| T0770 |
| ID: | 1399568726 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 488 (470) | ||
| Sequences: | 993 (919) | ||
| Seq/Len: | 2.113 | ||
| Nf(neff/√len): | 42.4 |
HHblits Results: (2013_03)
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: 2.113).
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 |
| 370_N | 374_K | 5.635 | 1.00 |
| 165_S | 168_S | 4.572 | 1.00 |
| 178_D | 214_K | 3.909 | 1.00 |
| 208_T | 247_D | 3.775 | 1.00 |
| 349_L | 372_L | 3.453 | 1.00 |
| 202_D | 205_K | 3.441 | 1.00 |
| 139_Y | 217_T | 3.325 | 1.00 |
| 142_T | 166_Q | 3.321 | 1.00 |
| 135_A | 173_V | 3.268 | 1.00 |
| 142_T | 485_W | 3.078 | 1.00 |
| 471_I | 475_K | 3.033 | 1.00 |
| 467_M | 474_P | 2.991 | 1.00 |
| 212_S | 348_Q | 2.989 | 1.00 |
| 167_E | 225_D | 2.946 | 1.00 |
| 219_M | 351_L | 2.910 | 1.00 |
| 281_N | 285_K | 2.901 | 1.00 |
| 417_Q | 431_Q | 2.885 | 1.00 |
| 148_I | 169_V | 2.804 | 1.00 |
| 288_Q | 295_I | 2.783 | 1.00 |
| 167_E | 171_N | 2.680 | 1.00 |
| 151_T | 164_D | 2.622 | 1.00 |
| 245_A | 248_N | 2.568 | 1.00 |
| 175_S | 179_E | 2.520 | 1.00 |
| 131_K | 176_L | 2.419 | 1.00 |
| 229_A | 233_G | 2.415 | 1.00 |
| 152_E | 162_K | 2.377 | 1.00 |
| 132_I | 184_M | 2.375 | 1.00 |
| 131_K | 179_E | 2.370 | 1.00 |
| 132_I | 210_A | 2.359 | 1.00 |
| 171_N | 228_K | 2.350 | 1.00 |
| 32_D | 35_T | 2.315 | 1.00 |
| 214_K | 231_A | 2.303 | 1.00 |
| 173_V | 217_T | 2.259 | 1.00 |
| 166_Q | 485_W | 2.251 | 1.00 |
| 244_S | 345_C | 2.236 | 1.00 |
| 371_E | 375_K | 2.224 | 1.00 |
| 216_R | 347_E | 2.199 | 1.00 |
| 220_V | 430_V | 2.191 | 1.00 |
| 368_K | 371_E | 2.167 | 1.00 |
| 181_L | 214_K | 2.164 | 1.00 |
| 205_K | 247_D | 2.142 | 1.00 |
| 185_D | 207_M | 2.128 | 0.99 |
| 349_L | 352_E | 2.099 | 0.99 |
| 345_C | 379_E | 2.058 | 0.99 |
| 242_V | 247_D | 2.017 | 0.99 |
| 231_A | 234_T | 2.016 | 0.99 |
| 350_L | 417_Q | 1.986 | 0.99 |
| 375_K | 378_R | 1.969 | 0.99 |
| 199_Y | 242_V | 1.968 | 0.99 |
| 163_F | 466_E | 1.967 | 0.99 |
| 174_L | 214_K | 1.932 | 0.99 |
| 378_R | 392_D | 1.901 | 0.99 |
| 113_I | 131_K | 1.888 | 0.98 |
| 242_V | 345_C | 1.887 | 0.98 |
| 98_W | 102_Y | 1.884 | 0.98 |
| 143_M | 486_F | 1.872 | 0.98 |
| 143_M | 220_V | 1.855 | 0.98 |
| 345_C | 349_L | 1.852 | 0.98 |
| 374_K | 378_R | 1.852 | 0.98 |
| 222_V | 358_R | 1.803 | 0.98 |
| 181_L | 210_A | 1.801 | 0.98 |
| 184_M | 203_M | 1.794 | 0.98 |
| 483_K | 487_D | 1.793 | 0.98 |
| 352_E | 372_L | 1.788 | 0.98 |
| 131_K | 183_I | 1.761 | 0.97 |
| 244_S | 247_D | 1.757 | 0.97 |
| 141_A | 148_I | 1.754 | 0.97 |
| 151_T | 168_S | 1.744 | 0.97 |
| 377_I | 395_V | 1.741 | 0.97 |
| 414_H | 435_S | 1.732 | 0.97 |
| 414_H | 417_Q | 1.718 | 0.97 |
| 349_L | 375_K | 1.694 | 0.96 |
| 458_R | 487_D | 1.690 | 0.96 |
| 112_A | 128_A | 1.678 | 0.96 |
| 215_F | 232_I | 1.614 | 0.95 |
| 143_M | 170_L | 1.607 | 0.95 |
| 176_L | 179_E | 1.605 | 0.95 |
| 411_Y | 444_T | 1.592 | 0.94 |
| 349_L | 376_G | 1.580 | 0.94 |
| 110_M | 134_L | 1.579 | 0.94 |
| 26_W | 31_H | 1.572 | 0.94 |
| 484_L | 487_D | 1.570 | 0.94 |
| 436_G | 443_P | 1.563 | 0.94 |
| 169_V | 172_G | 1.558 | 0.94 |
| 458_R | 483_K | 1.555 | 0.94 |
| 132_I | 177_L | 1.546 | 0.93 |
| 432_W | 456_L | 1.538 | 0.93 |
| 178_D | 234_T | 1.537 | 0.93 |
| 142_T | 169_V | 1.536 | 0.93 |
| 236_L | 355_A | 1.530 | 0.93 |
| 283_M | 287_M | 1.521 | 0.93 |
| 126_A | 183_I | 1.513 | 0.92 |
| 411_Y | 415_M | 1.488 | 0.91 |
| 45_F | 127_I | 1.461 | 0.90 |
| 233_G | 237_Q | 1.456 | 0.90 |
| 136_E | 209_L | 1.420 | 0.89 |
| 421_L | 431_Q | 1.407 | 0.88 |
| 280_S | 312_N | 1.398 | 0.88 |
| 174_L | 231_A | 1.376 | 0.87 |
| 377_I | 400_E | 1.375 | 0.87 |
| 208_T | 243_S | 1.370 | 0.86 |
| 172_G | 175_S | 1.356 | 0.85 |
| 209_L | 249_L | 1.349 | 0.85 |
| 214_K | 234_T | 1.335 | 0.84 |
| 225_D | 228_K | 1.333 | 0.84 |
| 166_Q | 484_L | 1.326 | 0.84 |
| 215_F | 241_M | 1.325 | 0.84 |
| 414_H | 431_Q | 1.325 | 0.84 |
| 174_L | 217_T | 1.321 | 0.83 |
| 350_L | 420_D | 1.317 | 0.83 |
| 48_V | 109_L | 1.315 | 0.83 |
| 168_S | 171_N | 1.313 | 0.83 |
| 134_L | 176_L | 1.310 | 0.83 |
| 138_M | 141_A | 1.301 | 0.82 |
| 279_A | 283_M | 1.300 | 0.82 |
| 199_Y | 249_L | 1.295 | 0.82 |
| 85_S | 312_N | 1.294 | 0.82 |
| 466_E | 470_N | 1.294 | 0.82 |
| 343_Y | 348_Q | 1.286 | 0.81 |
| 352_E | 355_A | 1.280 | 0.81 |
| 389_A | 393_T | 1.278 | 0.81 |
| 409_A | 412_E | 1.278 | 0.81 |
| 106_G | 154_W | 1.273 | 0.80 |
| 45_F | 49_A | 1.264 | 0.79 |
| 236_L | 352_E | 1.262 | 0.79 |
| 356_Y | 372_L | 1.250 | 0.78 |
| 28_D | 31_H | 1.249 | 0.78 |
| 435_S | 443_P | 1.246 | 0.78 |
| 151_T | 172_G | 1.236 | 0.77 |
| 473_A | 476_E | 1.236 | 0.77 |
| 344_S | 383_F | 1.231 | 0.77 |
| 109_L | 133_L | 1.225 | 0.76 |
| 279_A | 284_L | 1.225 | 0.76 |
| 132_I | 180_A | 1.223 | 0.76 |
| 198_Y | 249_L | 1.221 | 0.76 |
| 178_D | 181_L | 1.221 | 0.76 |
| 242_V | 348_Q | 1.212 | 0.75 |
| 181_L | 207_M | 1.212 | 0.75 |
| 407_E | 442_V | 1.202 | 0.75 |
| 143_M | 427_E | 1.201 | 0.74 |
| 113_I | 134_L | 1.201 | 0.74 |
| 346_Q | 376_G | 1.191 | 0.74 |
| 204_N | 208_T | 1.185 | 0.73 |
| 220_V | 427_E | 1.182 | 0.73 |
| 216_R | 427_E | 1.176 | 0.72 |
| 233_G | 366_L | 1.172 | 0.72 |
| 376_G | 416_Q | 1.172 | 0.72 |
| 49_A | 198_Y | 1.164 | 0.71 |
| 147_D | 165_S | 1.164 | 0.71 |
| 391_I | 395_V | 1.158 | 0.71 |
| 475_K | 479_K | 1.155 | 0.70 |
| 349_L | 379_E | 1.154 | 0.70 |
| 178_D | 231_A | 1.150 | 0.70 |
| 279_A | 299_F | 1.147 | 0.70 |
| 211_K | 215_F | 1.143 | 0.69 |
| 392_D | 396_T | 1.138 | 0.69 |
| 143_M | 484_L | 1.137 | 0.69 |
| 112_A | 116_A | 1.131 | 0.68 |
| 172_G | 176_L | 1.127 | 0.68 |
| 221_M | 228_K | 1.123 | 0.67 |
| 178_D | 182_Q | 1.114 | 0.66 |
| 218_L | 235_L | 1.114 | 0.66 |
| 147_D | 484_L | 1.101 | 0.65 |
| 147_D | 166_Q | 1.100 | 0.65 |
| 179_E | 182_Q | 1.097 | 0.65 |
| 373_Y | 412_E | 1.082 | 0.63 |
| 164_D | 168_S | 1.080 | 0.63 |
| 113_I | 125_N | 1.080 | 0.63 |
| 353_A | 413_I | 1.078 | 0.63 |
| 165_S | 485_W | 1.070 | 0.62 |
| 476_E | 479_K | 1.068 | 0.61 |
| 223_D | 487_D | 1.061 | 0.61 |
| 235_L | 239_G | 1.057 | 0.60 |
| 125_N | 131_K | 1.055 | 0.60 |
| 219_M | 222_V | 1.050 | 0.59 |
| 436_G | 458_R | 1.049 | 0.59 |
| 135_A | 176_L | 1.046 | 0.59 |
| 135_A | 217_T | 1.046 | 0.59 |
| 5_K | 13_S | 1.044 | 0.59 |
| 162_K | 476_E | 1.043 | 0.59 |
| 474_P | 478_P | 1.040 | 0.58 |
| 139_Y | 220_V | 1.039 | 0.58 |
| 136_E | 342_I | 1.032 | 0.58 |
| 210_A | 351_L | 1.031 | 0.57 |
| 393_T | 396_T | 1.030 | 0.57 |
| 474_P | 479_K | 1.028 | 0.57 |
| 135_A | 180_A | 1.027 | 0.57 |
| 228_K | 231_A | 1.025 | 0.57 |
| 417_Q | 421_L | 1.024 | 0.57 |
| 286_P | 418_W | 1.021 | 0.56 |
| 430_V | 433_R | 1.020 | 0.56 |
| 380_A | 384_Y | 1.019 | 0.56 |
| 417_Q | 420_D | 1.018 | 0.56 |
| 141_A | 145_W | 1.017 | 0.56 |
| 426_F | 430_V | 1.013 | 0.55 |
| 215_F | 443_P | 1.009 | 0.55 |
| 149_P | 169_V | 1.008 | 0.55 |
| 143_M | 166_Q | 1.008 | 0.55 |
| 410_L | 414_H | 1.006 | 0.55 |
| 150_F | 164_D | 1.006 | 0.55 |
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 | |
| 3mx3A | 2 | 0.8504 | 100 | 0.299 | Contact Map |
| 3ejnA | 1 | 0.8299 | 100 | 0.32 | Contact Map |
| 4f53A | 2 | 0.8402 | 100 | 0.326 | Contact Map |
| 3sghA | 2 | 0.8545 | 100 | 0.334 | Contact Map |
| 3ehmA | 2 | 0.8545 | 100 | 0.334 | Contact Map |
| 3cghA | 1 | 0.8811 | 100 | 0.337 | Contact Map |
| 3gzsA | 2 | 0.8504 | 100 | 0.34 | Contact Map |
| 3p1uA | 2 | 0.8648 | 100 | 0.34 | Contact Map |
| 4mruA | 2 | 0.8279 | 100 | 0.348 | Contact Map |
| 4lerA | 1 | 0.8402 | 100 | 0.359 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)