| NP_231276 |
| ID: | 1510003935 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 462 (444) | ||
| Sequences: | 15770 (11124.4) | ||
| Seq/Len: | 35.518 | ||
| Nf(neff/√len): | 527.9 |
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: 35.518).
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 |
| 387_E | 444_K | 4.524 | 1.00 |
| 423_S | 427_H | 4.355 | 1.00 |
| 388_D | 392_G | 3.964 | 1.00 |
| 398_R | 437_E | 3.742 | 1.00 |
| 366_A | 389_D | 3.504 | 1.00 |
| 264_K | 284_E | 3.434 | 1.00 |
| 267_V | 279_L | 3.242 | 1.00 |
| 435_L | 445_A | 3.215 | 1.00 |
| 381_W | 448_T | 3.191 | 1.00 |
| 402_L | 433_L | 3.171 | 1.00 |
| 422_V | 433_L | 3.142 | 1.00 |
| 426_A | 431_G | 3.080 | 1.00 |
| 431_G | 449_L | 2.955 | 1.00 |
| 436_G | 446_T | 2.924 | 1.00 |
| 426_A | 447_L | 2.889 | 1.00 |
| 385_C | 446_T | 2.862 | 1.00 |
| 354_M | 426_A | 2.859 | 1.00 |
| 385_C | 444_K | 2.809 | 1.00 |
| 383_Q | 448_T | 2.794 | 1.00 |
| 400_K | 403_K | 2.756 | 1.00 |
| 438_S | 441_G | 2.751 | 1.00 |
| 346_V | 429_Y | 2.746 | 1.00 |
| 346_V | 351_L | 2.744 | 1.00 |
| 54_Q | 135_I | 2.707 | 1.00 |
| 434_A | 446_T | 2.680 | 1.00 |
| 354_M | 425_M | 2.675 | 1.00 |
| 310_T | 346_V | 2.646 | 1.00 |
| 309_K | 343_E | 2.572 | 1.00 |
| 432_A | 448_T | 2.556 | 1.00 |
| 383_Q | 446_T | 2.452 | 1.00 |
| 393_I | 401_A | 2.452 | 1.00 |
| 436_G | 444_K | 2.435 | 1.00 |
| 309_K | 345_A | 2.423 | 1.00 |
| 394_S | 397_N | 2.319 | 1.00 |
| 355_I | 384_I | 2.317 | 1.00 |
| 354_M | 447_L | 2.310 | 1.00 |
| 308_V | 348_P | 2.307 | 1.00 |
| 360_E | 364_K | 2.238 | 1.00 |
| 311_A | 314_A | 2.232 | 1.00 |
| 327_Y | 363_Y | 2.221 | 1.00 |
| 437_E | 443_L | 2.197 | 1.00 |
| 311_A | 341_D | 2.161 | 1.00 |
| 373_H | 387_E | 2.130 | 1.00 |
| 247_H | 251_N | 2.126 | 1.00 |
| 434_A | 448_T | 2.093 | 1.00 |
| 395_A | 398_R | 2.089 | 1.00 |
| 264_K | 287_Q | 2.075 | 1.00 |
| 100_L | 103_Q | 2.075 | 1.00 |
| 375_Q | 385_C | 2.070 | 1.00 |
| 435_L | 443_L | 2.056 | 1.00 |
| 365_W | 407_R | 2.010 | 1.00 |
| 357_N | 422_V | 1.998 | 1.00 |
| 397_N | 408_L | 1.996 | 1.00 |
| 388_D | 442_G | 1.987 | 1.00 |
| 402_L | 445_A | 1.983 | 1.00 |
| 425_M | 429_Y | 1.951 | 1.00 |
| 398_R | 435_L | 1.948 | 1.00 |
| 318_A | 348_P | 1.939 | 1.00 |
| 207_A | 212_Q | 1.931 | 1.00 |
| 401_A | 435_L | 1.927 | 1.00 |
| 382_V | 451_Q | 1.917 | 1.00 |
| 318_A | 352_D | 1.910 | 1.00 |
| 335_V | 371_R | 1.849 | 1.00 |
| 397_N | 406_V | 1.796 | 1.00 |
| 222_Q | 225_S | 1.796 | 1.00 |
| 358_L | 445_A | 1.741 | 1.00 |
| 316_V | 355_I | 1.736 | 1.00 |
| 366_A | 370_I | 1.733 | 1.00 |
| 287_Q | 291_D | 1.728 | 1.00 |
| 373_H | 385_C | 1.723 | 1.00 |
| 268_T | 280_Q | 1.706 | 1.00 |
| 381_W | 432_A | 1.701 | 1.00 |
| 402_L | 423_S | 1.696 | 1.00 |
| 251_N | 404_R | 1.689 | 1.00 |
| 426_A | 433_L | 1.678 | 1.00 |
| 337_E | 373_H | 1.661 | 1.00 |
| 206_S | 226_P | 1.659 | 1.00 |
| 220_Y | 225_S | 1.658 | 1.00 |
| 248_H | 252_L | 1.652 | 1.00 |
| 322_A | 352_D | 1.643 | 1.00 |
| 19_K | 192_T | 1.639 | 1.00 |
| 397_N | 400_K | 1.639 | 1.00 |
| 400_K | 406_V | 1.634 | 1.00 |
| 312_P | 382_V | 1.633 | 1.00 |
| 402_L | 435_L | 1.605 | 1.00 |
| 263_L | 283_V | 1.583 | 1.00 |
| 370_I | 376_I | 1.579 | 1.00 |
| 239_Q | 243_E | 1.579 | 1.00 |
| 264_K | 280_Q | 1.576 | 1.00 |
| 313_S | 317_D | 1.573 | 1.00 |
| 426_A | 449_L | 1.568 | 1.00 |
| 263_L | 279_L | 1.555 | 1.00 |
| 350_D | 353_E | 1.545 | 1.00 |
| 138_K | 153_T | 1.539 | 1.00 |
| 323_F | 356_G | 1.535 | 1.00 |
| 393_I | 443_L | 1.523 | 1.00 |
| 350_D | 425_M | 1.514 | 1.00 |
| 342_L | 382_V | 1.506 | 1.00 |
| 371_R | 389_D | 1.505 | 1.00 |
| 427_H | 432_A | 1.501 | 1.00 |
| 267_V | 283_V | 1.495 | 1.00 |
| 307_S | 345_A | 1.490 | 1.00 |
| 243_E | 247_H | 1.480 | 1.00 |
| 311_A | 343_E | 1.473 | 1.00 |
| 347_E | 350_D | 1.465 | 1.00 |
| 267_V | 276_R | 1.443 | 1.00 |
| 288_Q | 349_T | 1.431 | 1.00 |
| 319_I | 359_L | 1.429 | 1.00 |
| 395_A | 437_E | 1.407 | 0.99 |
| 215_A | 236_F | 1.407 | 0.99 |
| 264_K | 283_V | 1.407 | 0.99 |
| 202_Q | 230_D | 1.403 | 0.99 |
| 417_L | 421_I | 1.397 | 0.99 |
| 344_V | 382_V | 1.396 | 0.99 |
| 39_Y | 43_N | 1.394 | 0.99 |
| 16_L | 20_T | 1.392 | 0.99 |
| 208_L | 234_L | 1.378 | 0.99 |
| 17_S | 20_T | 1.373 | 0.99 |
| 371_R | 387_E | 1.373 | 0.99 |
| 365_W | 391_A | 1.372 | 0.99 |
| 376_I | 451_Q | 1.371 | 0.99 |
| 201_M | 228_V | 1.367 | 0.99 |
| 267_V | 280_Q | 1.328 | 0.99 |
| 348_P | 352_D | 1.325 | 0.99 |
| 358_L | 422_V | 1.320 | 0.99 |
| 335_V | 369_L | 1.317 | 0.99 |
| 354_M | 422_V | 1.311 | 0.99 |
| 401_A | 445_A | 1.309 | 0.99 |
| 192_T | 199_S | 1.308 | 0.99 |
| 387_E | 438_S | 1.307 | 0.99 |
| 403_K | 423_S | 1.299 | 0.99 |
| 260_L | 290_I | 1.294 | 0.99 |
| 313_S | 341_D | 1.290 | 0.99 |
| 431_G | 447_L | 1.284 | 0.99 |
| 193_W | 196_R | 1.282 | 0.99 |
| 208_L | 235_L | 1.279 | 0.99 |
| 407_R | 414_G | 1.277 | 0.99 |
| 97_S | 153_T | 1.273 | 0.99 |
| 205_L | 230_D | 1.273 | 0.99 |
| 381_W | 451_Q | 1.271 | 0.99 |
| 433_L | 445_A | 1.256 | 0.99 |
| 388_D | 443_L | 1.252 | 0.99 |
| 266_E | 278_Q | 1.250 | 0.99 |
| 370_I | 374_S | 1.250 | 0.99 |
| 245_A | 249_A | 1.246 | 0.98 |
| 437_E | 441_G | 1.237 | 0.98 |
| 42_P | 169_S | 1.237 | 0.98 |
| 310_T | 315_R | 1.235 | 0.98 |
| 187_T | 191_V | 1.234 | 0.98 |
| 424_E | 427_H | 1.233 | 0.98 |
| 280_Q | 284_E | 1.220 | 0.98 |
| 217_N | 232_N | 1.208 | 0.98 |
| 140_T | 151_T | 1.204 | 0.98 |
| 398_R | 402_L | 1.204 | 0.98 |
| 270_L | 276_R | 1.203 | 0.98 |
| 257_K | 291_D | 1.203 | 0.98 |
| 215_A | 239_Q | 1.202 | 0.98 |
| 333_T | 369_L | 1.198 | 0.98 |
| 262_V | 266_E | 1.189 | 0.98 |
| 202_Q | 226_P | 1.167 | 0.97 |
| 320_S | 336_N | 1.164 | 0.97 |
| 431_G | 450_K | 1.163 | 0.97 |
| 199_S | 202_Q | 1.156 | 0.97 |
| 277_I | 281_P | 1.155 | 0.97 |
| 264_K | 268_T | 1.152 | 0.97 |
| 355_I | 359_L | 1.151 | 0.97 |
| 375_Q | 383_Q | 1.149 | 0.97 |
| 255_A | 353_E | 1.147 | 0.97 |
| 310_T | 351_L | 1.145 | 0.97 |
| 332_I | 366_A | 1.145 | 0.97 |
| 247_H | 404_R | 1.142 | 0.97 |
| 350_D | 428_S | 1.141 | 0.97 |
| 358_L | 447_L | 1.140 | 0.97 |
| 265_N | 269_Q | 1.129 | 0.97 |
| 312_P | 384_I | 1.125 | 0.97 |
| 351_L | 429_Y | 1.125 | 0.97 |
| 260_L | 287_Q | 1.125 | 0.97 |
| 292_Y | 350_D | 1.120 | 0.96 |
| 216_L | 232_N | 1.120 | 0.96 |
| 394_S | 408_L | 1.119 | 0.96 |
| 384_I | 447_L | 1.114 | 0.96 |
| 170_K | 174_M | 1.113 | 0.96 |
| 218_G | 229_N | 1.098 | 0.96 |
| 198_L | 227_L | 1.098 | 0.96 |
| 214_N | 239_Q | 1.090 | 0.96 |
| 196_R | 200_K | 1.087 | 0.96 |
| 392_G | 442_G | 1.084 | 0.96 |
| 61_M | 139_R | 1.079 | 0.95 |
| 189_V | 193_W | 1.078 | 0.95 |
| 385_C | 436_G | 1.077 | 0.95 |
| 356_G | 360_E | 1.067 | 0.95 |
| 319_I | 323_F | 1.067 | 0.95 |
| 369_L | 389_D | 1.066 | 0.95 |
| 378_S | 383_Q | 1.062 | 0.95 |
| 282_S | 285_Q | 1.062 | 0.95 |
| 315_R | 319_I | 1.057 | 0.95 |
| 377_L | 383_Q | 1.056 | 0.95 |
| 26_A | 187_T | 1.053 | 0.95 |
| 380_D | 451_Q | 1.052 | 0.95 |
| 205_L | 231_L | 1.044 | 0.94 |
| 191_V | 195_L | 1.044 | 0.94 |
| 201_M | 231_L | 1.039 | 0.94 |
| 401_A | 406_V | 1.036 | 0.94 |
| 370_I | 389_D | 1.035 | 0.94 |
| 166_Q | 170_K | 1.035 | 0.94 |
| 317_D | 336_N | 1.034 | 0.94 |
| 236_F | 240_E | 1.031 | 0.94 |
| 202_Q | 206_S | 1.026 | 0.94 |
| 354_M | 429_Y | 1.025 | 0.93 |
| 393_I | 399_E | 1.024 | 0.93 |
| 188_G | 192_T | 1.023 | 0.93 |
| 261_S | 265_N | 1.020 | 0.93 |
| 314_A | 318_A | 1.015 | 0.93 |
| 206_S | 233_A | 1.015 | 0.93 |
| 260_L | 283_V | 1.011 | 0.93 |
| 324_D | 328_A | 1.008 | 0.93 |
| 350_D | 429_Y | 1.007 | 0.93 |
| 205_L | 227_L | 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 | |
| 4bixA | 2 | 0.4848 | 100 | 0.481 | Contact Map |
| 4i5sA | 2 | 0.5628 | 100 | 0.488 | Contact Map |
| 4ctiA | 4 | 0.487 | 100 | 0.509 | Contact Map |
| 4q20A | 2 | 0.4784 | 100 | 0.571 | Contact Map |
| 3jz3A | 2 | 0.3333 | 100 | 0.573 | Contact Map |
| 4mpcA | 1 | 0.6364 | 100 | 0.577 | Contact Map |
| 2q8gA | 1 | 0.6385 | 100 | 0.582 | Contact Map |
| 4e01A | 1 | 0.5844 | 100 | 0.586 | Contact Map |
| 2e0aA | 2 | 0.6558 | 100 | 0.592 | Contact Map |
| 3d36A | 2 | 0.4567 | 100 | 0.597 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)