| ActB_2 |
| ID: | 1491519894 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 950 (543) | ||
| Sequences: | 12270 (6175.8) | ||
| Seq/Len: | 22.597 | ||
| Nf(neff/√len): | 265.0 |
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: 22.597).
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 |
| 82_E | 89_N | 5.980 | 1.00 |
| 534_L | 564_V | 4.627 | 1.00 |
| 97_L | 425_T | 3.937 | 1.00 |
| 413_K | 421_S | 3.658 | 1.00 |
| 528_D | 573_G | 3.636 | 1.00 |
| 485_L | 532_F | 3.328 | 1.00 |
| 249_A | 268_Q | 3.318 | 1.00 |
| 527_A | 572_V | 3.299 | 1.00 |
| 91_S | 94_A | 3.242 | 1.00 |
| 417_D | 421_S | 3.241 | 1.00 |
| 364_A | 376_S | 3.217 | 1.00 |
| 404_P | 407_R | 3.150 | 1.00 |
| 244_N | 248_G | 3.129 | 1.00 |
| 102_S | 105_D | 3.087 | 1.00 |
| 174_S | 276_K | 2.952 | 1.00 |
| 245_I | 249_A | 2.918 | 1.00 |
| 212_Q | 224_A | 2.912 | 1.00 |
| 529_A | 566_V | 2.871 | 1.00 |
| 209_R | 269_Q | 2.846 | 1.00 |
| 98_K | 378_I | 2.822 | 1.00 |
| 336_I | 365_F | 2.822 | 1.00 |
| 99_I | 378_I | 2.762 | 1.00 |
| 179_V | 239_L | 2.704 | 1.00 |
| 531_K | 572_V | 2.683 | 1.00 |
| 550_T | 559_L | 2.667 | 1.00 |
| 333_H | 360_K | 2.629 | 1.00 |
| 96_D | 425_T | 2.623 | 1.00 |
| 90_S | 378_I | 2.614 | 1.00 |
| 549_A | 564_V | 2.598 | 1.00 |
| 519_D | 563_P | 2.589 | 1.00 |
| 226_K | 265_K | 2.572 | 1.00 |
| 464_G | 468_D | 2.544 | 1.00 |
| 243_Y | 298_A | 2.484 | 1.00 |
| 105_D | 109_K | 2.479 | 1.00 |
| 85_L | 98_K | 2.424 | 1.00 |
| 85_L | 90_S | 2.422 | 1.00 |
| 106_A | 112_Q | 2.400 | 1.00 |
| 522_V | 575_V | 2.395 | 1.00 |
| 85_L | 378_I | 2.390 | 1.00 |
| 82_E | 411_D | 2.358 | 1.00 |
| 96_D | 421_S | 2.355 | 1.00 |
| 260_K | 263_V | 2.304 | 1.00 |
| 112_Q | 333_H | 2.290 | 1.00 |
| 228_V | 266_A | 2.241 | 1.00 |
| 238_A | 257_A | 2.221 | 1.00 |
| 175_L | 269_Q | 2.207 | 1.00 |
| 522_V | 549_A | 2.193 | 1.00 |
| 562_V | 577_L | 2.185 | 1.00 |
| 175_L | 211_F | 2.168 | 1.00 |
| 524_V | 564_V | 2.162 | 1.00 |
| 265_K | 269_Q | 2.156 | 1.00 |
| 543_G | 565_I | 2.155 | 1.00 |
| 103_L | 334_T | 2.150 | 1.00 |
| 543_G | 566_V | 2.145 | 1.00 |
| 173_A | 176_I | 2.144 | 1.00 |
| 98_K | 102_S | 2.133 | 1.00 |
| 369_E | 373_A | 2.118 | 1.00 |
| 99_I | 363_V | 2.045 | 1.00 |
| 522_V | 577_L | 2.039 | 1.00 |
| 238_A | 264_V | 2.032 | 1.00 |
| 421_S | 425_T | 2.005 | 1.00 |
| 552_T | 559_L | 1.995 | 1.00 |
| 550_T | 561_N | 1.992 | 1.00 |
| 524_V | 575_V | 1.985 | 1.00 |
| 389_W | 404_P | 1.973 | 1.00 |
| 40_L | 55_T | 1.962 | 1.00 |
| 359_V | 362_S | 1.959 | 1.00 |
| 548_Y | 563_P | 1.955 | 1.00 |
| 90_S | 98_K | 1.953 | 1.00 |
| 199_G | 208_S | 1.941 | 1.00 |
| 115_L | 133_I | 1.936 | 1.00 |
| 106_A | 334_T | 1.882 | 1.00 |
| 361_T | 378_I | 1.876 | 1.00 |
| 226_K | 263_V | 1.871 | 1.00 |
| 522_V | 551_I | 1.869 | 1.00 |
| 485_L | 575_V | 1.843 | 1.00 |
| 534_L | 549_A | 1.843 | 1.00 |
| 177_V | 213_F | 1.835 | 1.00 |
| 353_V | 357_K | 1.821 | 1.00 |
| 85_L | 88_K | 1.819 | 1.00 |
| 228_V | 259_F | 1.801 | 1.00 |
| 485_L | 528_D | 1.795 | 1.00 |
| 83_P | 92_W | 1.794 | 1.00 |
| 490_Y | 576_G | 1.764 | 1.00 |
| 90_S | 94_A | 1.751 | 1.00 |
| 337_M | 362_S | 1.734 | 1.00 |
| 409_I | 412_T | 1.725 | 1.00 |
| 522_V | 562_V | 1.721 | 1.00 |
| 525_S | 572_V | 1.719 | 1.00 |
| 38_N | 57_A | 1.716 | 1.00 |
| 226_K | 269_Q | 1.712 | 1.00 |
| 535_S | 547_S | 1.711 | 1.00 |
| 84_K | 379_A | 1.698 | 1.00 |
| 270_L | 299_L | 1.698 | 1.00 |
| 523_T | 567_Q | 1.696 | 1.00 |
| 89_N | 411_D | 1.691 | 1.00 |
| 175_L | 266_A | 1.688 | 1.00 |
| 527_A | 530_K | 1.687 | 1.00 |
| 213_F | 238_A | 1.679 | 1.00 |
| 245_I | 268_Q | 1.676 | 1.00 |
| 97_L | 101_S | 1.672 | 1.00 |
| 298_A | 469_F | 1.669 | 1.00 |
| 421_S | 424_G | 1.656 | 1.00 |
| 548_Y | 561_N | 1.652 | 1.00 |
| 246_V | 271_K | 1.627 | 1.00 |
| 526_N | 568_P | 1.615 | 1.00 |
| 383_P | 414_Q | 1.585 | 1.00 |
| 101_S | 105_D | 1.585 | 1.00 |
| 42_K | 52_E | 1.578 | 1.00 |
| 354_S | 357_K | 1.576 | 1.00 |
| 364_A | 373_A | 1.574 | 1.00 |
| 242_I | 270_L | 1.563 | 1.00 |
| 41_V | 48_P | 1.562 | 1.00 |
| 270_L | 277_G | 1.554 | 1.00 |
| 114_V | 332_V | 1.553 | 1.00 |
| 176_I | 196_Y | 1.552 | 1.00 |
| 334_T | 363_V | 1.549 | 1.00 |
| 365_F | 382_A | 1.541 | 1.00 |
| 365_F | 418_V | 1.535 | 1.00 |
| 30_V | 37_A | 1.531 | 1.00 |
| 28_T | 41_V | 1.529 | 1.00 |
| 367_L | 384_H | 1.524 | 1.00 |
| 84_K | 89_N | 1.523 | 1.00 |
| 37_A | 64_N | 1.518 | 1.00 |
| 64_N | 67_I | 1.502 | 1.00 |
| 41_V | 51_I | 1.495 | 1.00 |
| 94_A | 98_K | 1.494 | 1.00 |
| 414_Q | 417_D | 1.483 | 1.00 |
| 245_I | 264_V | 1.480 | 1.00 |
| 72_L | 505_W | 1.470 | 1.00 |
| 178_S | 181_A | 1.459 | 1.00 |
| 33_G | 37_A | 1.453 | 1.00 |
| 383_P | 412_T | 1.445 | 1.00 |
| 104_A | 107_K | 1.432 | 1.00 |
| 328_N | 351_S | 1.427 | 1.00 |
| 338_S | 419_L | 1.412 | 1.00 |
| 445_S | 448_K | 1.406 | 0.99 |
| 81_K | 410_F | 1.395 | 0.99 |
| 99_I | 380_A | 1.386 | 0.99 |
| 215_S | 227_R | 1.386 | 0.99 |
| 551_I | 577_L | 1.383 | 0.99 |
| 48_P | 74_L | 1.383 | 0.99 |
| 234_D | 257_A | 1.383 | 0.99 |
| 30_V | 64_N | 1.377 | 0.99 |
| 326_D | 331_S | 1.375 | 0.99 |
| 247_V | 252_P | 1.369 | 0.99 |
| 132_F | 426_P | 1.363 | 0.99 |
| 524_V | 529_A | 1.361 | 0.99 |
| 268_Q | 272_A | 1.354 | 0.99 |
| 107_K | 113_V | 1.346 | 0.99 |
| 177_V | 266_A | 1.336 | 0.99 |
| 327_M | 359_V | 1.333 | 0.99 |
| 525_S | 570_Q | 1.327 | 0.99 |
| 80_L | 379_A | 1.325 | 0.99 |
| 434_K | 438_G | 1.323 | 0.99 |
| 325_K | 351_S | 1.319 | 0.99 |
| 30_V | 33_G | 1.319 | 0.99 |
| 33_G | 64_N | 1.316 | 0.99 |
| 174_S | 274_G | 1.310 | 0.99 |
| 334_T | 361_T | 1.308 | 0.99 |
| 523_T | 565_I | 1.308 | 0.99 |
| 25_Y | 40_L | 1.307 | 0.99 |
| 87_G | 379_A | 1.305 | 0.99 |
| 226_K | 266_A | 1.300 | 0.99 |
| 245_I | 248_G | 1.299 | 0.99 |
| 246_V | 252_P | 1.293 | 0.99 |
| 234_D | 256_D | 1.280 | 0.99 |
| 47_R | 75_Y | 1.279 | 0.99 |
| 521_Y | 565_I | 1.279 | 0.99 |
| 26_Y | 43_T | 1.273 | 0.99 |
| 567_Q | 570_Q | 1.272 | 0.99 |
| 99_I | 102_S | 1.270 | 0.99 |
| 413_K | 417_D | 1.264 | 0.99 |
| 130_G | 134_A | 1.261 | 0.99 |
| 482_S | 554_A | 1.260 | 0.99 |
| 114_V | 323_L | 1.258 | 0.99 |
| 239_L | 292_V | 1.257 | 0.99 |
| 104_A | 108_A | 1.249 | 0.99 |
| 92_W | 380_A | 1.245 | 0.98 |
| 242_I | 267_A | 1.241 | 0.98 |
| 211_F | 269_Q | 1.235 | 0.98 |
| 213_F | 228_V | 1.233 | 0.98 |
| 369_E | 379_A | 1.230 | 0.98 |
| 238_A | 266_A | 1.224 | 0.98 |
| 242_I | 266_A | 1.223 | 0.98 |
| 103_L | 363_V | 1.222 | 0.98 |
| 336_I | 422_V | 1.222 | 0.98 |
| 30_V | 67_I | 1.221 | 0.98 |
| 40_L | 54_N | 1.221 | 0.98 |
| 403_Q | 450_L | 1.214 | 0.98 |
| 241_Q | 264_V | 1.213 | 0.98 |
| 98_K | 361_T | 1.213 | 0.98 |
| 251_V | 271_K | 1.209 | 0.98 |
| 37_A | 67_I | 1.205 | 0.98 |
| 382_A | 418_V | 1.205 | 0.98 |
| 560_E | 577_L | 1.203 | 0.98 |
| 25_Y | 42_K | 1.196 | 0.98 |
| 115_L | 129_I | 1.192 | 0.98 |
| 523_T | 569_G | 1.192 | 0.98 |
| 217_M | 222_A | 1.187 | 0.98 |
| 380_A | 418_V | 1.185 | 0.98 |
| 343_V | 353_V | 1.184 | 0.98 |
| 335_L | 359_V | 1.184 | 0.98 |
| 389_W | 401_L | 1.181 | 0.98 |
| 462_L | 468_D | 1.173 | 0.98 |
| 41_V | 405_T | 1.167 | 0.97 |
| 528_D | 572_V | 1.165 | 0.97 |
| 90_S | 95_V | 1.161 | 0.97 |
| 96_D | 99_I | 1.160 | 0.97 |
| 236_K | 288_A | 1.159 | 0.97 |
| 100_K | 425_T | 1.158 | 0.97 |
| 176_I | 208_S | 1.156 | 0.97 |
| 25_Y | 52_E | 1.149 | 0.97 |
| 241_Q | 245_I | 1.144 | 0.97 |
| 524_V | 534_L | 1.142 | 0.97 |
| 230_M | 238_A | 1.137 | 0.97 |
| 133_I | 139_A | 1.136 | 0.97 |
| 27_A | 40_L | 1.133 | 0.97 |
| 81_K | 84_K | 1.131 | 0.97 |
| 211_F | 266_A | 1.131 | 0.97 |
| 242_I | 246_V | 1.128 | 0.97 |
| 337_M | 372_T | 1.127 | 0.97 |
| 251_V | 268_Q | 1.127 | 0.97 |
| 27_A | 54_N | 1.126 | 0.97 |
| 357_K | 375_V | 1.123 | 0.97 |
| 230_M | 234_D | 1.122 | 0.97 |
| 92_W | 413_K | 1.119 | 0.96 |
| 343_V | 349_S | 1.109 | 0.96 |
| 354_S | 358_K | 1.108 | 0.96 |
| 40_L | 52_E | 1.108 | 0.96 |
| 114_V | 335_L | 1.105 | 0.96 |
| 237_Q | 256_D | 1.104 | 0.96 |
| 370_D | 373_A | 1.103 | 0.96 |
| 322_Q | 325_K | 1.100 | 0.96 |
| 366_S | 370_D | 1.096 | 0.96 |
| 348_D | 351_S | 1.094 | 0.96 |
| 526_N | 530_K | 1.090 | 0.96 |
| 200_R | 225_D | 1.089 | 0.96 |
| 245_I | 251_V | 1.086 | 0.96 |
| 328_N | 354_S | 1.082 | 0.96 |
| 245_I | 267_A | 1.081 | 0.95 |
| 84_K | 369_E | 1.081 | 0.95 |
| 102_S | 106_A | 1.080 | 0.95 |
| 96_D | 422_V | 1.079 | 0.95 |
| 51_I | 71_I | 1.074 | 0.95 |
| 388_S | 415_F | 1.073 | 0.95 |
| 81_K | 89_N | 1.072 | 0.95 |
| 351_S | 354_S | 1.070 | 0.95 |
| 274_G | 277_G | 1.069 | 0.95 |
| 323_L | 332_V | 1.068 | 0.95 |
| 383_P | 408_P | 1.065 | 0.95 |
| 184_L | 220_S | 1.062 | 0.95 |
| 178_S | 210_H | 1.062 | 0.95 |
| 228_V | 263_V | 1.060 | 0.95 |
| 319_V | 322_Q | 1.058 | 0.95 |
| 102_S | 360_K | 1.051 | 0.94 |
| 198_K | 202_P | 1.047 | 0.94 |
| 212_Q | 221_G | 1.046 | 0.94 |
| 525_S | 566_V | 1.045 | 0.94 |
| 113_V | 334_T | 1.045 | 0.94 |
| 179_V | 213_F | 1.044 | 0.94 |
| 239_L | 291_L | 1.044 | 0.94 |
| 217_M | 229_P | 1.039 | 0.94 |
| 420_L | 424_G | 1.039 | 0.94 |
| 222_A | 569_G | 1.037 | 0.94 |
| 242_I | 295_I | 1.028 | 0.94 |
| 42_K | 50_K | 1.023 | 0.93 |
| 232_T | 574_T | 1.020 | 0.93 |
| 413_K | 418_V | 1.015 | 0.93 |
| 270_L | 279_L | 1.010 | 0.93 |
| 38_N | 54_N | 1.008 | 0.93 |
| 96_D | 413_K | 1.003 | 0.93 |
| 266_A | 269_Q | 1.002 | 0.92 |
| 39_L | 63_A | 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 | |
| 2vpzA | 2 | 0.6221 | 100 | 0.709 | Contact Map |
| 2e7zA | 1 | 0.6063 | 100 | 0.713 | Contact Map |
| 2napA | 1 | 0.5989 | 100 | 0.719 | Contact Map |
| 2iv2X | 1 | 0.6011 | 100 | 0.721 | Contact Map |
| 2ivfA | 1 | 0.6126 | 100 | 0.73 | Contact Map |
| 1kqfA | 1 | 0.6137 | 100 | 0.731 | Contact Map |
| 1h0hA | 2 | 0.6126 | 100 | 0.732 | Contact Map |
| 4aayA | 4 | 0.6211 | 100 | 0.735 | Contact Map |
| 1g8kA | 4 | 0.6305 | 100 | 0.737 | Contact Map |
| 3ml1A | 1 | 0.6063 | 100 | 0.737 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)