |
| 191_M | 452_M | 1.295 | 0.99 |
| 126_D | 129_R | 1.293 | 0.99 |
| 263_E | 266_R | 1.290 | 0.99 |
| 153_R | 157_R | 1.286 | 0.99 |
| 110_H | 115_N | 1.279 | 0.99 |
| 260_L | 263_E | 1.277 | 0.99 |
| 207_E | 211_F | 1.275 | 0.99 |
| 43_I | 50_H | 1.271 | 0.99 |
| 156_V | 183_L | 1.271 | 0.99 |
| 83_V | 88_A | 1.270 | 0.99 |
| 341_Q | 356_L | 1.267 | 0.99 |
| 383_A | 394_R | 1.265 | 0.99 |
| 316_T | 372_A | 1.253 | 0.99 |
| 37_P | 81_V | 1.249 | 0.99 |
| 195_K | 263_E | 1.248 | 0.99 |
| 323_N | 366_T | 1.247 | 0.99 |
| 61_Q | 404_A | 1.245 | 0.98 |
| 157_R | 161_K | 1.244 | 0.98 |
| 217_E | 245_R | 1.239 | 0.98 |
| 241_G | 245_R | 1.239 | 0.98 |
| 339_E | 466_Q | 1.238 | 0.98 |
| 364_L | 437_M | 1.238 | 0.98 |
| 207_E | 210_T | 1.237 | 0.98 |
| 254_D | 258_Q | 1.237 | 0.98 |
| 244_K | 248_K | 1.230 | 0.98 |
| 162_K | 166_V | 1.228 | 0.98 |
| 65_Q | 409_P | 1.227 | 0.98 |
| 156_V | 160_M | 1.223 | 0.98 |
| 337_E | 356_L | 1.222 | 0.98 |
| 250_I | 254_D | 1.221 | 0.98 |
| 198_F | 201_E | 1.220 | 0.98 |
| 364_L | 454_N | 1.218 | 0.98 |
| 324_L | 334_A | 1.216 | 0.98 |
| 427_N | 430_G | 1.216 | 0.98 |
| 157_R | 347_L | 1.213 | 0.98 |
| 413_E | 419_K | 1.212 | 0.98 |
| 409_P | 413_E | 1.211 | 0.98 |
| 333_K | 336_A | 1.203 | 0.98 |
| 324_L | 330_V | 1.190 | 0.98 |
| 321_M | 496_A | 1.187 | 0.98 |
| 160_M | 463_T | 1.185 | 0.98 |
| 173_K | 497_L | 1.178 | 0.98 |
| 96_N | 385_C | 1.172 | 0.98 |
| 190_R | 196_R | 1.171 | 0.98 |
| 27_L | 30_F | 1.169 | 0.97 |
| 161_K | 164_Y | 1.165 | 0.97 |
| 101_A | 382_S | 1.163 | 0.97 |
| 330_V | 421_E | 1.161 | 0.97 |
| 212_Q | 216_H | 1.155 | 0.97 |
| 338_I | 359_L | 1.155 | 0.97 |
| 233_I | 238_D | 1.154 | 0.97 |
| 158_R | 161_K | 1.154 | 0.97 |
| 254_D | 299_K | 1.151 | 0.97 |
| 366_T | 418_F | 1.145 | 0.97 |
| 322_S | 326_N | 1.140 | 0.97 |
| 338_I | 356_L | 1.140 | 0.97 |
| 102_N | 382_S | 1.139 | 0.97 |
| 89_A | 400_V | 1.134 | 0.97 |
| 162_K | 179_L | 1.134 | 0.97 |
| 42_S | 48_H | 1.132 | 0.97 |
| 213_A | 216_H | 1.131 | 0.97 |
| 406_H | 437_M | 1.130 | 0.97 |
| 463_T | 466_Q | 1.122 | 0.97 |
| 473_I | 497_L | 1.113 | 0.96 |
| 144_R | 147_A | 1.113 | 0.96 |
| 217_E | 221_F | 1.112 | 0.96 |
| 81_V | 392_I | 1.110 | 0.96 |
| 453_A | 457_M | 1.110 | 0.96 |
| 185_M | 310_S | 1.104 | 0.96 |
| 367_L | 439_A | 1.096 | 0.96 |
| 21_L | 25_K | 1.093 | 0.96 |
| 352_D | 355_K | 1.092 | 0.96 |
| 155_E | 186_N | 1.089 | 0.96 |
| 98_I | 383_A | 1.084 | 0.96 |
| 25_K | 28_L | 1.084 | 0.96 |
| 211_F | 215_V | 1.084 | 0.96 |
| 189_M | 197_Y | 1.083 | 0.96 |
| 335_R | 501_R | 1.082 | 0.96 |
| 183_L | 187_V | 1.077 | 0.95 |
| 91_E | 388_S | 1.076 | 0.95 |
| 39_S | 48_H | 1.074 | 0.95 |
| 160_M | 467_C | 1.068 | 0.95 |
| 96_N | 99_I | 1.068 | 0.95 |
| 156_V | 459_L | 1.059 | 0.95 |
| 325_L | 470_W | 1.058 | 0.95 |
| 339_E | 501_R | 1.057 | 0.95 |
| 70_V | 88_A | 1.056 | 0.95 |
| 329_S | 333_K | 1.052 | 0.95 |
| 433_N | 436_L | 1.052 | 0.95 |
| 353_L | 458_G | 1.052 | 0.95 |
| 119_L | 123_P | 1.051 | 0.94 |
| 177_K | 318_E | 1.051 | 0.94 |
| 159_A | 183_L | 1.048 | 0.94 |
| 285_L | 288_T | 1.044 | 0.94 |
| 216_H | 220_E | 1.043 | 0.94 |
| 22_A | 26_Y | 1.042 | 0.94 |
| 151_I | 190_R | 1.042 | 0.94 |
| 334_A | 358_Y | 1.041 | 0.94 |
| 163_I | 498_C | 1.040 | 0.94 |
| 208_A | 211_F | 1.040 | 0.94 |
| 84_T | 401_N | 1.040 | 0.94 |
| 450_T | 454_N | 1.032 | 0.94 |
| 254_D | 296_D | 1.027 | 0.94 |
| 162_K | 165_E | 1.024 | 0.93 |
| 143_S | 146_N | 1.015 | 0.93 |
| 329_S | 332_K | 1.013 | 0.93 |
| 156_V | 463_T | 1.010 | 0.93 |
| 123_P | 127_H | 1.008 | 0.93 |
| 26_Y | 30_F | 1.007 | 0.93 |
| 320_A | 363_I | 1.006 | 0.93 |
| 155_E | 196_R | 1.006 | 0.93 |
| 317_I | 457_M | 1.006 | 0.93 |
| 160_M | 468_F | 1.005 | 0.93 |
| 357_N | 361_Y | 1.004 | 0.93 |
| 161_K | 165_E | 1.003 | 0.93 |
| 380_K | 397_M | 1.003 | 0.93 |
| 99_I | 385_C | 1.001 | 0.92 |
| 264_H | 280_A | 1.000 | 0.92 |
| 46_I | 49_L | 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 | |
| 4lxjA | 1 | 0.9587 | 100 | 0.189 | Contact Map |
| 4r21A | 2 | 0.8248 | 100 | 0.195 | Contact Map |
| 2hi4A | 1 | 0.9134 | 100 | 0.196 | Contact Map |
| 3pm0A | 1 | 0.876 | 100 | 0.196 | Contact Map |
| 3tbgA | 4 | 0.8957 | 100 | 0.2 | Contact Map |
| 3nxuA | 2 | 0.8957 | 100 | 0.203 | Contact Map |
| 3e6iA | 2 | 0.8878 | 100 | 0.206 | Contact Map |
| 1r9oA | 1 | 0.874 | 100 | 0.207 | Contact Map |
| 1po5A | 1 | 0.8937 | 100 | 0.208 | Contact Map |
| 2fdvA | 4 | 0.8976 | 100 | 0.212 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)