| Trial Subtilisin |
| ID: | 1515622456 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 383 (349) | ||
| Sequences: | 9324 (6660) | ||
| Seq/Len: | 26.716 | ||
| Nf(neff/√len): | 356.5 |
HHblits Results: (2016_02)
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: 26.716).
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 |
| 102_D | 213_S | 3.183 | 1.00 |
| 136_V | 180_I | 3.128 | 1.00 |
| 287_N | 295_N | 3.121 | 1.00 |
| 317_V | 323_T | 3.061 | 1.00 |
| 204_L | 210_G | 3.060 | 1.00 |
| 338_A | 378_V | 3.021 | 1.00 |
| 286_A | 307_S | 2.916 | 1.00 |
| 130_K | 195_S | 2.782 | 1.00 |
| 231_N | 332_S | 2.629 | 1.00 |
| 295_N | 311_T | 2.581 | 1.00 |
| 175_H | 330_M | 2.575 | 1.00 |
| 317_V | 325_Y | 2.554 | 1.00 |
| 169_F | 206_R | 2.545 | 1.00 |
| 297_S | 311_T | 2.521 | 1.00 |
| 132_A | 195_S | 2.465 | 1.00 |
| 338_A | 376_I | 2.406 | 1.00 |
| 178_G | 315_S | 2.366 | 1.00 |
| 176_V | 231_N | 2.359 | 1.00 |
| 363_T | 377_N | 2.344 | 1.00 |
| 201_V | 218_G | 2.313 | 1.00 |
| 248_D | 281_S | 2.225 | 1.00 |
| 42_S | 102_D | 2.170 | 1.00 |
| 178_G | 316_T | 2.161 | 1.00 |
| 175_H | 315_S | 2.134 | 1.00 |
| 292_N | 375_L | 2.102 | 1.00 |
| 138_V | 180_I | 2.082 | 1.00 |
| 168_D | 171_S | 2.081 | 1.00 |
| 260_A | 332_S | 2.071 | 1.00 |
| 256_V | 339_A | 2.065 | 1.00 |
| 135_K | 197_S | 2.049 | 1.00 |
| 241_T | 245_N | 2.048 | 1.00 |
| 287_N | 297_S | 2.046 | 1.00 |
| 289_N | 311_T | 2.037 | 1.00 |
| 135_K | 199_Y | 2.021 | 1.00 |
| 332_S | 336_A | 2.008 | 1.00 |
| 277_A | 284_A | 2.007 | 1.00 |
| 350_S | 353_Q | 1.993 | 1.00 |
| 179_T | 334_H | 1.984 | 1.00 |
| 182_A | 316_T | 1.983 | 1.00 |
| 139_L | 203_V | 1.963 | 1.00 |
| 361_T | 381_A | 1.900 | 1.00 |
| 219_I | 250_A | 1.873 | 1.00 |
| 256_V | 283_I | 1.851 | 1.00 |
| 223_V | 250_A | 1.847 | 1.00 |
| 181_A | 198_L | 1.812 | 1.00 |
| 258_V | 332_S | 1.779 | 1.00 |
| 83_S | 86_A | 1.757 | 1.00 |
| 105_A | 212_Y | 1.741 | 1.00 |
| 48_K | 97_A | 1.712 | 1.00 |
| 356_Q | 360_N | 1.710 | 1.00 |
| 179_T | 330_M | 1.707 | 1.00 |
| 355_R | 359_E | 1.702 | 1.00 |
| 181_A | 196_A | 1.699 | 1.00 |
| 137_A | 222_A | 1.699 | 1.00 |
| 287_N | 311_T | 1.692 | 1.00 |
| 118_Q | 292_N | 1.691 | 1.00 |
| 46_G | 97_A | 1.688 | 1.00 |
| 201_V | 221_W | 1.685 | 1.00 |
| 143_I | 198_L | 1.662 | 1.00 |
| 138_V | 176_V | 1.626 | 1.00 |
| 115_G | 334_H | 1.623 | 1.00 |
| 306_V | 358_L | 1.602 | 1.00 |
| 250_A | 257_V | 1.594 | 1.00 |
| 346_Y | 349_L | 1.587 | 1.00 |
| 211_Q | 214_W | 1.585 | 1.00 |
| 46_G | 98_Y | 1.583 | 1.00 |
| 339_A | 354_V | 1.582 | 1.00 |
| 289_N | 293_V | 1.577 | 1.00 |
| 286_A | 304_L | 1.559 | 1.00 |
| 129_Y | 344_S | 1.557 | 1.00 |
| 223_V | 255_V | 1.557 | 1.00 |
| 244_K | 278_K | 1.548 | 1.00 |
| 306_V | 376_I | 1.546 | 1.00 |
| 248_D | 252_N | 1.542 | 1.00 |
| 136_V | 196_A | 1.533 | 1.00 |
| 346_Y | 357_R | 1.533 | 1.00 |
| 314_L | 324_S | 1.530 | 1.00 |
| 108_Y | 260_A | 1.510 | 1.00 |
| 265_G | 294_R | 1.507 | 1.00 |
| 100_E | 242_A | 1.503 | 1.00 |
| 137_A | 227_M | 1.488 | 1.00 |
| 216_I | 246_A | 1.483 | 1.00 |
| 228_D | 343_L | 1.481 | 1.00 |
| 192_V | 337_G | 1.472 | 1.00 |
| 287_N | 310_G | 1.470 | 1.00 |
| 294_R | 307_S | 1.469 | 1.00 |
| 231_N | 336_A | 1.468 | 1.00 |
| 134_V | 343_L | 1.467 | 1.00 |
| 153_A | 197_S | 1.461 | 1.00 |
| 70_K | 217_S | 1.450 | 1.00 |
| 136_V | 340_A | 1.445 | 1.00 |
| 325_Y | 330_M | 1.442 | 1.00 |
| 144_H | 318_P | 1.435 | 1.00 |
| 343_L | 354_V | 1.418 | 1.00 |
| 244_K | 248_D | 1.410 | 1.00 |
| 258_V | 339_A | 1.406 | 0.99 |
| 120_K | 377_N | 1.405 | 0.99 |
| 203_V | 234_L | 1.379 | 0.99 |
| 256_V | 354_V | 1.375 | 0.99 |
| 249_T | 252_N | 1.375 | 0.99 |
| 248_D | 280_D | 1.374 | 0.99 |
| 349_L | 357_R | 1.352 | 0.99 |
| 199_Y | 227_M | 1.345 | 0.99 |
| 272_T | 303_E | 1.342 | 0.99 |
| 215_I | 234_L | 1.341 | 0.99 |
| 294_R | 298_S | 1.335 | 0.99 |
| 134_V | 340_A | 1.327 | 0.99 |
| 342_I | 349_L | 1.326 | 0.99 |
| 221_W | 225_N | 1.325 | 0.99 |
| 130_K | 344_S | 1.324 | 0.99 |
| 260_A | 331_A | 1.314 | 0.99 |
| 216_I | 242_A | 1.313 | 0.99 |
| 377_N | 380_A | 1.311 | 0.99 |
| 229_V | 336_A | 1.306 | 0.99 |
| 175_H | 325_Y | 1.306 | 0.99 |
| 176_V | 333_P | 1.298 | 0.99 |
| 177_A | 200_A | 1.280 | 0.99 |
| 258_V | 335_V | 1.275 | 0.99 |
| 203_V | 218_G | 1.274 | 0.99 |
| 175_H | 179_T | 1.269 | 0.99 |
| 335_V | 376_I | 1.265 | 0.99 |
| 288_V | 307_S | 1.252 | 0.99 |
| 87_A | 91_E | 1.230 | 0.98 |
| 258_V | 336_A | 1.216 | 0.98 |
| 339_A | 358_L | 1.195 | 0.98 |
| 364_P | 368_S | 1.194 | 0.98 |
| 139_L | 218_G | 1.190 | 0.98 |
| 248_D | 279_Y | 1.186 | 0.98 |
| 342_I | 381_A | 1.184 | 0.98 |
| 100_E | 240_S | 1.178 | 0.98 |
| 220_E | 224_A | 1.171 | 0.98 |
| 230_I | 257_V | 1.170 | 0.97 |
| 264_S | 274_G | 1.169 | 0.97 |
| 315_S | 330_M | 1.168 | 0.97 |
| 153_A | 199_Y | 1.159 | 0.97 |
| 309_P | 313_I | 1.156 | 0.97 |
| 286_A | 298_S | 1.156 | 0.97 |
| 193_A | 340_A | 1.154 | 0.97 |
| 42_S | 81_K | 1.148 | 0.97 |
| 264_S | 299_S | 1.145 | 0.97 |
| 297_S | 326_T | 1.144 | 0.97 |
| 247_V | 282_T | 1.140 | 0.97 |
| 283_I | 355_R | 1.134 | 0.97 |
| 174_T | 316_T | 1.114 | 0.96 |
| 338_A | 358_L | 1.113 | 0.96 |
| 119_I | 192_V | 1.111 | 0.96 |
| 219_I | 232_M | 1.098 | 0.96 |
| 359_E | 373_K | 1.095 | 0.96 |
| 294_R | 300_A | 1.091 | 0.96 |
| 141_T | 170_Q | 1.090 | 0.96 |
| 305_D | 359_E | 1.088 | 0.96 |
| 379_Q | 383_N | 1.088 | 0.96 |
| 107_A | 204_L | 1.086 | 0.96 |
| 285_V | 306_V | 1.085 | 0.96 |
| 223_V | 253_R | 1.079 | 0.95 |
| 103_H | 212_Y | 1.078 | 0.95 |
| 47_F | 78_A | 1.077 | 0.95 |
| 149_D | 316_T | 1.075 | 0.95 |
| 311_T | 326_T | 1.073 | 0.95 |
| 261_A | 284_A | 1.065 | 0.95 |
| 256_V | 351_T | 1.064 | 0.95 |
| 143_I | 177_A | 1.059 | 0.95 |
| 96_I | 99_V | 1.059 | 0.95 |
| 220_E | 249_T | 1.059 | 0.95 |
| 177_A | 198_L | 1.057 | 0.95 |
| 219_I | 230_I | 1.055 | 0.95 |
| 61_V | 66_G | 1.052 | 0.95 |
| 157_S | 160_P | 1.052 | 0.95 |
| 357_R | 361_T | 1.051 | 0.94 |
| 154_G | 199_Y | 1.049 | 0.94 |
| 145_A | 152_V | 1.048 | 0.94 |
| 300_A | 370_Y | 1.048 | 0.94 |
| 127_Q | 379_Q | 1.048 | 0.94 |
| 259_A | 282_T | 1.047 | 0.94 |
| 285_V | 335_V | 1.035 | 0.94 |
| 365_L | 375_L | 1.026 | 0.94 |
| 339_A | 342_I | 1.023 | 0.93 |
| 230_I | 250_A | 1.021 | 0.93 |
| 145_A | 167_Q | 1.019 | 0.93 |
| 279_Y | 282_T | 1.018 | 0.93 |
| 288_V | 292_N | 1.015 | 0.93 |
| 69_E | 81_K | 1.014 | 0.93 |
| 148_P | 320_S | 1.013 | 0.93 |
| 233_S | 333_P | 1.012 | 0.93 |
| 157_S | 202_K | 1.011 | 0.93 |
| 219_I | 257_V | 1.002 | 0.92 |
| 143_I | 200_A | 1.002 | 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 | |
| 3whiA | 2 | 0.9008 | 100 | 0.173 | Contact Map |
| 3wiuA | 3 | 0.8747 | 100 | 0.24 | Contact Map |
| 1r6vA | 1 | 0.953 | 100 | 0.247 | Contact Map |
| 3afgA | 2 | 0.9452 | 100 | 0.248 | Contact Map |
| 3t41A | 2 | 0.8825 | 100 | 0.256 | Contact Map |
| 2p4eP | 2 | 0.8616 | 100 | 0.269 | Contact Map |
| 4tr2A | 2 | 0.8982 | 100 | 0.29 | Contact Map |
| 1to2E | 1 | 0.718 | 100 | 0.296 | Contact Map |
| 1r0rE | 1 | 0.7154 | 100 | 0.303 | Contact Map |
| 1gciA | 1 | 0.7023 | 100 | 0.307 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)