| T0817 |
| ID: | 1402604606 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 525 (485) | ||
| Sequences: | 8971 (6820.8) | ||
| Seq/Len: | 18.497 | ||
| Nf(neff/√len): | 309.7 |
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: 18.497).
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 |
| 195_I | 205_E | 4.271 | 1.00 |
| 291_Q | 348_K | 4.082 | 1.00 |
| 144_D | 147_H | 4.027 | 1.00 |
| 303_A | 307_K | 3.937 | 1.00 |
| 143_V | 149_T | 3.607 | 1.00 |
| 141_E | 149_T | 3.582 | 1.00 |
| 341_A | 344_A | 3.579 | 1.00 |
| 466_A | 470_Q | 3.501 | 1.00 |
| 451_T | 485_N | 3.490 | 1.00 |
| 100_E | 146_Y | 3.172 | 1.00 |
| 193_V | 205_E | 3.165 | 1.00 |
| 116_K | 120_E | 3.125 | 1.00 |
| 116_K | 142_V | 3.114 | 1.00 |
| 301_D | 304_A | 3.095 | 1.00 |
| 296_V | 389_M | 3.072 | 1.00 |
| 458_P | 462_A | 3.055 | 1.00 |
| 113_A | 142_V | 2.927 | 1.00 |
| 84_D | 97_T | 2.822 | 1.00 |
| 298_I | 341_A | 2.789 | 1.00 |
| 110_F | 189_T | 2.771 | 1.00 |
| 86_K | 97_T | 2.701 | 1.00 |
| 455_N | 458_P | 2.693 | 1.00 |
| 72_G | 76_Q | 2.677 | 1.00 |
| 284_A | 288_K | 2.659 | 1.00 |
| 344_A | 348_K | 2.659 | 1.00 |
| 69_V | 85_W | 2.607 | 1.00 |
| 291_Q | 345_L | 2.583 | 1.00 |
| 453_P | 481_W | 2.520 | 1.00 |
| 453_P | 485_N | 2.516 | 1.00 |
| 290_P | 294_K | 2.471 | 1.00 |
| 102_V | 110_F | 2.460 | 1.00 |
| 88_E | 92_K | 2.458 | 1.00 |
| 291_Q | 294_K | 2.457 | 1.00 |
| 470_Q | 473_P | 2.410 | 1.00 |
| 390_K | 395_D | 2.396 | 1.00 |
| 111_D | 114_A | 2.351 | 1.00 |
| 455_N | 477_K | 2.342 | 1.00 |
| 115_C | 148_I | 2.329 | 1.00 |
| 119_L | 150_V | 2.308 | 1.00 |
| 193_V | 208_D | 2.300 | 1.00 |
| 105_Q | 207_Y | 2.285 | 1.00 |
| 50_D | 121_R | 2.262 | 1.00 |
| 93_T | 151_H | 2.240 | 1.00 |
| 439_S | 452_D | 2.238 | 1.00 |
| 192_W | 217_Y | 2.236 | 1.00 |
| 439_S | 457_D | 2.226 | 1.00 |
| 83_T | 100_E | 2.196 | 1.00 |
| 103_K | 109_K | 2.154 | 1.00 |
| 93_T | 149_T | 2.126 | 1.00 |
| 87_I | 94_L | 2.119 | 1.00 |
| 365_T | 397_V | 2.112 | 1.00 |
| 141_E | 151_H | 2.090 | 1.00 |
| 72_G | 78_E | 2.077 | 1.00 |
| 97_T | 147_H | 2.076 | 1.00 |
| 462_A | 474_T | 2.035 | 1.00 |
| 95_H | 149_T | 2.023 | 1.00 |
| 279_F | 489_A | 1.988 | 1.00 |
| 363_P | 395_D | 1.986 | 1.00 |
| 294_K | 341_A | 1.985 | 1.00 |
| 138_Q | 153_K | 1.976 | 1.00 |
| 37_T | 219_R | 1.965 | 1.00 |
| 283_R | 416_D | 1.957 | 1.00 |
| 473_P | 477_K | 1.929 | 1.00 |
| 456_L | 478_V | 1.925 | 1.00 |
| 37_T | 221_E | 1.923 | 1.00 |
| 103_K | 209_G | 1.921 | 1.00 |
| 279_F | 417_L | 1.921 | 1.00 |
| 203_V | 219_R | 1.907 | 1.00 |
| 365_T | 395_D | 1.903 | 1.00 |
| 66_E | 80_C | 1.900 | 1.00 |
| 317_A | 493_Y | 1.884 | 1.00 |
| 101_G | 109_K | 1.879 | 1.00 |
| 85_W | 96_L | 1.869 | 1.00 |
| 234_A | 239_E | 1.864 | 1.00 |
| 463_A | 474_T | 1.859 | 1.00 |
| 463_A | 475_I | 1.850 | 1.00 |
| 102_V | 189_T | 1.833 | 1.00 |
| 459_L | 477_K | 1.830 | 1.00 |
| 113_A | 116_K | 1.815 | 1.00 |
| 480_D | 484_D | 1.808 | 1.00 |
| 113_A | 145_D | 1.794 | 1.00 |
| 386_Q | 390_K | 1.794 | 1.00 |
| 41_A | 240_I | 1.785 | 1.00 |
| 296_V | 394_I | 1.762 | 1.00 |
| 338_D | 341_A | 1.737 | 1.00 |
| 69_V | 96_L | 1.736 | 1.00 |
| 428_D | 471_I | 1.730 | 1.00 |
| 287_L | 296_V | 1.730 | 1.00 |
| 477_K | 480_D | 1.694 | 1.00 |
| 347_E | 357_R | 1.682 | 1.00 |
| 196_S | 201_Q | 1.681 | 1.00 |
| 297_S | 486_D | 1.681 | 1.00 |
| 292_V | 349_A | 1.675 | 1.00 |
| 196_S | 203_V | 1.671 | 1.00 |
| 83_T | 97_T | 1.668 | 1.00 |
| 343_S | 347_E | 1.668 | 1.00 |
| 300_I | 385_I | 1.666 | 1.00 |
| 462_A | 470_Q | 1.663 | 1.00 |
| 206_H | 218_E | 1.632 | 1.00 |
| 225_I | 234_A | 1.625 | 1.00 |
| 88_E | 95_H | 1.618 | 1.00 |
| 236_R | 258_Q | 1.610 | 1.00 |
| 195_I | 219_R | 1.609 | 1.00 |
| 474_T | 477_K | 1.606 | 1.00 |
| 292_V | 346_L | 1.606 | 1.00 |
| 112_A | 142_V | 1.603 | 1.00 |
| 283_R | 286_P | 1.590 | 1.00 |
| 367_E | 399_R | 1.584 | 1.00 |
| 106_D | 173_S | 1.568 | 1.00 |
| 459_L | 474_T | 1.566 | 1.00 |
| 290_P | 485_N | 1.562 | 1.00 |
| 205_E | 219_R | 1.560 | 1.00 |
| 105_Q | 193_V | 1.557 | 1.00 |
| 39_R | 221_E | 1.552 | 1.00 |
| 452_D | 457_D | 1.545 | 1.00 |
| 114_A | 174_P | 1.540 | 1.00 |
| 345_L | 348_K | 1.534 | 1.00 |
| 88_E | 93_T | 1.504 | 1.00 |
| 409_D | 414_K | 1.493 | 1.00 |
| 113_A | 174_P | 1.469 | 1.00 |
| 83_T | 99_R | 1.464 | 1.00 |
| 299_G | 392_V | 1.462 | 1.00 |
| 340_A | 343_S | 1.450 | 1.00 |
| 470_Q | 474_T | 1.449 | 1.00 |
| 109_K | 146_Y | 1.442 | 1.00 |
| 108_T | 175_K | 1.438 | 1.00 |
| 111_D | 145_D | 1.435 | 1.00 |
| 66_E | 189_T | 1.428 | 1.00 |
| 505_Q | 522_V | 1.428 | 1.00 |
| 36_G | 218_E | 1.427 | 1.00 |
| 173_S | 176_S | 1.416 | 1.00 |
| 143_V | 147_H | 1.408 | 1.00 |
| 150_V | 159_L | 1.408 | 1.00 |
| 454_V | 458_P | 1.407 | 0.99 |
| 112_A | 143_V | 1.407 | 0.99 |
| 81_L | 189_T | 1.406 | 0.99 |
| 105_Q | 194_Q | 1.400 | 0.99 |
| 95_H | 147_H | 1.396 | 0.99 |
| 455_N | 481_W | 1.395 | 0.99 |
| 139_S | 151_H | 1.386 | 0.99 |
| 206_H | 215_P | 1.385 | 0.99 |
| 466_A | 474_T | 1.383 | 0.99 |
| 99_R | 102_V | 1.381 | 0.99 |
| 306_S | 316_P | 1.380 | 0.99 |
| 402_D | 405_S | 1.374 | 0.99 |
| 35_A | 218_E | 1.372 | 0.99 |
| 481_W | 485_N | 1.371 | 0.99 |
| 473_P | 476_Q | 1.371 | 0.99 |
| 94_L | 159_L | 1.366 | 0.99 |
| 257_K | 260_E | 1.349 | 0.99 |
| 282_D | 450_V | 1.342 | 0.99 |
| 367_E | 397_V | 1.336 | 0.99 |
| 103_K | 207_Y | 1.334 | 0.99 |
| 66_E | 211_W | 1.333 | 0.99 |
| 97_T | 146_Y | 1.331 | 0.99 |
| 303_A | 316_P | 1.329 | 0.99 |
| 216_T | 522_V | 1.327 | 0.99 |
| 265_N | 502_K | 1.321 | 0.99 |
| 201_Q | 221_E | 1.320 | 0.99 |
| 287_L | 366_L | 1.313 | 0.99 |
| 294_K | 345_L | 1.311 | 0.99 |
| 294_K | 486_D | 1.311 | 0.99 |
| 230_S | 234_A | 1.307 | 0.99 |
| 142_V | 145_D | 1.302 | 0.99 |
| 290_P | 484_D | 1.293 | 0.99 |
| 234_A | 240_I | 1.286 | 0.99 |
| 472_E | 476_Q | 1.282 | 0.99 |
| 451_T | 456_L | 1.276 | 0.99 |
| 408_T | 412_E | 1.274 | 0.99 |
| 241_D | 501_S | 1.268 | 0.99 |
| 505_Q | 524_A | 1.264 | 0.99 |
| 108_T | 173_S | 1.258 | 0.99 |
| 459_L | 481_W | 1.257 | 0.99 |
| 39_R | 223_K | 1.255 | 0.99 |
| 104_F | 114_A | 1.252 | 0.99 |
| 310_Y | 314_A | 1.251 | 0.99 |
| 388_E | 391_E | 1.238 | 0.98 |
| 351_W | 359_K | 1.236 | 0.98 |
| 379_R | 383_E | 1.228 | 0.98 |
| 97_T | 100_E | 1.225 | 0.98 |
| 235_L | 499_A | 1.223 | 0.98 |
| 204_F | 222_A | 1.218 | 0.98 |
| 371_S | 398_I | 1.217 | 0.98 |
| 205_E | 208_D | 1.210 | 0.98 |
| 298_I | 335_P | 1.209 | 0.98 |
| 299_G | 389_M | 1.202 | 0.98 |
| 203_V | 221_E | 1.191 | 0.98 |
| 45_P | 197_A | 1.188 | 0.98 |
| 279_F | 296_V | 1.182 | 0.98 |
| 97_T | 144_D | 1.176 | 0.98 |
| 323_A | 493_Y | 1.175 | 0.98 |
| 105_Q | 209_G | 1.174 | 0.98 |
| 116_K | 140_L | 1.173 | 0.98 |
| 114_A | 118_N | 1.172 | 0.98 |
| 384_V | 388_E | 1.167 | 0.97 |
| 320_M | 490_P | 1.166 | 0.97 |
| 344_A | 347_E | 1.163 | 0.97 |
| 38_L | 504_V | 1.162 | 0.97 |
| 41_A | 231_R | 1.162 | 0.97 |
| 399_R | 409_D | 1.161 | 0.97 |
| 241_D | 503_R | 1.155 | 0.97 |
| 283_R | 288_K | 1.146 | 0.97 |
| 306_S | 314_A | 1.139 | 0.97 |
| 455_N | 459_L | 1.137 | 0.97 |
| 339_A | 392_V | 1.133 | 0.97 |
| 79_P | 85_W | 1.128 | 0.97 |
| 174_P | 178_D | 1.128 | 0.97 |
| 265_N | 500_H | 1.122 | 0.97 |
| 88_E | 91_G | 1.121 | 0.97 |
| 413_Q | 450_V | 1.116 | 0.96 |
| 297_S | 302_R | 1.112 | 0.96 |
| 83_T | 146_Y | 1.110 | 0.96 |
| 403_H | 407_H | 1.095 | 0.96 |
| 462_A | 477_K | 1.095 | 0.96 |
| 116_K | 148_I | 1.095 | 0.96 |
| 140_L | 148_I | 1.086 | 0.96 |
| 86_K | 95_H | 1.086 | 0.96 |
| 115_C | 171_F | 1.077 | 0.95 |
| 67_P | 80_C | 1.076 | 0.95 |
| 138_Q | 151_H | 1.071 | 0.95 |
| 99_R | 211_W | 1.071 | 0.95 |
| 114_A | 117_W | 1.071 | 0.95 |
| 389_M | 396_L | 1.068 | 0.95 |
| 305_I | 381_I | 1.059 | 0.95 |
| 459_L | 462_A | 1.056 | 0.95 |
| 39_R | 241_D | 1.056 | 0.95 |
| 95_H | 143_V | 1.051 | 0.94 |
| 386_Q | 398_I | 1.047 | 0.94 |
| 462_A | 466_A | 1.047 | 0.94 |
| 291_Q | 349_A | 1.047 | 0.94 |
| 438_L | 461_N | 1.043 | 0.94 |
| 195_I | 203_V | 1.038 | 0.94 |
| 96_L | 150_V | 1.032 | 0.94 |
| 264_F | 499_A | 1.031 | 0.94 |
| 304_A | 388_E | 1.027 | 0.94 |
| 70_K | 78_E | 1.025 | 0.93 |
| 120_E | 142_V | 1.024 | 0.93 |
| 154_E | 465_A | 1.021 | 0.93 |
| 152_F | 159_L | 1.021 | 0.93 |
| 438_L | 457_D | 1.020 | 0.93 |
| 206_H | 214_K | 1.018 | 0.93 |
| 225_I | 240_I | 1.003 | 0.93 |
| 451_T | 487_A | 1.001 | 0.92 |
| 96_L | 160_M | 1.001 | 0.92 |
| 109_K | 145_D | 1.001 | 0.92 |
| 278_A | 418_G | 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 | |
| 1xocA | 1 | 0.9181 | 100 | 0.191 | Contact Map |
| 4fajA | 1 | 0.8914 | 100 | 0.194 | Contact Map |
| 3t66A | 1 | 0.8914 | 100 | 0.202 | Contact Map |
| 2wolA | 1 | 0.9486 | 100 | 0.206 | Contact Map |
| 2nooA | 1 | 0.9105 | 100 | 0.206 | Contact Map |
| 3m8uA | 1 | 0.899 | 100 | 0.212 | Contact Map |
| 3tpaA | 1 | 0.8971 | 100 | 0.213 | Contact Map |
| 4gl8A | 2 | 0.8895 | 100 | 0.214 | Contact Map |
| 1dpeA | 1 | 0.901 | 100 | 0.215 | Contact Map |
| 2grvA | 3 | 0.9048 | 100 | 0.218 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)