| Csa1G044890 |
| ID: | 1434063346 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 474 (464) | ||
| Sequences: | 39256 (30242.1) | ||
| Seq/Len: | 84.603 | ||
| Nf(neff/√len): | 1404.0 |
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: 84.603).
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 |
| 392_D | 395_T | 3.992 | 1.00 |
| 340_N | 402_K | 3.602 | 1.00 |
| 392_D | 397_N | 3.461 | 1.00 |
| 295_I | 437_L | 2.900 | 1.00 |
| 244_L | 270_E | 2.899 | 1.00 |
| 295_I | 345_T | 2.889 | 1.00 |
| 308_E | 399_W | 2.832 | 1.00 |
| 291_T | 433_L | 2.766 | 1.00 |
| 445_R | 471_T | 2.758 | 1.00 |
| 371_P | 374_W | 2.740 | 1.00 |
| 305_V | 337_F | 2.720 | 1.00 |
| 307_K | 311_A | 2.701 | 1.00 |
| 362_E | 372_E | 2.696 | 1.00 |
| 364_Q | 369_T | 2.634 | 1.00 |
| 298_F | 349_G | 2.608 | 1.00 |
| 156_R | 439_I | 2.552 | 1.00 |
| 385_R | 394_D | 2.503 | 1.00 |
| 311_A | 315_A | 2.494 | 1.00 |
| 62_Q | 66_K | 2.462 | 1.00 |
| 447_R | 471_T | 2.449 | 1.00 |
| 309_L | 341_V | 2.397 | 1.00 |
| 243_R | 253_D | 2.394 | 1.00 |
| 339_L | 434_C | 2.372 | 1.00 |
| 86_D | 89_F | 2.369 | 1.00 |
| 362_E | 369_T | 2.299 | 1.00 |
| 447_R | 469_N | 2.286 | 1.00 |
| 306_V | 310_E | 2.245 | 1.00 |
| 359_T | 370_I | 2.233 | 1.00 |
| 241_E | 270_E | 2.217 | 1.00 |
| 163_S | 443_K | 2.161 | 1.00 |
| 73_K | 80_P | 2.140 | 1.00 |
| 364_Q | 367_G | 2.130 | 1.00 |
| 237_K | 274_I | 2.092 | 1.00 |
| 163_S | 444_Y | 2.076 | 1.00 |
| 177_M | 436_F | 2.054 | 1.00 |
| 39_L | 42_I | 2.025 | 1.00 |
| 325_G | 331_E | 2.021 | 1.00 |
| 310_E | 314_E | 1.998 | 1.00 |
| 84_S | 93_I | 1.980 | 1.00 |
| 237_K | 241_E | 1.967 | 1.00 |
| 302_H | 305_V | 1.956 | 1.00 |
| 307_K | 445_R | 1.942 | 1.00 |
| 71_I | 84_S | 1.938 | 1.00 |
| 82_V | 374_W | 1.925 | 1.00 |
| 100_A | 361_K | 1.924 | 1.00 |
| 306_V | 445_R | 1.891 | 1.00 |
| 60_F | 63_R | 1.887 | 1.00 |
| 298_F | 348_L | 1.876 | 1.00 |
| 310_E | 445_R | 1.876 | 1.00 |
| 440_L | 446_W | 1.864 | 1.00 |
| 101_V | 363_I | 1.854 | 1.00 |
| 241_E | 245_A | 1.834 | 1.00 |
| 309_L | 441_F | 1.828 | 1.00 |
| 56_D | 59_P | 1.815 | 1.00 |
| 242_E | 246_K | 1.803 | 1.00 |
| 174_A | 296_L | 1.797 | 1.00 |
| 308_E | 337_F | 1.791 | 1.00 |
| 89_F | 366_K | 1.783 | 1.00 |
| 295_I | 299_L | 1.777 | 1.00 |
| 295_I | 341_V | 1.769 | 1.00 |
| 342_I | 433_L | 1.741 | 1.00 |
| 63_R | 67_R | 1.727 | 1.00 |
| 237_K | 270_E | 1.724 | 1.00 |
| 309_L | 338_T | 1.717 | 1.00 |
| 152_E | 439_I | 1.706 | 1.00 |
| 163_S | 472_P | 1.698 | 1.00 |
| 269_S | 272_F | 1.694 | 1.00 |
| 75_C | 80_P | 1.676 | 1.00 |
| 130_I | 276_L | 1.674 | 1.00 |
| 42_I | 46_I | 1.672 | 1.00 |
| 238_D | 242_E | 1.672 | 1.00 |
| 153_E | 184_V | 1.671 | 1.00 |
| 422_H | 426_A | 1.669 | 1.00 |
| 90_N | 383_R | 1.650 | 1.00 |
| 44_E | 47_Q | 1.646 | 1.00 |
| 298_F | 302_H | 1.633 | 1.00 |
| 227_K | 231_Q | 1.612 | 1.00 |
| 292_L | 436_F | 1.608 | 1.00 |
| 307_K | 310_E | 1.607 | 1.00 |
| 345_T | 396_F | 1.603 | 1.00 |
| 381_A | 385_R | 1.593 | 1.00 |
| 70_P | 86_D | 1.584 | 1.00 |
| 387_P | 393_P | 1.582 | 1.00 |
| 91_H | 95_L | 1.556 | 1.00 |
| 214_P | 218_P | 1.538 | 1.00 |
| 202_K | 231_Q | 1.524 | 1.00 |
| 174_A | 292_L | 1.522 | 1.00 |
| 154_S | 157_E | 1.504 | 1.00 |
| 387_P | 394_D | 1.498 | 1.00 |
| 60_F | 64_K | 1.498 | 1.00 |
| 340_N | 399_W | 1.477 | 1.00 |
| 230_K | 234_K | 1.475 | 1.00 |
| 234_K | 238_D | 1.475 | 1.00 |
| 328_T | 331_E | 1.471 | 1.00 |
| 88_E | 366_K | 1.468 | 1.00 |
| 35_G | 68_Y | 1.465 | 1.00 |
| 348_L | 385_R | 1.462 | 1.00 |
| 201_K | 205_G | 1.457 | 1.00 |
| 341_V | 396_F | 1.455 | 1.00 |
| 343_C | 430_K | 1.452 | 1.00 |
| 198_G | 202_K | 1.448 | 1.00 |
| 154_S | 184_V | 1.443 | 1.00 |
| 296_L | 440_L | 1.441 | 1.00 |
| 253_D | 256_G | 1.438 | 1.00 |
| 167_S | 449_L | 1.433 | 1.00 |
| 63_R | 66_K | 1.425 | 1.00 |
| 346_L | 415_P | 1.410 | 1.00 |
| 362_E | 371_P | 1.408 | 1.00 |
| 241_E | 244_L | 1.400 | 0.99 |
| 339_L | 343_C | 1.396 | 0.99 |
| 305_V | 341_V | 1.386 | 0.99 |
| 256_G | 260_K | 1.386 | 0.99 |
| 169_E | 172_E | 1.371 | 0.99 |
| 152_E | 156_R | 1.363 | 0.99 |
| 341_V | 345_T | 1.350 | 0.99 |
| 297_N | 301_D | 1.349 | 0.99 |
| 291_T | 351_V | 1.346 | 0.99 |
| 84_S | 89_F | 1.330 | 0.99 |
| 313_H | 438_H | 1.327 | 0.99 |
| 300_A | 306_V | 1.322 | 0.99 |
| 446_W | 470_F | 1.321 | 0.99 |
| 314_E | 442_T | 1.320 | 0.99 |
| 125_L | 128_K | 1.319 | 0.99 |
| 162_W | 173_S | 1.317 | 0.99 |
| 384_H | 415_P | 1.316 | 0.99 |
| 305_V | 308_E | 1.313 | 0.99 |
| 337_F | 399_W | 1.311 | 0.99 |
| 98_G | 361_K | 1.296 | 0.99 |
| 70_P | 388_E | 1.294 | 0.99 |
| 242_E | 245_A | 1.289 | 0.99 |
| 72_F | 83_V | 1.284 | 0.99 |
| 361_K | 372_E | 1.284 | 0.99 |
| 223_H | 227_K | 1.277 | 0.99 |
| 39_L | 46_I | 1.274 | 0.99 |
| 171_K | 293_T | 1.270 | 0.99 |
| 205_G | 224_K | 1.268 | 0.99 |
| 358_K | 373_G | 1.267 | 0.99 |
| 90_N | 378_L | 1.267 | 0.99 |
| 310_E | 441_F | 1.264 | 0.99 |
| 215_L | 218_P | 1.258 | 0.99 |
| 308_E | 311_A | 1.257 | 0.99 |
| 99_R | 361_K | 1.252 | 0.99 |
| 439_I | 442_T | 1.246 | 0.98 |
| 343_C | 413_F | 1.246 | 0.98 |
| 167_S | 467_Y | 1.239 | 0.98 |
| 150_R | 153_E | 1.237 | 0.98 |
| 38_G | 44_E | 1.234 | 0.98 |
| 239_I | 242_E | 1.227 | 0.98 |
| 125_L | 129_Y | 1.226 | 0.98 |
| 66_K | 387_P | 1.225 | 0.98 |
| 33_P | 82_V | 1.216 | 0.98 |
| 155_A | 159_L | 1.212 | 0.98 |
| 205_G | 209_G | 1.205 | 0.98 |
| 185_K | 428_Y | 1.201 | 0.98 |
| 298_F | 345_T | 1.198 | 0.98 |
| 316_I | 335_M | 1.197 | 0.98 |
| 156_R | 160_H | 1.193 | 0.98 |
| 387_P | 391_K | 1.193 | 0.98 |
| 167_S | 469_N | 1.191 | 0.98 |
| 161_Y | 173_S | 1.189 | 0.98 |
| 177_M | 181_T | 1.186 | 0.98 |
| 159_L | 444_Y | 1.184 | 0.98 |
| 306_V | 441_F | 1.176 | 0.98 |
| 159_L | 439_I | 1.173 | 0.98 |
| 198_G | 231_Q | 1.170 | 0.97 |
| 142_S | 146_R | 1.169 | 0.97 |
| 100_A | 363_I | 1.166 | 0.97 |
| 299_L | 305_V | 1.163 | 0.97 |
| 391_K | 397_N | 1.149 | 0.97 |
| 85_T | 379_V | 1.143 | 0.97 |
| 182_S | 284_S | 1.134 | 0.97 |
| 199_L | 203_F | 1.129 | 0.97 |
| 160_H | 443_K | 1.126 | 0.97 |
| 384_H | 413_F | 1.125 | 0.97 |
| 299_L | 309_L | 1.123 | 0.97 |
| 189_E | 242_E | 1.120 | 0.96 |
| 82_V | 370_I | 1.110 | 0.96 |
| 155_A | 177_M | 1.108 | 0.96 |
| 160_H | 163_S | 1.106 | 0.96 |
| 184_V | 190_D | 1.104 | 0.96 |
| 35_G | 44_E | 1.100 | 0.96 |
| 300_A | 448_K | 1.099 | 0.96 |
| 129_Y | 272_F | 1.099 | 0.96 |
| 205_G | 228_D | 1.098 | 0.96 |
| 312_E | 335_M | 1.096 | 0.96 |
| 313_H | 338_T | 1.090 | 0.96 |
| 313_H | 335_M | 1.088 | 0.96 |
| 62_Q | 394_D | 1.086 | 0.96 |
| 19_W | 23_W | 1.086 | 0.96 |
| 305_V | 399_W | 1.084 | 0.96 |
| 429_S | 433_L | 1.080 | 0.95 |
| 243_R | 256_G | 1.069 | 0.95 |
| 229_M | 233_Q | 1.067 | 0.95 |
| 16_Y | 20_V | 1.067 | 0.95 |
| 156_R | 326_P | 1.065 | 0.95 |
| 233_Q | 237_K | 1.063 | 0.95 |
| 183_I | 191_S | 1.060 | 0.95 |
| 296_L | 468_V | 1.059 | 0.95 |
| 192_S | 195_L | 1.057 | 0.95 |
| 455_A | 458_H | 1.055 | 0.95 |
| 40_P | 46_I | 1.054 | 0.95 |
| 449_L | 469_N | 1.054 | 0.95 |
| 148_L | 152_E | 1.051 | 0.94 |
| 214_P | 222_Y | 1.050 | 0.94 |
| 298_F | 301_D | 1.047 | 0.94 |
| 198_G | 201_K | 1.045 | 0.94 |
| 233_Q | 274_I | 1.044 | 0.94 |
| 88_E | 388_E | 1.044 | 0.94 |
| 40_P | 43_G | 1.042 | 0.94 |
| 302_H | 395_T | 1.042 | 0.94 |
| 358_K | 375_T | 1.040 | 0.94 |
| 122_A | 126_I | 1.037 | 0.94 |
| 18_H | 22_K | 1.037 | 0.94 |
| 153_E | 157_E | 1.033 | 0.94 |
| 300_A | 446_W | 1.032 | 0.94 |
| 157_E | 160_H | 1.028 | 0.94 |
| 359_T | 374_W | 1.026 | 0.94 |
| 331_E | 334_S | 1.025 | 0.93 |
| 62_Q | 382_S | 1.025 | 0.93 |
| 71_I | 89_F | 1.024 | 0.93 |
| 162_W | 470_F | 1.021 | 0.93 |
| 455_A | 463_E | 1.012 | 0.93 |
| 84_S | 90_N | 1.009 | 0.93 |
| 155_A | 435_T | 1.007 | 0.93 |
| 271_E | 275_Q | 1.005 | 0.93 |
| 389_V | 412_N | 1.005 | 0.93 |
| 110_S | 115_L | 1.005 | 0.93 |
| 294_L | 349_G | 1.005 | 0.93 |
| 268_I | 272_F | 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 | |
| 4lxjA | 1 | 0.9789 | 100 | 0.162 | Contact Map |
| 2ve3A | 2 | 0.9072 | 100 | 0.181 | Contact Map |
| 3k9vA | 2 | 0.9241 | 100 | 0.182 | Contact Map |
| 3nxuA | 2 | 0.9114 | 100 | 0.188 | Contact Map |
| 3qz1A | 4 | 0.8945 | 100 | 0.191 | Contact Map |
| 2hi4A | 1 | 0.9219 | 100 | 0.193 | Contact Map |
| 4r21A | 2 | 0.8481 | 100 | 0.194 | Contact Map |
| 3tbgA | 4 | 0.9093 | 100 | 0.196 | Contact Map |
| 3pm0A | 1 | 0.8755 | 100 | 0.198 | Contact Map |
| 1po5A | 1 | 0.9135 | 100 | 0.2 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)