| human CTPS |
| ID: | 1439847831 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 591 (535) | ||
| Sequences: | 2407 (1044.4) | ||
| Seq/Len: | 4.499 | ||
| Nf(neff/√len): | 45.2 |
HHblits Results: (2015_06)
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: 4.499).
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 |
| 467_L | 542_G | 4.832 | 1.00 |
| 302_A | 364_A | 4.289 | 1.00 |
| 386_A | 390_N | 4.257 | 1.00 |
| 392_K | 518_P | 3.997 | 1.00 |
| 385_I | 404_L | 3.962 | 1.00 |
| 300_S | 333_E | 3.957 | 1.00 |
| 171_K | 174_N | 3.889 | 1.00 |
| 300_S | 335_K | 3.798 | 1.00 |
| 298_T | 333_E | 3.573 | 1.00 |
| 23_V | 266_F | 3.556 | 1.00 |
| 301_I | 366_G | 3.460 | 1.00 |
| 335_K | 364_A | 3.267 | 1.00 |
| 385_I | 520_F | 3.243 | 1.00 |
| 418_D | 430_H | 3.211 | 1.00 |
| 464_M | 511_I | 3.201 | 1.00 |
| 385_I | 395_F | 3.156 | 1.00 |
| 452_K | 475_E | 2.956 | 1.00 |
| 335_K | 363_S | 2.821 | 1.00 |
| 176_C | 213_L | 2.795 | 1.00 |
| 404_L | 407_V | 2.772 | 1.00 |
| 325_A | 332_L | 2.759 | 1.00 |
| 463_V | 466_K | 2.751 | 1.00 |
| 258_E | 263_V | 2.745 | 1.00 |
| 409_F | 413_V | 2.717 | 1.00 |
| 462_S | 498_K | 2.708 | 1.00 |
| 32_L | 142_V | 2.581 | 1.00 |
| 416_W | 491_C | 2.573 | 1.00 |
| 367_V | 388_A | 2.560 | 1.00 |
| 213_L | 262_V | 2.551 | 1.00 |
| 19_I | 215_V | 2.550 | 1.00 |
| 383_Q | 386_A | 2.543 | 1.00 |
| 252_R | 293_D | 2.535 | 1.00 |
| 302_A | 337_I | 2.533 | 1.00 |
| 511_I | 525_Y | 2.524 | 1.00 |
| 395_F | 405_A | 2.491 | 1.00 |
| 122_Q | 169_K | 2.439 | 1.00 |
| 239_E | 268_R | 2.396 | 1.00 |
| 490_K | 494_E | 2.388 | 1.00 |
| 459_T | 465_R | 2.352 | 1.00 |
| 421_S | 424_F | 2.322 | 1.00 |
| 492_L | 497_L | 2.285 | 1.00 |
| 95_Q | 99_N | 2.260 | 1.00 |
| 463_V | 521_V | 2.257 | 1.00 |
| 330_H | 548_V | 2.249 | 1.00 |
| 177_N | 209_L | 2.227 | 1.00 |
| 79_D | 535_K | 2.216 | 1.00 |
| 203_E | 206_G | 2.162 | 1.00 |
| 430_H | 488_W | 2.139 | 1.00 |
| 414_L | 492_L | 2.119 | 1.00 |
| 406_V | 432_V | 2.088 | 1.00 |
| 420_N | 425_D | 2.088 | 1.00 |
| 519_F | 543_L | 2.087 | 1.00 |
| 503_D | 506_G | 2.076 | 1.00 |
| 462_S | 500_V | 2.069 | 1.00 |
| 119_D | 123_E | 2.059 | 1.00 |
| 405_A | 520_F | 2.057 | 1.00 |
| 318_I | 336_Y | 2.042 | 1.00 |
| 84_K | 92_K | 2.031 | 1.00 |
| 97_V | 117_I | 1.994 | 1.00 |
| 248_S | 252_R | 1.978 | 1.00 |
| 328_I | 545_L | 1.937 | 1.00 |
| 467_L | 521_V | 1.923 | 1.00 |
| 62_D | 452_K | 1.921 | 1.00 |
| 369_V | 395_F | 1.914 | 1.00 |
| 54_E | 109_K | 1.912 | 1.00 |
| 484_V | 492_L | 1.912 | 1.00 |
| 96_Y | 120_A | 1.877 | 1.00 |
| 378_T | 404_L | 1.875 | 1.00 |
| 166_F | 170_V | 1.860 | 1.00 |
| 392_K | 517_H | 1.859 | 1.00 |
| 464_M | 500_V | 1.850 | 1.00 |
| 142_V | 270_L | 1.850 | 1.00 |
| 416_W | 430_H | 1.849 | 1.00 |
| 228_E | 238_P | 1.826 | 1.00 |
| 416_W | 488_W | 1.821 | 1.00 |
| 28_K | 79_D | 1.821 | 1.00 |
| 298_T | 331_K | 1.816 | 1.00 |
| 400_L | 424_F | 1.795 | 1.00 |
| 297_E | 330_H | 1.794 | 1.00 |
| 343_E | 346_T | 1.777 | 1.00 |
| 97_V | 106_Y | 1.759 | 1.00 |
| 503_D | 507_E | 1.742 | 0.99 |
| 545_L | 549_G | 1.731 | 0.99 |
| 465_R | 472_D | 1.729 | 0.99 |
| 120_A | 123_E | 1.665 | 0.99 |
| 255_L | 286_K | 1.663 | 0.99 |
| 418_D | 425_D | 1.661 | 0.99 |
| 183_V | 222_L | 1.644 | 0.99 |
| 37_I | 145_I | 1.639 | 0.99 |
| 395_F | 404_L | 1.634 | 0.99 |
| 62_D | 81_R | 1.633 | 0.99 |
| 378_T | 400_L | 1.629 | 0.99 |
| 126_M | 166_F | 1.617 | 0.99 |
| 519_F | 542_G | 1.595 | 0.99 |
| 484_V | 489_K | 1.579 | 0.99 |
| 366_G | 543_L | 1.566 | 0.99 |
| 378_T | 424_F | 1.562 | 0.99 |
| 20_A | 144_V | 1.559 | 0.99 |
| 368_L | 543_L | 1.557 | 0.99 |
| 160_I | 207_L | 1.557 | 0.99 |
| 291_R | 329_N | 1.546 | 0.99 |
| 90_T | 117_I | 1.542 | 0.98 |
| 181_S | 197_T | 1.539 | 0.98 |
| 433_V | 484_V | 1.532 | 0.98 |
| 379_E | 382_I | 1.529 | 0.98 |
| 187_S | 220_N | 1.523 | 0.98 |
| 169_K | 177_N | 1.511 | 0.98 |
| 43_I | 90_T | 1.509 | 0.98 |
| 13_G | 189_T | 1.506 | 0.98 |
| 489_K | 502_Q | 1.505 | 0.98 |
| 454_R | 473_Y | 1.501 | 0.98 |
| 96_Y | 124_W | 1.495 | 0.98 |
| 179_H | 200_S | 1.489 | 0.98 |
| 123_E | 127_R | 1.488 | 0.98 |
| 455_T | 525_Y | 1.484 | 0.98 |
| 406_V | 512_V | 1.484 | 0.98 |
| 126_M | 170_V | 1.484 | 0.98 |
| 497_L | 512_V | 1.478 | 0.98 |
| 248_S | 293_D | 1.467 | 0.98 |
| 168_F | 235_H | 1.441 | 0.97 |
| 414_L | 491_C | 1.436 | 0.97 |
| 3_Y | 129_A | 1.432 | 0.97 |
| 402_M | 512_V | 1.431 | 0.97 |
| 214_V | 230_I | 1.430 | 0.97 |
| 409_F | 495_Q | 1.417 | 0.97 |
| 530_L | 537_S | 1.413 | 0.97 |
| 467_L | 519_F | 1.407 | 0.97 |
| 422_T | 431_P | 1.402 | 0.97 |
| 242_I | 265_Y | 1.395 | 0.97 |
| 29_S | 282_L | 1.385 | 0.96 |
| 225_S | 228_E | 1.380 | 0.96 |
| 408_E | 412_N | 1.365 | 0.96 |
| 455_T | 501_G | 1.362 | 0.96 |
| 240_Q | 265_Y | 1.352 | 0.96 |
| 243_C | 260_Q | 1.350 | 0.96 |
| 368_L | 381_K | 1.339 | 0.95 |
| 406_V | 484_V | 1.337 | 0.95 |
| 244_V | 257_L | 1.336 | 0.95 |
| 454_R | 475_E | 1.331 | 0.95 |
| 300_S | 364_A | 1.330 | 0.95 |
| 396_L | 543_L | 1.330 | 0.95 |
| 36_S | 78_L | 1.321 | 0.95 |
| 19_I | 180_V | 1.319 | 0.95 |
| 23_V | 178_I | 1.317 | 0.95 |
| 402_M | 484_V | 1.316 | 0.95 |
| 163_F | 177_N | 1.314 | 0.95 |
| 261_G | 264_D | 1.314 | 0.95 |
| 167_Q | 175_F | 1.312 | 0.95 |
| 2_K | 174_N | 1.312 | 0.95 |
| 62_D | 530_L | 1.304 | 0.95 |
| 202_R | 206_G | 1.304 | 0.95 |
| 338_D | 341_D | 1.302 | 0.95 |
| 6_V | 144_V | 1.301 | 0.94 |
| 301_I | 547_S | 1.299 | 0.94 |
| 287_E | 291_R | 1.292 | 0.94 |
| 369_V | 405_A | 1.275 | 0.94 |
| 366_G | 547_S | 1.272 | 0.94 |
| 303_L | 317_V | 1.269 | 0.93 |
| 300_S | 363_S | 1.267 | 0.93 |
| 176_C | 269_R | 1.264 | 0.93 |
| 212_D | 269_R | 1.260 | 0.93 |
| 218_C | 245_H | 1.257 | 0.93 |
| 147_L | 163_F | 1.253 | 0.93 |
| 395_F | 520_F | 1.251 | 0.93 |
| 452_K | 530_L | 1.251 | 0.93 |
| 379_E | 411_R | 1.250 | 0.93 |
| 25_T | 28_K | 1.248 | 0.93 |
| 192_Q | 223_D | 1.246 | 0.93 |
| 35_T | 86_N | 1.234 | 0.92 |
| 434_V | 437_P | 1.227 | 0.92 |
| 385_I | 408_E | 1.225 | 0.92 |
| 100_K | 105_D | 1.222 | 0.92 |
| 81_R | 532_R | 1.214 | 0.91 |
| 386_A | 412_N | 1.214 | 0.91 |
| 464_M | 521_V | 1.212 | 0.91 |
| 405_A | 522_G | 1.210 | 0.91 |
| 79_D | 532_R | 1.207 | 0.91 |
| 297_E | 548_V | 1.200 | 0.91 |
| 368_L | 398_V | 1.195 | 0.91 |
| 201_V | 211_P | 1.191 | 0.90 |
| 410_S | 492_L | 1.191 | 0.90 |
| 327_A | 536_P | 1.190 | 0.90 |
| 39_I | 47_A | 1.190 | 0.90 |
| 406_V | 492_L | 1.183 | 0.90 |
| 265_Y | 269_R | 1.182 | 0.90 |
| 317_V | 371_G | 1.179 | 0.90 |
| 249_S | 289_A | 1.175 | 0.90 |
| 459_T | 472_D | 1.173 | 0.89 |
| 392_K | 516_D | 1.171 | 0.89 |
| 142_V | 272_L | 1.169 | 0.89 |
| 342_L | 384_A | 1.167 | 0.89 |
| 465_R | 469_G | 1.165 | 0.89 |
| 463_V | 519_F | 1.160 | 0.89 |
| 302_A | 335_K | 1.159 | 0.89 |
| 18_I | 253_V | 1.158 | 0.89 |
| 53_Y | 309_K | 1.154 | 0.88 |
| 499_F | 502_Q | 1.152 | 0.88 |
| 499_F | 509_M | 1.148 | 0.88 |
| 218_C | 243_C | 1.146 | 0.88 |
| 456_L | 473_Y | 1.146 | 0.88 |
| 2_K | 270_L | 1.145 | 0.88 |
| 252_R | 289_A | 1.145 | 0.88 |
| 39_I | 145_I | 1.140 | 0.88 |
| 368_L | 388_A | 1.140 | 0.88 |
| 96_Y | 100_K | 1.138 | 0.87 |
| 464_M | 523_V | 1.132 | 0.87 |
| 35_T | 143_C | 1.130 | 0.87 |
| 92_K | 124_W | 1.122 | 0.86 |
| 542_G | 546_A | 1.116 | 0.86 |
| 321_L | 332_L | 1.115 | 0.86 |
| 467_L | 543_L | 1.107 | 0.85 |
| 205_R | 210_S | 1.106 | 0.85 |
| 130_L | 139_E | 1.104 | 0.85 |
| 161_E | 164_R | 1.103 | 0.85 |
| 312_D | 317_V | 1.100 | 0.85 |
| 402_M | 523_V | 1.098 | 0.85 |
| 454_R | 505_E | 1.097 | 0.85 |
| 107_L | 444_M | 1.091 | 0.84 |
| 230_I | 241_V | 1.088 | 0.84 |
| 19_I | 257_L | 1.086 | 0.84 |
| 94_Y | 113_V | 1.084 | 0.84 |
| 94_Y | 158_P | 1.079 | 0.83 |
| 414_L | 495_Q | 1.077 | 0.83 |
| 460_K | 465_R | 1.077 | 0.83 |
| 396_L | 521_V | 1.077 | 0.83 |
| 249_S | 293_D | 1.077 | 0.83 |
| 309_K | 338_D | 1.073 | 0.83 |
| 342_L | 346_T | 1.072 | 0.83 |
| 113_V | 117_I | 1.070 | 0.83 |
| 176_C | 266_F | 1.070 | 0.83 |
| 184_P | 197_T | 1.069 | 0.83 |
| 249_S | 292_Y | 1.059 | 0.82 |
| 264_D | 268_R | 1.057 | 0.82 |
| 491_C | 495_Q | 1.052 | 0.81 |
| 304_V | 339_S | 1.048 | 0.81 |
| 342_L | 355_H | 1.045 | 0.81 |
| 19_I | 244_V | 1.043 | 0.80 |
| 317_V | 398_V | 1.043 | 0.80 |
| 39_I | 73_N | 1.043 | 0.80 |
| 389_R | 408_E | 1.042 | 0.80 |
| 125_V | 166_F | 1.042 | 0.80 |
| 502_Q | 506_G | 1.041 | 0.80 |
| 37_I | 47_A | 1.039 | 0.80 |
| 39_I | 125_V | 1.038 | 0.80 |
| 342_L | 383_Q | 1.038 | 0.80 |
| 205_R | 235_H | 1.036 | 0.80 |
| 223_D | 226_V | 1.035 | 0.80 |
| 437_P | 507_E | 1.027 | 0.79 |
| 514_L | 517_H | 1.026 | 0.79 |
| 170_V | 174_N | 1.025 | 0.79 |
| 43_I | 117_I | 1.023 | 0.79 |
| 129_A | 140_P | 1.019 | 0.78 |
| 363_S | 393_K | 1.016 | 0.78 |
| 409_F | 497_L | 1.015 | 0.78 |
| 88_L | 312_D | 1.010 | 0.77 |
| 398_V | 523_V | 1.006 | 0.77 |
| 258_E | 280_K | 1.004 | 0.77 |
| 247_V | 256_L | 1.001 | 0.76 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 4zdjA | 1 | 0 | 100 | 0.44 | Contact Map |
| 3nvaA | 2 | 0.8951 | 100 | 0.464 | Contact Map |
| 1vcoA | 1 | 0.8849 | 100 | 0.492 | Contact Map |
| 2vo1A | 2 | 0.3942 | 100 | 0.505 | Contact Map |
| 1s1mA | 2 | 0.8883 | 100 | 0.549 | Contact Map |
| 2v4uA | 1 | 0.4501 | 100 | 0.79 | Contact Map |
| 2w7tA | 1 | 0.4365 | 100 | 0.822 | Contact Map |
| 1l9xA | 4 | 0.423 | 99.9 | 0.907 | Contact Map |
| 3uowA | 2 | 0.4146 | 99.9 | 0.908 | Contact Map |
| 4l8fC | 4 | 0.4179 | 99.9 | 0.909 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)