| cbm48-active site |
| ID: | 1493556913 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 476 (472) | ||
| Sequences: | 7180 (3770.7) | ||
| Seq/Len: | 15.212 | ||
| Nf(neff/√len): | 173.6 |
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: 15.212).
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 |
| 159_D | 227_D | 5.203 | 1.00 |
| 223_S | 226_Q | 3.970 | 1.00 |
| 283_Q | 317_K | 3.604 | 1.00 |
| 162_K | 227_D | 3.302 | 1.00 |
| 40_M | 50_A | 3.150 | 1.00 |
| 169_V | 224_L | 3.095 | 1.00 |
| 218_K | 296_E | 3.031 | 1.00 |
| 102_W | 298_H | 2.878 | 1.00 |
| 237_Y | 289_S | 2.711 | 1.00 |
| 223_S | 227_D | 2.692 | 1.00 |
| 284_K | 288_D | 2.660 | 1.00 |
| 127_S | 156_T | 2.648 | 1.00 |
| 292_F | 297_Y | 2.630 | 1.00 |
| 217_F | 221_V | 2.544 | 1.00 |
| 416_T | 463_E | 2.539 | 1.00 |
| 121_M | 126_F | 2.489 | 1.00 |
| 171_L | 174_V | 2.468 | 1.00 |
| 217_F | 220_M | 2.435 | 1.00 |
| 291_K | 321_Q | 2.406 | 1.00 |
| 9_A | 51_T | 2.391 | 1.00 |
| 141_L | 219_E | 2.326 | 1.00 |
| 225_H | 300_D | 2.324 | 1.00 |
| 213_R | 216_E | 2.308 | 1.00 |
| 158_V | 227_D | 2.228 | 1.00 |
| 215_K | 218_K | 2.200 | 1.00 |
| 219_E | 223_S | 2.189 | 1.00 |
| 171_L | 220_M | 2.175 | 1.00 |
| 220_M | 224_L | 2.142 | 1.00 |
| 23_N | 64_E | 2.125 | 1.00 |
| 217_F | 299_V | 2.115 | 1.00 |
| 294_V | 329_I | 2.097 | 1.00 |
| 198_N | 289_S | 2.089 | 1.00 |
| 64_E | 73_T | 2.077 | 1.00 |
| 12_F | 63_Y | 2.062 | 1.00 |
| 319_A | 323_H | 2.037 | 1.00 |
| 116_E | 168_H | 2.034 | 1.00 |
| 13_K | 49_E | 2.008 | 1.00 |
| 141_L | 216_E | 1.999 | 1.00 |
| 22_V | 65_V | 1.988 | 1.00 |
| 143_L | 220_M | 1.975 | 1.00 |
| 103_E | 222_L | 1.970 | 1.00 |
| 292_F | 296_E | 1.967 | 1.00 |
| 242_A | 263_G | 1.960 | 1.00 |
| 100_A | 222_L | 1.959 | 1.00 |
| 79_A | 89_G | 1.945 | 1.00 |
| 290_L | 318_A | 1.929 | 1.00 |
| 21_Q | 39_P | 1.920 | 1.00 |
| 216_E | 219_E | 1.919 | 1.00 |
| 155_K | 223_S | 1.903 | 1.00 |
| 62_M | 73_T | 1.866 | 1.00 |
| 14_V | 251_I | 1.854 | 1.00 |
| 322_L | 329_I | 1.839 | 1.00 |
| 121_M | 169_V | 1.813 | 1.00 |
| 323_H | 354_Q | 1.796 | 1.00 |
| 60_Y | 83_A | 1.790 | 1.00 |
| 222_L | 226_Q | 1.784 | 1.00 |
| 161_L | 169_V | 1.781 | 1.00 |
| 275_I | 282_V | 1.780 | 1.00 |
| 25_L | 64_E | 1.774 | 1.00 |
| 154_V | 171_L | 1.762 | 1.00 |
| 105_D | 298_H | 1.754 | 1.00 |
| 25_L | 73_T | 1.730 | 1.00 |
| 174_V | 217_F | 1.724 | 1.00 |
| 144_T | 216_E | 1.719 | 1.00 |
| 158_V | 224_L | 1.712 | 1.00 |
| 60_Y | 90_M | 1.710 | 1.00 |
| 14_V | 65_V | 1.705 | 1.00 |
| 321_Q | 324_A | 1.702 | 1.00 |
| 75_V | 82_I | 1.701 | 1.00 |
| 144_T | 219_E | 1.697 | 1.00 |
| 65_V | 251_I | 1.695 | 1.00 |
| 176_A | 201_E | 1.691 | 1.00 |
| 214_I | 297_Y | 1.691 | 1.00 |
| 168_H | 230_G | 1.679 | 1.00 |
| 396_G | 453_S | 1.675 | 1.00 |
| 3_N | 10_T | 1.672 | 1.00 |
| 123_V | 143_L | 1.662 | 1.00 |
| 414_Y | 417_S | 1.658 | 1.00 |
| 291_K | 295_N | 1.657 | 1.00 |
| 191_G | 209_N | 1.654 | 1.00 |
| 161_L | 166_I | 1.649 | 1.00 |
| 206_T | 216_E | 1.632 | 1.00 |
| 82_I | 196_N | 1.624 | 1.00 |
| 38_V | 50_A | 1.620 | 1.00 |
| 118_I | 412_I | 1.617 | 1.00 |
| 121_M | 161_L | 1.612 | 1.00 |
| 294_V | 322_L | 1.610 | 1.00 |
| 295_N | 325_I | 1.608 | 1.00 |
| 447_Q | 459_M | 1.602 | 1.00 |
| 176_A | 202_G | 1.591 | 1.00 |
| 116_E | 330_A | 1.584 | 1.00 |
| 232_N | 332_Y | 1.568 | 1.00 |
| 81_A | 92_V | 1.562 | 1.00 |
| 11_T | 51_T | 1.559 | 1.00 |
| 121_M | 461_G | 1.554 | 1.00 |
| 281_M | 284_K | 1.547 | 1.00 |
| 174_V | 233_M | 1.546 | 1.00 |
| 161_L | 229_I | 1.536 | 1.00 |
| 116_E | 167_T | 1.528 | 1.00 |
| 175_F | 289_S | 1.525 | 1.00 |
| 157_G | 160_S | 1.515 | 1.00 |
| 200_P | 293_W | 1.514 | 1.00 |
| 200_P | 217_F | 1.514 | 1.00 |
| 287_I | 318_A | 1.508 | 1.00 |
| 397_V | 401_I | 1.507 | 1.00 |
| 103_E | 226_Q | 1.498 | 1.00 |
| 320_T | 346_D | 1.495 | 1.00 |
| 79_A | 82_I | 1.491 | 1.00 |
| 434_D | 438_D | 1.489 | 1.00 |
| 14_V | 22_V | 1.489 | 1.00 |
| 126_F | 157_G | 1.489 | 1.00 |
| 56_L | 59_W | 1.477 | 1.00 |
| 224_L | 229_I | 1.473 | 1.00 |
| 37_T | 64_E | 1.471 | 1.00 |
| 21_Q | 66_T | 1.459 | 1.00 |
| 23_N | 39_P | 1.457 | 1.00 |
| 168_H | 232_N | 1.452 | 1.00 |
| 10_T | 91_I | 1.446 | 1.00 |
| 13_K | 47_V | 1.443 | 1.00 |
| 290_L | 302_F | 1.438 | 1.00 |
| 260_D | 264_N | 1.428 | 1.00 |
| 276_A | 279_R | 1.427 | 1.00 |
| 11_T | 49_E | 1.422 | 1.00 |
| 374_V | 446_A | 1.420 | 1.00 |
| 23_N | 66_T | 1.414 | 1.00 |
| 20_T | 66_T | 1.412 | 1.00 |
| 67_G | 72_R | 1.411 | 1.00 |
| 447_Q | 463_E | 1.409 | 1.00 |
| 443_D | 466_L | 1.404 | 0.99 |
| 26_L | 59_W | 1.398 | 0.99 |
| 118_I | 232_N | 1.397 | 0.99 |
| 317_K | 321_Q | 1.396 | 0.99 |
| 12_F | 24_V | 1.379 | 0.99 |
| 83_A | 86_G | 1.368 | 0.99 |
| 80_T | 94_L | 1.365 | 0.99 |
| 159_D | 162_K | 1.356 | 0.99 |
| 24_V | 50_A | 1.353 | 0.99 |
| 198_N | 285_F | 1.350 | 0.99 |
| 100_A | 219_E | 1.343 | 0.99 |
| 248_F | 285_F | 1.342 | 0.99 |
| 287_I | 291_K | 1.341 | 0.99 |
| 232_N | 301_G | 1.331 | 0.99 |
| 459_M | 463_E | 1.325 | 0.99 |
| 43_S | 49_E | 1.317 | 0.99 |
| 80_T | 292_F | 1.317 | 0.99 |
| 123_V | 171_L | 1.317 | 0.99 |
| 224_L | 231_V | 1.315 | 0.99 |
| 124_R | 128_I | 1.315 | 0.99 |
| 287_I | 321_Q | 1.314 | 0.99 |
| 436_E | 468_T | 1.310 | 0.99 |
| 451_M | 459_M | 1.309 | 0.99 |
| 161_L | 165_G | 1.308 | 0.99 |
| 140_Y | 205_A | 1.301 | 0.99 |
| 93_D | 96_K | 1.297 | 0.99 |
| 363_N | 413_N | 1.295 | 0.99 |
| 440_I | 444_E | 1.293 | 0.99 |
| 167_T | 229_I | 1.291 | 0.99 |
| 100_A | 298_H | 1.284 | 0.99 |
| 59_W | 91_I | 1.278 | 0.99 |
| 434_D | 437_A | 1.274 | 0.99 |
| 175_F | 194_P | 1.274 | 0.99 |
| 55_D | 59_W | 1.274 | 0.99 |
| 217_F | 233_M | 1.269 | 0.99 |
| 127_S | 157_G | 1.265 | 0.99 |
| 298_H | 326_D | 1.246 | 0.98 |
| 144_T | 223_S | 1.246 | 0.98 |
| 141_L | 144_T | 1.241 | 0.98 |
| 66_T | 71_T | 1.239 | 0.98 |
| 17_P | 46_G | 1.231 | 0.98 |
| 64_E | 71_T | 1.228 | 0.98 |
| 22_V | 251_I | 1.226 | 0.98 |
| 40_M | 63_Y | 1.222 | 0.98 |
| 82_I | 199_V | 1.222 | 0.98 |
| 158_V | 223_S | 1.221 | 0.98 |
| 94_L | 218_K | 1.220 | 0.98 |
| 111_K | 168_H | 1.218 | 0.98 |
| 314_T | 318_A | 1.217 | 0.98 |
| 442_M | 445_L | 1.213 | 0.98 |
| 319_A | 331_L | 1.210 | 0.98 |
| 126_F | 143_L | 1.206 | 0.98 |
| 38_V | 52_V | 1.205 | 0.98 |
| 117_V | 451_M | 1.201 | 0.98 |
| 417_S | 458_F | 1.191 | 0.98 |
| 10_T | 55_D | 1.188 | 0.98 |
| 121_M | 143_L | 1.187 | 0.98 |
| 318_A | 331_L | 1.179 | 0.98 |
| 6_T | 51_T | 1.177 | 0.98 |
| 81_A | 90_M | 1.167 | 0.97 |
| 415_V | 450_V | 1.164 | 0.97 |
| 424_W | 443_D | 1.148 | 0.97 |
| 78_Y | 288_D | 1.146 | 0.97 |
| 366_L | 453_S | 1.141 | 0.97 |
| 305_D | 419_D | 1.140 | 0.97 |
| 175_F | 233_M | 1.137 | 0.97 |
| 104_S | 298_H | 1.136 | 0.97 |
| 5_Y | 10_T | 1.128 | 0.97 |
| 239_H | 305_D | 1.127 | 0.97 |
| 365_N | 446_A | 1.125 | 0.97 |
| 5_Y | 57_E | 1.124 | 0.97 |
| 217_F | 297_Y | 1.123 | 0.97 |
| 166_I | 229_I | 1.122 | 0.97 |
| 277_A | 286_I | 1.120 | 0.96 |
| 334_E | 418_H | 1.117 | 0.96 |
| 246_S | 270_G | 1.116 | 0.96 |
| 313_D | 316_S | 1.113 | 0.96 |
| 305_D | 334_E | 1.112 | 0.96 |
| 176_A | 199_V | 1.109 | 0.96 |
| 332_Y | 458_F | 1.099 | 0.96 |
| 317_K | 320_T | 1.099 | 0.96 |
| 199_V | 214_I | 1.088 | 0.96 |
| 416_T | 446_A | 1.087 | 0.96 |
| 80_T | 296_E | 1.081 | 0.95 |
| 100_A | 103_E | 1.075 | 0.95 |
| 159_D | 163_Q | 1.072 | 0.95 |
| 423_L | 447_Q | 1.071 | 0.95 |
| 274_E | 309_L | 1.071 | 0.95 |
| 179_S | 193_D | 1.062 | 0.95 |
| 35_T | 64_E | 1.062 | 0.95 |
| 118_I | 168_H | 1.059 | 0.95 |
| 194_P | 197_Y | 1.055 | 0.95 |
| 424_W | 466_L | 1.054 | 0.95 |
| 181_N | 473_D | 1.047 | 0.94 |
| 415_V | 446_A | 1.035 | 0.94 |
| 313_D | 317_K | 1.031 | 0.94 |
| 198_N | 292_F | 1.031 | 0.94 |
| 269_S | 309_L | 1.024 | 0.93 |
| 425_D | 469_K | 1.021 | 0.93 |
| 294_V | 302_F | 1.014 | 0.93 |
| 124_R | 204_Y | 1.014 | 0.93 |
| 155_K | 219_E | 1.011 | 0.93 |
| 197_Y | 275_I | 1.010 | 0.93 |
| 170_Q | 362_F | 1.008 | 0.93 |
| 20_T | 68_Q | 1.006 | 0.93 |
| 221_V | 299_V | 1.005 | 0.93 |
| 198_N | 288_D | 1.004 | 0.93 |
| 294_V | 326_D | 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 | |
| 2wanA | 1 | 0.9958 | 100 | 0.138 | Contact Map |
| 3wdhA | 1 | 0.9853 | 100 | 0.166 | Contact Map |
| 2e8yA | 2 | 0.9832 | 100 | 0.175 | Contact Map |
| 4j3vA | 1 | 0.9874 | 100 | 0.223 | Contact Map |
| 4j7rA | 2 | 0.9391 | 100 | 0.24 | Contact Map |
| 1bf2A | 1 | 0.9349 | 100 | 0.241 | Contact Map |
| 3fawA | 1 | 0.9622 | 100 | 0.242 | Contact Map |
| 2ya1A | 1 | 0.9685 | 100 | 0.242 | Contact Map |
| 2fhfA | 1 | 0.9811 | 100 | 0.244 | Contact Map |
| 2vr5A | 2 | 0.9349 | 100 | 0.247 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)