| CPAT1 160-772 |
| ID: | 1495218684 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 613 (600) | ||
| Sequences: | 1559 (963.2) | ||
| Seq/Len: | 2.598 | ||
| Nf(neff/√len): | 39.3 |
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: 2.598).
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 |
| 394_F | 409_F | 4.140 | 1.00 |
| 23_V | 46_A | 3.801 | 1.00 |
| 116_I | 258_V | 3.763 | 1.00 |
| 420_K | 600_D | 3.614 | 1.00 |
| 204_Q | 208_D | 3.337 | 1.00 |
| 578_S | 587_S | 3.321 | 1.00 |
| 123_R | 127_D | 3.313 | 1.00 |
| 116_I | 203_M | 3.268 | 1.00 |
| 451_E | 479_K | 3.056 | 1.00 |
| 235_R | 252_E | 2.902 | 1.00 |
| 458_A | 472_L | 2.847 | 1.00 |
| 31_R | 36_E | 2.701 | 1.00 |
| 23_V | 50_A | 2.676 | 1.00 |
| 453_C | 457_R | 2.635 | 1.00 |
| 43_T | 47_Q | 2.621 | 1.00 |
| 449_T | 483_M | 2.575 | 1.00 |
| 391_F | 599_T | 2.538 | 1.00 |
| 8_Q | 144_C | 2.527 | 1.00 |
| 181_R | 357_R | 2.484 | 1.00 |
| 247_S | 358_L | 2.476 | 1.00 |
| 93_N | 310_N | 2.473 | 1.00 |
| 20_K | 50_A | 2.412 | 1.00 |
| 109_A | 203_M | 2.409 | 1.00 |
| 521_P | 558_D | 2.306 | 1.00 |
| 58_Q | 496_H | 2.254 | 1.00 |
| 31_R | 43_T | 2.233 | 1.00 |
| 27_L | 46_A | 2.213 | 1.00 |
| 199_M | 203_M | 2.172 | 1.00 |
| 471_K | 475_L | 2.160 | 1.00 |
| 31_R | 450_T | 2.137 | 1.00 |
| 179_R | 262_E | 2.102 | 1.00 |
| 175_V | 254_A | 2.083 | 1.00 |
| 58_Q | 500_L | 2.077 | 1.00 |
| 482_H | 486_L | 2.032 | 1.00 |
| 237_A | 365_E | 2.011 | 0.99 |
| 473_F | 601_I | 2.010 | 0.99 |
| 159_G | 164_T | 1.967 | 0.99 |
| 34_M | 518_L | 1.961 | 0.99 |
| 576_I | 591_G | 1.934 | 0.99 |
| 176_V | 206_I | 1.931 | 0.99 |
| 173_H | 253_K | 1.921 | 0.99 |
| 58_Q | 62_K | 1.916 | 0.99 |
| 78_E | 162_T | 1.912 | 0.99 |
| 19_V | 54_G | 1.910 | 0.99 |
| 177_Y | 182_Y | 1.900 | 0.99 |
| 176_V | 203_M | 1.895 | 0.99 |
| 237_A | 363_P | 1.886 | 0.99 |
| 445_V | 484_Y | 1.883 | 0.99 |
| 393_A | 599_T | 1.875 | 0.99 |
| 176_V | 185_V | 1.863 | 0.99 |
| 109_A | 200_E | 1.860 | 0.99 |
| 234_C | 369_V | 1.821 | 0.99 |
| 21_D | 25_R | 1.820 | 0.99 |
| 47_Q | 50_A | 1.806 | 0.99 |
| 443_E | 487_A | 1.806 | 0.99 |
| 226_G | 376_T | 1.793 | 0.99 |
| 76_W | 81_Y | 1.789 | 0.99 |
| 20_K | 24_N | 1.788 | 0.99 |
| 22_T | 493_I | 1.786 | 0.98 |
| 420_K | 596_E | 1.784 | 0.98 |
| 412_L | 452_S | 1.777 | 0.98 |
| 259_T | 298_T | 1.774 | 0.98 |
| 432_S | 445_V | 1.767 | 0.98 |
| 18_A | 21_D | 1.759 | 0.98 |
| 184_K | 250_A | 1.742 | 0.98 |
| 116_I | 174_I | 1.739 | 0.98 |
| 383_D | 581_S | 1.734 | 0.98 |
| 442_T | 495_R | 1.731 | 0.98 |
| 521_P | 556_A | 1.725 | 0.98 |
| 153_N | 255_A | 1.719 | 0.98 |
| 115_A | 301_V | 1.718 | 0.98 |
| 429_Y | 446_R | 1.710 | 0.98 |
| 17_P | 22_T | 1.703 | 0.98 |
| 64_K | 74_D | 1.699 | 0.98 |
| 470_L | 474_K | 1.696 | 0.98 |
| 593_H | 597_A | 1.689 | 0.98 |
| 465_T | 468_Q | 1.681 | 0.98 |
| 442_T | 446_R | 1.671 | 0.97 |
| 413_A | 598_M | 1.652 | 0.97 |
| 458_A | 469_R | 1.643 | 0.97 |
| 407_D | 430_E | 1.632 | 0.97 |
| 261_D | 291_R | 1.627 | 0.97 |
| 185_V | 206_I | 1.623 | 0.97 |
| 39_F | 43_T | 1.617 | 0.97 |
| 496_H | 500_L | 1.615 | 0.97 |
| 44_A | 48_D | 1.586 | 0.96 |
| 226_G | 373_S | 1.585 | 0.96 |
| 116_I | 256_F | 1.584 | 0.96 |
| 513_F | 516_E | 1.583 | 0.96 |
| 91_N | 553_G | 1.576 | 0.96 |
| 25_R | 486_L | 1.575 | 0.96 |
| 436_L | 489_T | 1.568 | 0.96 |
| 49_F | 54_G | 1.562 | 0.96 |
| 21_D | 491_S | 1.561 | 0.96 |
| 42_M | 516_E | 1.561 | 0.96 |
| 596_E | 600_D | 1.559 | 0.96 |
| 30_V | 42_M | 1.557 | 0.96 |
| 371_E | 374_L | 1.554 | 0.96 |
| 160_E | 233_R | 1.549 | 0.95 |
| 88_L | 92_S | 1.545 | 0.95 |
| 223_L | 370_I | 1.530 | 0.95 |
| 119_I | 324_L | 1.525 | 0.95 |
| 466_V | 607_L | 1.524 | 0.95 |
| 474_K | 478_E | 1.515 | 0.95 |
| 95_Y | 551_G | 1.514 | 0.95 |
| 419_Y | 457_R | 1.500 | 0.94 |
| 98_D | 307_M | 1.492 | 0.94 |
| 459_M | 469_R | 1.489 | 0.94 |
| 235_R | 248_L | 1.484 | 0.94 |
| 313_H | 429_Y | 1.471 | 0.94 |
| 293_F | 310_N | 1.454 | 0.93 |
| 429_Y | 525_S | 1.453 | 0.93 |
| 64_K | 75_W | 1.450 | 0.93 |
| 5_Y | 8_Q | 1.439 | 0.93 |
| 498_F | 502_V | 1.437 | 0.92 |
| 451_E | 475_L | 1.436 | 0.92 |
| 109_A | 207_L | 1.435 | 0.92 |
| 59_W | 62_K | 1.427 | 0.92 |
| 203_M | 258_V | 1.424 | 0.92 |
| 200_E | 343_H | 1.419 | 0.92 |
| 461_D | 469_R | 1.416 | 0.92 |
| 455_F | 459_M | 1.392 | 0.91 |
| 76_W | 429_Y | 1.371 | 0.90 |
| 398_I | 402_C | 1.370 | 0.90 |
| 429_Y | 442_T | 1.368 | 0.90 |
| 183_F | 209_N | 1.360 | 0.89 |
| 404_T | 477_S | 1.359 | 0.89 |
| 226_G | 229_V | 1.351 | 0.89 |
| 120_L | 187_L | 1.347 | 0.89 |
| 175_V | 182_Y | 1.341 | 0.89 |
| 90_V | 553_G | 1.339 | 0.88 |
| 28_Q | 479_K | 1.339 | 0.88 |
| 362_I | 366_C | 1.337 | 0.88 |
| 264_E | 303_K | 1.335 | 0.88 |
| 35_K | 38_D | 1.331 | 0.88 |
| 249_D | 253_K | 1.331 | 0.88 |
| 223_L | 231_W | 1.326 | 0.88 |
| 109_A | 204_Q | 1.321 | 0.88 |
| 12_P | 17_P | 1.319 | 0.87 |
| 62_K | 65_S | 1.312 | 0.87 |
| 28_Q | 451_E | 1.308 | 0.87 |
| 178_H | 210_T | 1.306 | 0.87 |
| 407_D | 411_Q | 1.306 | 0.87 |
| 31_R | 39_F | 1.303 | 0.87 |
| 409_F | 601_I | 1.299 | 0.86 |
| 454_D | 475_L | 1.294 | 0.86 |
| 593_H | 596_E | 1.294 | 0.86 |
| 110_A | 200_E | 1.289 | 0.86 |
| 258_V | 301_V | 1.288 | 0.86 |
| 16_V | 62_K | 1.288 | 0.86 |
| 399_I | 572_I | 1.283 | 0.85 |
| 602_I | 606_G | 1.281 | 0.85 |
| 475_L | 478_E | 1.279 | 0.85 |
| 112_A | 258_V | 1.278 | 0.85 |
| 20_K | 55_P | 1.273 | 0.85 |
| 446_R | 494_D | 1.271 | 0.85 |
| 467_E | 471_K | 1.263 | 0.84 |
| 40_K | 43_T | 1.262 | 0.84 |
| 448_C | 452_S | 1.258 | 0.84 |
| 444_T | 448_C | 1.258 | 0.84 |
| 468_Q | 471_K | 1.256 | 0.84 |
| 203_M | 207_L | 1.253 | 0.84 |
| 561_G | 564_Y | 1.253 | 0.84 |
| 153_N | 171_S | 1.250 | 0.83 |
| 450_T | 454_D | 1.246 | 0.83 |
| 417_A | 597_A | 1.245 | 0.83 |
| 511_S | 514_L | 1.243 | 0.83 |
| 404_T | 473_F | 1.233 | 0.82 |
| 228_R | 294_D | 1.233 | 0.82 |
| 21_D | 24_N | 1.231 | 0.82 |
| 161_E | 232_A | 1.231 | 0.82 |
| 4_L | 8_Q | 1.224 | 0.82 |
| 30_V | 34_M | 1.222 | 0.81 |
| 122_Y | 131_I | 1.219 | 0.81 |
| 175_V | 257_F | 1.214 | 0.81 |
| 231_W | 235_R | 1.214 | 0.81 |
| 89_M | 377_A | 1.213 | 0.81 |
| 226_G | 234_C | 1.205 | 0.80 |
| 184_K | 356_T | 1.202 | 0.80 |
| 155_S | 252_E | 1.198 | 0.80 |
| 400_K | 406_P | 1.198 | 0.80 |
| 432_S | 484_Y | 1.197 | 0.80 |
| 174_I | 187_L | 1.195 | 0.79 |
| 26_Y | 516_E | 1.194 | 0.79 |
| 177_Y | 257_F | 1.190 | 0.79 |
| 25_R | 493_I | 1.188 | 0.79 |
| 412_L | 477_S | 1.187 | 0.79 |
| 414_L | 562_V | 1.179 | 0.78 |
| 57_L | 61_L | 1.178 | 0.78 |
| 421_D | 593_H | 1.177 | 0.78 |
| 296_S | 550_G | 1.173 | 0.78 |
| 516_E | 519_S | 1.172 | 0.78 |
| 497_L | 500_L | 1.171 | 0.77 |
| 29_S | 493_I | 1.162 | 0.77 |
| 41_R | 516_E | 1.159 | 0.76 |
| 241_R | 361_D | 1.153 | 0.76 |
| 421_D | 589_R | 1.153 | 0.76 |
| 231_W | 294_D | 1.153 | 0.76 |
| 429_Y | 444_T | 1.150 | 0.76 |
| 179_R | 210_T | 1.146 | 0.75 |
| 29_S | 483_M | 1.142 | 0.75 |
| 514_L | 519_S | 1.142 | 0.75 |
| 14_L | 17_P | 1.142 | 0.75 |
| 18_A | 62_K | 1.139 | 0.75 |
| 59_W | 63_L | 1.135 | 0.74 |
| 597_A | 600_D | 1.135 | 0.74 |
| 291_R | 294_D | 1.131 | 0.74 |
| 510_E | 515_K | 1.131 | 0.74 |
| 156_R | 312_E | 1.131 | 0.74 |
| 224_T | 228_R | 1.129 | 0.74 |
| 221_A | 298_T | 1.128 | 0.74 |
| 444_T | 495_R | 1.123 | 0.73 |
| 443_E | 495_R | 1.123 | 0.73 |
| 119_I | 299_F | 1.121 | 0.73 |
| 499_C | 503_V | 1.121 | 0.73 |
| 71_Y | 499_C | 1.118 | 0.73 |
| 416_L | 456_V | 1.116 | 0.73 |
| 245_K | 249_D | 1.115 | 0.72 |
| 174_I | 258_V | 1.111 | 0.72 |
| 413_A | 601_I | 1.111 | 0.72 |
| 552_F | 562_V | 1.109 | 0.72 |
| 126_L | 131_I | 1.106 | 0.72 |
| 175_V | 250_A | 1.104 | 0.71 |
| 417_A | 593_H | 1.103 | 0.71 |
| 308_G | 312_E | 1.098 | 0.71 |
| 557_D | 579_K | 1.097 | 0.71 |
| 417_A | 594_L | 1.097 | 0.71 |
| 562_V | 574_F | 1.096 | 0.71 |
| 116_I | 187_L | 1.095 | 0.70 |
| 397_G | 568_G | 1.095 | 0.70 |
| 11_L | 22_T | 1.093 | 0.70 |
| 27_L | 39_F | 1.089 | 0.70 |
| 115_A | 299_F | 1.089 | 0.70 |
| 224_T | 231_W | 1.088 | 0.70 |
| 525_S | 555_V | 1.088 | 0.70 |
| 115_A | 307_M | 1.087 | 0.70 |
| 300_V | 308_G | 1.084 | 0.69 |
| 225_A | 377_A | 1.081 | 0.69 |
| 122_Y | 148_W | 1.081 | 0.69 |
| 378_N | 382_N | 1.080 | 0.69 |
| 462_P | 469_R | 1.079 | 0.69 |
| 590_F | 594_L | 1.079 | 0.69 |
| 56_R | 59_W | 1.078 | 0.69 |
| 81_Y | 429_Y | 1.076 | 0.69 |
| 560_Y | 585_T | 1.073 | 0.68 |
| 483_M | 487_A | 1.070 | 0.68 |
| 595_K | 599_T | 1.066 | 0.68 |
| 393_A | 602_I | 1.065 | 0.67 |
| 234_C | 238_Y | 1.057 | 0.67 |
| 592_R | 595_K | 1.053 | 0.66 |
| 112_A | 301_V | 1.052 | 0.66 |
| 466_V | 469_R | 1.051 | 0.66 |
| 202_Q | 355_P | 1.049 | 0.66 |
| 259_T | 300_V | 1.046 | 0.65 |
| 408_A | 480_H | 1.045 | 0.65 |
| 588_H | 592_R | 1.041 | 0.65 |
| 116_I | 199_M | 1.041 | 0.65 |
| 69_T | 438_R | 1.041 | 0.65 |
| 463_A | 468_Q | 1.039 | 0.65 |
| 18_A | 23_V | 1.038 | 0.65 |
| 318_A | 431_A | 1.031 | 0.64 |
| 513_F | 519_S | 1.029 | 0.64 |
| 323_H | 327_Y | 1.029 | 0.64 |
| 420_K | 460_V | 1.027 | 0.63 |
| 479_K | 483_M | 1.025 | 0.63 |
| 314_S | 590_F | 1.025 | 0.63 |
| 395_G | 406_P | 1.022 | 0.63 |
| 528_Q | 563_S | 1.020 | 0.63 |
| 393_A | 595_K | 1.020 | 0.63 |
| 81_Y | 313_H | 1.017 | 0.62 |
| 434_T | 437_F | 1.015 | 0.62 |
| 47_Q | 51_V | 1.009 | 0.61 |
| 46_A | 513_F | 1.007 | 0.61 |
| 11_L | 15_P | 1.007 | 0.61 |
| 429_Y | 526_T | 1.005 | 0.61 |
| 160_E | 236_Q | 1.005 | 0.61 |
| 24_N | 50_A | 1.003 | 0.61 |
| 180_G | 217_E | 1.002 | 0.60 |
| 391_F | 394_F | 1.002 | 0.60 |
| 319_P | 322_A | 1.000 | 0.60 |
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 | |
| 1xl7A | 2 | 0.9494 | 100 | 0.038 | Contact Map |
| 1t1uA | 1 | 0.9396 | 100 | 0.042 | Contact Map |
| 1nm8A | 1 | 0.9364 | 100 | 0.043 | Contact Map |
| 2debA | 2 | 0.9478 | 100 | 0.045 | Contact Map |
| 2vsqA | 1 | 0.6591 | 44.7 | 0.979 | Contact Map |
| 4znmA | 2 | 0 | 25.5 | 0.982 | Contact Map |
| 2p22D | 1 | 0.1044 | 15.8 | 0.984 | Contact Map |
| 4co6D | 3 | 0.0653 | 12.3 | 0.984 | Contact Map |
| 1b33N | 2 | 0.0832 | 10.7 | 0.985 | Contact Map |
| 2ymyA | 2 | 0.0669 | 10.4 | 0.985 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)