| CpI_WT |
| ID: | 1503516043 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 574 (568) | ||
| Sequences: | 690 (517.3) | ||
| Seq/Len: | 1.215 | ||
| Nf(neff/√len): | 21.7 |
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: 1.215).
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 |
| 255_T | 401_S | 4.848 | 1.00 |
| 54_E | 71_I | 4.507 | 1.00 |
| 222_E | 346_N | 4.197 | 1.00 |
| 348_F | 377_A | 4.142 | 1.00 |
| 562_G | 566_E | 3.804 | 1.00 |
| 458_E | 465_K | 3.589 | 1.00 |
| 191_L | 474_A | 3.558 | 1.00 |
| 329_G | 375_I | 3.177 | 1.00 |
| 460_E | 465_K | 3.067 | 1.00 |
| 306_Q | 478_F | 3.011 | 1.00 |
| 48_I | 87_I | 3.008 | 1.00 |
| 338_S | 555_Y | 2.945 | 1.00 |
| 325_Q | 351_T | 2.913 | 1.00 |
| 352_V | 379_I | 2.902 | 1.00 |
| 281_T | 560_G | 2.759 | 1.00 |
| 283_L | 287_I | 2.752 | 1.00 |
| 223_K | 346_N | 2.751 | 1.00 |
| 471_I | 496_V | 2.716 | 1.00 |
| 3_T | 12_N | 2.703 | 1.00 |
| 456_E | 491_Y | 2.635 | 1.00 |
| 326_Q | 367_M | 2.611 | 1.00 |
| 311_Y | 482_K | 2.606 | 1.00 |
| 4_I | 11_F | 2.604 | 1.00 |
| 151_G | 168_F | 2.595 | 1.00 |
| 280_A | 431_A | 2.464 | 0.99 |
| 87_I | 116_Y | 2.460 | 0.99 |
| 197_I | 205_L | 2.454 | 0.99 |
| 280_A | 434_F | 2.452 | 0.99 |
| 394_P | 397_K | 2.414 | 0.99 |
| 258_R | 401_S | 2.406 | 0.99 |
| 305_R | 309_N | 2.349 | 0.99 |
| 5_I | 71_I | 2.336 | 0.99 |
| 229_M | 253_I | 2.331 | 0.99 |
| 307_A | 315_L | 2.293 | 0.99 |
| 3_T | 68_D | 2.271 | 0.99 |
| 4_I | 72_I | 2.265 | 0.99 |
| 237_I | 253_I | 2.241 | 0.99 |
| 550_K | 554_N | 2.223 | 0.99 |
| 274_M | 548_L | 2.213 | 0.99 |
| 331_A | 556_F | 2.204 | 0.99 |
| 321_A | 327_I | 2.129 | 0.98 |
| 560_G | 564_A | 2.123 | 0.98 |
| 215_K | 387_M | 2.110 | 0.98 |
| 3_T | 10_Q | 2.055 | 0.97 |
| 433_D | 541_K | 2.044 | 0.97 |
| 20_L | 32_A | 2.040 | 0.97 |
| 210_H | 213_R | 2.034 | 0.97 |
| 255_T | 259_Q | 2.021 | 0.97 |
| 240_L | 385_A | 1.999 | 0.97 |
| 228_A | 268_I | 1.953 | 0.96 |
| 256_A | 388_I | 1.951 | 0.96 |
| 549_V | 553_Q | 1.942 | 0.96 |
| 237_I | 249_V | 1.905 | 0.96 |
| 214_V | 377_A | 1.873 | 0.95 |
| 162_E | 478_F | 1.841 | 0.94 |
| 395_F | 398_L | 1.826 | 0.94 |
| 467_N | 490_Q | 1.826 | 0.94 |
| 13_T | 17_T | 1.826 | 0.94 |
| 328_F | 332_S | 1.802 | 0.94 |
| 215_K | 390_D | 1.801 | 0.94 |
| 274_M | 327_I | 1.794 | 0.93 |
| 215_K | 391_A | 1.792 | 0.93 |
| 235_A | 529_V | 1.789 | 0.93 |
| 2_K | 66_I | 1.788 | 0.93 |
| 47_E | 60_T | 1.767 | 0.93 |
| 23_A | 30_I | 1.750 | 0.92 |
| 214_V | 350_V | 1.746 | 0.92 |
| 433_D | 439_E | 1.740 | 0.92 |
| 388_I | 395_F | 1.718 | 0.91 |
| 95_E | 145_T | 1.716 | 0.91 |
| 13_T | 22_F | 1.708 | 0.91 |
| 292_P | 316_N | 1.692 | 0.90 |
| 73_N | 76_S | 1.688 | 0.90 |
| 224_H | 336_Y | 1.670 | 0.90 |
| 218_L | 262_F | 1.669 | 0.90 |
| 478_F | 482_K | 1.665 | 0.89 |
| 184_C | 187_D | 1.658 | 0.89 |
| 453_G | 476_N | 1.656 | 0.89 |
| 224_H | 347_V | 1.642 | 0.89 |
| 284_V | 435_A | 1.635 | 0.88 |
| 5_I | 10_Q | 1.632 | 0.88 |
| 504_V | 527_A | 1.627 | 0.88 |
| 156_A | 160_N | 1.609 | 0.87 |
| 229_M | 254_Y | 1.602 | 0.87 |
| 300_C | 498_A | 1.600 | 0.87 |
| 338_S | 563_R | 1.592 | 0.86 |
| 314_L | 481_M | 1.588 | 0.86 |
| 332_S | 349_T | 1.588 | 0.86 |
| 296_F | 494_I | 1.572 | 0.85 |
| 54_E | 73_N | 1.563 | 0.85 |
| 158_G | 164_Y | 1.553 | 0.85 |
| 285_Q | 558_K | 1.535 | 0.84 |
| 13_T | 66_I | 1.525 | 0.83 |
| 264_K | 336_Y | 1.522 | 0.83 |
| 281_T | 434_F | 1.519 | 0.83 |
| 472_N | 505_N | 1.517 | 0.83 |
| 269_N | 410_Y | 1.516 | 0.83 |
| 252_K | 400_D | 1.516 | 0.83 |
| 551_M | 556_F | 1.516 | 0.83 |
| 283_L | 461_I | 1.509 | 0.82 |
| 17_T | 22_F | 1.506 | 0.82 |
| 539_K | 546_T | 1.503 | 0.82 |
| 405_P | 547_A | 1.495 | 0.81 |
| 234_R | 267_D | 1.493 | 0.81 |
| 283_L | 466_Y | 1.491 | 0.81 |
| 467_N | 492_H | 1.489 | 0.81 |
| 433_D | 445_Y | 1.485 | 0.81 |
| 563_R | 566_E | 1.474 | 0.80 |
| 469_A | 491_Y | 1.467 | 0.80 |
| 224_H | 346_N | 1.462 | 0.79 |
| 248_D | 533_Q | 1.461 | 0.79 |
| 36_L | 39_C | 1.459 | 0.79 |
| 444_E | 535_E | 1.457 | 0.79 |
| 111_K | 115_K | 1.449 | 0.78 |
| 274_M | 331_A | 1.449 | 0.78 |
| 223_K | 348_F | 1.440 | 0.78 |
| 415_A | 533_Q | 1.438 | 0.78 |
| 424_M | 493_F | 1.438 | 0.78 |
| 224_H | 264_K | 1.429 | 0.77 |
| 363_D | 373_R | 1.417 | 0.76 |
| 162_E | 306_Q | 1.416 | 0.76 |
| 561_E | 564_A | 1.411 | 0.76 |
| 17_T | 25_D | 1.408 | 0.76 |
| 314_L | 317_N | 1.406 | 0.75 |
| 448_V | 491_Y | 1.404 | 0.75 |
| 254_Y | 403_A | 1.402 | 0.75 |
| 525_V | 528_S | 1.388 | 0.74 |
| 162_E | 475_S | 1.379 | 0.73 |
| 87_I | 112_L | 1.366 | 0.72 |
| 368_E | 373_R | 1.360 | 0.72 |
| 202_V | 206_S | 1.359 | 0.72 |
| 61_A | 64_T | 1.356 | 0.72 |
| 90_L | 109_F | 1.355 | 0.72 |
| 285_Q | 560_G | 1.350 | 0.71 |
| 259_Q | 401_S | 1.345 | 0.71 |
| 132_Y | 145_T | 1.341 | 0.70 |
| 29_D | 115_K | 1.337 | 0.70 |
| 179_A | 182_E | 1.317 | 0.68 |
| 409_E | 547_A | 1.314 | 0.68 |
| 258_R | 265_I | 1.308 | 0.68 |
| 541_K | 544_E | 1.305 | 0.67 |
| 550_K | 553_Q | 1.300 | 0.67 |
| 154_V | 177_I | 1.299 | 0.67 |
| 271_G | 349_T | 1.298 | 0.67 |
| 504_V | 530_L | 1.297 | 0.67 |
| 555_Y | 563_R | 1.296 | 0.67 |
| 322_K | 330_T | 1.283 | 0.66 |
| 411_S | 539_K | 1.283 | 0.66 |
| 233_V | 236_S | 1.269 | 0.64 |
| 455_K | 470_V | 1.269 | 0.64 |
| 52_E | 78_A | 1.269 | 0.64 |
| 362_A | 378_V | 1.251 | 0.63 |
| 305_R | 360_F | 1.240 | 0.62 |
| 330_T | 374_D | 1.239 | 0.62 |
| 409_E | 546_T | 1.239 | 0.62 |
| 77_D | 219_N | 1.238 | 0.61 |
| 97_K | 100_P | 1.235 | 0.61 |
| 214_V | 262_F | 1.229 | 0.61 |
| 460_E | 466_Y | 1.229 | 0.61 |
| 334_T | 555_Y | 1.229 | 0.61 |
| 458_E | 467_N | 1.222 | 0.60 |
| 232_S | 415_A | 1.216 | 0.59 |
| 217_A | 348_F | 1.212 | 0.59 |
| 192_L | 305_R | 1.212 | 0.59 |
| 217_A | 220_A | 1.210 | 0.59 |
| 61_A | 112_L | 1.208 | 0.59 |
| 433_D | 440_L | 1.208 | 0.59 |
| 32_A | 44_N | 1.208 | 0.59 |
| 227_V | 262_F | 1.204 | 0.58 |
| 556_F | 567_I | 1.202 | 0.58 |
| 449_R | 531_Y | 1.200 | 0.58 |
| 60_T | 63_D | 1.183 | 0.56 |
| 326_Q | 362_A | 1.182 | 0.56 |
| 102_N | 386_K | 1.182 | 0.56 |
| 4_I | 17_T | 1.178 | 0.56 |
| 425_E | 531_Y | 1.178 | 0.56 |
| 2_K | 13_T | 1.170 | 0.55 |
| 183_K | 187_D | 1.164 | 0.54 |
| 253_I | 384_L | 1.161 | 0.54 |
| 311_Y | 478_F | 1.161 | 0.54 |
| 39_C | 155_N | 1.158 | 0.54 |
| 232_S | 236_S | 1.156 | 0.54 |
| 275_T | 327_I | 1.156 | 0.54 |
| 308_E | 364_R | 1.156 | 0.54 |
| 19_I | 64_T | 1.154 | 0.53 |
| 287_I | 435_A | 1.154 | 0.53 |
| 11_F | 72_I | 1.153 | 0.53 |
| 475_S | 479_K | 1.153 | 0.53 |
| 76_S | 79_V | 1.148 | 0.53 |
| 139_S | 192_L | 1.146 | 0.53 |
| 134_D | 137_S | 1.139 | 0.52 |
| 136_R | 184_C | 1.138 | 0.52 |
| 334_T | 344_P | 1.138 | 0.52 |
| 296_F | 300_C | 1.136 | 0.52 |
| 2_K | 68_D | 1.135 | 0.52 |
| 260_L | 391_A | 1.133 | 0.51 |
| 532_N | 535_E | 1.132 | 0.51 |
| 419_A | 531_Y | 1.128 | 0.51 |
| 165_A | 188_T | 1.125 | 0.51 |
| 280_A | 287_I | 1.123 | 0.50 |
| 343_D | 346_N | 1.116 | 0.50 |
| 32_A | 134_D | 1.115 | 0.50 |
| 217_A | 377_A | 1.112 | 0.49 |
| 126_P | 173_G | 1.110 | 0.49 |
| 104_R | 114_I | 1.108 | 0.49 |
| 430_S | 543_H | 1.104 | 0.49 |
| 562_G | 565_H | 1.102 | 0.48 |
| 285_Q | 290_N | 1.102 | 0.48 |
| 439_E | 544_E | 1.100 | 0.48 |
| 148_L | 447_Q | 1.099 | 0.48 |
| 217_A | 225_V | 1.098 | 0.48 |
| 331_A | 548_L | 1.097 | 0.48 |
| 448_V | 468_V | 1.095 | 0.48 |
| 302_G | 357_T | 1.091 | 0.47 |
| 141_T | 208_K | 1.090 | 0.47 |
| 241_F | 388_I | 1.089 | 0.47 |
| 198_I | 511_H | 1.088 | 0.47 |
| 235_A | 248_D | 1.088 | 0.47 |
| 140_L | 197_I | 1.087 | 0.47 |
| 557_G | 561_E | 1.086 | 0.47 |
| 238_G | 249_V | 1.085 | 0.47 |
| 307_A | 318_L | 1.083 | 0.46 |
| 47_E | 89_Q | 1.083 | 0.46 |
| 228_A | 375_I | 1.081 | 0.46 |
| 235_A | 530_L | 1.074 | 0.46 |
| 77_D | 117_K | 1.066 | 0.45 |
| 306_Q | 474_A | 1.062 | 0.44 |
| 428_L | 448_V | 1.061 | 0.44 |
| 456_E | 489_K | 1.059 | 0.44 |
| 21_K | 24_R | 1.053 | 0.44 |
| 302_G | 329_G | 1.049 | 0.43 |
| 473_G | 476_N | 1.047 | 0.43 |
| 300_C | 492_H | 1.045 | 0.43 |
| 171_K | 180_E | 1.043 | 0.43 |
| 251_G | 402_E | 1.042 | 0.43 |
| 10_Q | 68_D | 1.041 | 0.42 |
| 269_N | 415_A | 1.041 | 0.42 |
| 271_G | 325_Q | 1.036 | 0.42 |
| 325_Q | 378_V | 1.036 | 0.42 |
| 287_I | 466_Y | 1.036 | 0.42 |
| 505_N | 560_G | 1.033 | 0.42 |
| 260_L | 384_L | 1.032 | 0.42 |
| 339_I | 554_N | 1.029 | 0.41 |
| 42_D | 155_N | 1.028 | 0.41 |
| 244_G | 247_V | 1.027 | 0.41 |
| 209_S | 386_K | 1.025 | 0.41 |
| 384_L | 388_I | 1.024 | 0.41 |
| 563_R | 567_I | 1.023 | 0.41 |
| 197_I | 356_V | 1.020 | 0.40 |
| 440_L | 541_K | 1.018 | 0.40 |
| 276_I | 426_A | 1.018 | 0.40 |
| 4_I | 68_D | 1.017 | 0.40 |
| 548_L | 551_M | 1.015 | 0.40 |
| 243_M | 396_A | 1.013 | 0.40 |
| 103_R | 511_H | 1.011 | 0.40 |
| 535_E | 538_S | 1.006 | 0.39 |
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 | |
| 3c8yA | 1 | 0.9913 | 100 | 0.314 | Contact Map |
| 4r0vA | 2 | 0.6202 | 100 | 0.45 | Contact Map |
| 3lx4A | 2 | 0.6202 | 100 | 0.475 | Contact Map |
| 1hfeL | 2 | 0.6777 | 100 | 0.544 | Contact Map |
| 1q16B | 1 | 0.5697 | 100 | 0.8 | Contact Map |
| 3i9v3 | 2 | 0.8676 | 100 | 0.831 | Contact Map |
| 4ysxB | 2 | 0 | 100 | 0.871 | Contact Map |
| 2ivfB | 1 | 0.4059 | 100 | 0.88 | Contact Map |
| 2bs2B | 2 | 0.3571 | 100 | 0.881 | Contact Map |
| 2wdqB | 3 | 0.3589 | 100 | 0.881 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)