| JULY30_eIF2B_human_epsilon 1-470 |
| ID: | 1501533641 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 470 (420) | ||
| Sequences: | 1003 (658.2) | ||
| Seq/Len: | 2.388 | ||
| Nf(neff/√len): | 32.1 |
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: 2.388).
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 |
| 396_L | 402_V | 4.987 | 1.00 |
| 391_L | 394_T | 4.344 | 1.00 |
| 425_L | 431_L | 3.554 | 1.00 |
| 394_T | 408_I | 3.422 | 1.00 |
| 408_I | 411_S | 3.357 | 1.00 |
| 386_G | 404_A | 3.005 | 1.00 |
| 396_L | 400_V | 2.915 | 1.00 |
| 413_L | 419_V | 2.889 | 1.00 |
| 374_I | 377_S | 2.733 | 1.00 |
| 382_G | 399_G | 2.634 | 1.00 |
| 403_A | 421_E | 2.632 | 1.00 |
| 377_S | 391_L | 2.544 | 1.00 |
| 168_H | 182_T | 2.506 | 1.00 |
| 406_A | 423_V | 2.477 | 1.00 |
| 413_L | 417_A | 2.470 | 1.00 |
| 389_V | 404_A | 2.150 | 1.00 |
| 383_C | 400_V | 2.127 | 1.00 |
| 80_L | 91_T | 2.101 | 1.00 |
| 372_C | 389_V | 2.101 | 1.00 |
| 391_L | 396_L | 2.078 | 1.00 |
| 387_D | 404_A | 2.071 | 1.00 |
| 65_R | 154_D | 2.033 | 0.99 |
| 381_P | 398_Q | 2.004 | 0.99 |
| 46_V | 92_F | 2.002 | 0.99 |
| 166_E | 170_L | 2.001 | 0.99 |
| 411_S | 429_S | 1.990 | 0.99 |
| 421_E | 439_P | 1.980 | 0.99 |
| 408_I | 425_L | 1.979 | 0.99 |
| 392_D | 409_H | 1.975 | 0.99 |
| 369_G | 387_D | 1.941 | 0.99 |
| 425_L | 429_S | 1.939 | 0.99 |
| 164_A | 251_I | 1.921 | 0.99 |
| 420_K | 439_P | 1.921 | 0.99 |
| 379_I | 396_L | 1.919 | 0.99 |
| 53_D | 65_R | 1.855 | 0.99 |
| 383_C | 396_L | 1.831 | 0.99 |
| 133_D | 136_R | 1.816 | 0.98 |
| 379_I | 385_I | 1.774 | 0.98 |
| 181_M | 252_C | 1.757 | 0.98 |
| 408_I | 413_L | 1.755 | 0.98 |
| 348_V | 366_T | 1.754 | 0.98 |
| 47_L | 80_L | 1.732 | 0.98 |
| 372_C | 404_A | 1.731 | 0.98 |
| 296_Y | 312_D | 1.726 | 0.98 |
| 164_A | 184_I | 1.674 | 0.97 |
| 77_D | 105_H | 1.661 | 0.97 |
| 384_H | 401_R | 1.629 | 0.96 |
| 362_L | 382_G | 1.593 | 0.96 |
| 367_V | 384_H | 1.567 | 0.95 |
| 91_T | 118_N | 1.538 | 0.94 |
| 156_I | 309_V | 1.532 | 0.94 |
| 64_P | 67_L | 1.525 | 0.94 |
| 389_V | 421_E | 1.516 | 0.94 |
| 400_V | 413_L | 1.516 | 0.94 |
| 389_V | 406_A | 1.504 | 0.94 |
| 163_R | 166_E | 1.495 | 0.93 |
| 400_V | 414_C | 1.466 | 0.92 |
| 90_E | 119_V | 1.462 | 0.92 |
| 154_D | 299_R | 1.458 | 0.92 |
| 419_V | 425_L | 1.457 | 0.92 |
| 45_A | 88_V | 1.455 | 0.92 |
| 414_C | 433_S | 1.448 | 0.92 |
| 356_L | 360_V | 1.422 | 0.91 |
| 388_N | 405_G | 1.421 | 0.91 |
| 356_L | 362_L | 1.420 | 0.91 |
| 365_G | 382_G | 1.419 | 0.91 |
| 212_V | 289_M | 1.409 | 0.90 |
| 389_V | 403_A | 1.402 | 0.90 |
| 307_S | 395_Y | 1.384 | 0.89 |
| 353_G | 370_S | 1.376 | 0.89 |
| 405_G | 422_R | 1.342 | 0.87 |
| 60_S | 154_D | 1.329 | 0.86 |
| 374_I | 392_D | 1.328 | 0.86 |
| 94_F | 125_S | 1.327 | 0.86 |
| 68_L | 397_W | 1.327 | 0.86 |
| 391_L | 407_Q | 1.319 | 0.86 |
| 45_A | 181_M | 1.310 | 0.85 |
| 351_G | 370_S | 1.305 | 0.85 |
| 373_F | 390_V | 1.304 | 0.85 |
| 404_A | 421_E | 1.302 | 0.85 |
| 350_L | 354_S | 1.292 | 0.84 |
| 413_L | 440_N | 1.282 | 0.84 |
| 416_N | 425_L | 1.279 | 0.83 |
| 266_Y | 272_F | 1.265 | 0.82 |
| 147_D | 253_S | 1.254 | 0.82 |
| 419_V | 423_V | 1.250 | 0.81 |
| 76_I | 93_V | 1.241 | 0.81 |
| 420_K | 436_V | 1.239 | 0.81 |
| 366_T | 383_C | 1.235 | 0.80 |
| 160_N | 163_R | 1.234 | 0.80 |
| 75_L | 300_V | 1.224 | 0.80 |
| 405_G | 421_E | 1.210 | 0.78 |
| 426_K | 445_E | 1.209 | 0.78 |
| 374_I | 379_I | 1.203 | 0.78 |
| 423_V | 447_S | 1.202 | 0.78 |
| 155_V | 245_L | 1.196 | 0.77 |
| 429_S | 443_L | 1.195 | 0.77 |
| 423_V | 439_P | 1.193 | 0.77 |
| 437_V | 449_I | 1.188 | 0.77 |
| 403_A | 423_V | 1.187 | 0.77 |
| 345_G | 381_P | 1.180 | 0.76 |
| 70_L | 156_I | 1.175 | 0.76 |
| 71_A | 361_L | 1.174 | 0.75 |
| 167_E | 171_R | 1.172 | 0.75 |
| 423_V | 441_I | 1.170 | 0.75 |
| 376_N | 393_Q | 1.170 | 0.75 |
| 399_G | 415_D | 1.169 | 0.75 |
| 380_G | 398_Q | 1.163 | 0.75 |
| 403_A | 420_K | 1.162 | 0.74 |
| 375_T | 392_D | 1.158 | 0.74 |
| 274_R | 282_I | 1.157 | 0.74 |
| 383_C | 398_Q | 1.151 | 0.73 |
| 369_G | 389_V | 1.146 | 0.73 |
| 47_L | 91_T | 1.144 | 0.73 |
| 156_I | 300_V | 1.142 | 0.73 |
| 253_S | 260_F | 1.141 | 0.72 |
| 314_I | 361_L | 1.139 | 0.72 |
| 404_A | 422_R | 1.138 | 0.72 |
| 369_G | 386_G | 1.135 | 0.72 |
| 55_R | 65_R | 1.133 | 0.72 |
| 390_V | 409_H | 1.128 | 0.71 |
| 444_P | 447_S | 1.127 | 0.71 |
| 403_A | 415_D | 1.127 | 0.71 |
| 250_S | 269_R | 1.126 | 0.71 |
| 341_N | 359_N | 1.123 | 0.71 |
| 397_W | 414_C | 1.120 | 0.70 |
| 48_V | 250_S | 1.118 | 0.70 |
| 362_L | 368_I | 1.118 | 0.70 |
| 70_L | 396_L | 1.113 | 0.70 |
| 359_N | 376_N | 1.106 | 0.69 |
| 382_G | 434_Q | 1.106 | 0.69 |
| 385_I | 389_V | 1.103 | 0.69 |
| 49_A | 93_V | 1.101 | 0.69 |
| 149_L | 415_D | 1.100 | 0.69 |
| 180_V | 285_N | 1.096 | 0.68 |
| 396_L | 413_L | 1.092 | 0.68 |
| 384_H | 416_N | 1.091 | 0.68 |
| 398_Q | 415_D | 1.089 | 0.67 |
| 159_I | 368_I | 1.088 | 0.67 |
| 372_C | 385_I | 1.087 | 0.67 |
| 147_D | 169_R | 1.087 | 0.67 |
| 425_L | 437_V | 1.085 | 0.67 |
| 50_D | 65_R | 1.083 | 0.67 |
| 256_V | 263_N | 1.080 | 0.66 |
| 260_F | 264_F | 1.070 | 0.65 |
| 438_G | 441_I | 1.056 | 0.64 |
| 320_P | 323_P | 1.055 | 0.64 |
| 369_G | 383_C | 1.054 | 0.64 |
| 66_V | 212_V | 1.054 | 0.64 |
| 371_N | 388_N | 1.052 | 0.63 |
| 369_G | 404_A | 1.047 | 0.63 |
| 47_L | 151_V | 1.046 | 0.63 |
| 76_I | 146_S | 1.045 | 0.63 |
| 129_R | 137_D | 1.043 | 0.62 |
| 76_I | 106_L | 1.042 | 0.62 |
| 56_F | 82_F | 1.042 | 0.62 |
| 67_L | 74_A | 1.042 | 0.62 |
| 437_V | 443_L | 1.034 | 0.61 |
| 379_I | 383_C | 1.031 | 0.61 |
| 303_L | 402_V | 1.030 | 0.61 |
| 348_V | 391_L | 1.028 | 0.61 |
| 413_L | 442_T | 1.021 | 0.60 |
| 45_A | 136_R | 1.019 | 0.60 |
| 388_N | 440_N | 1.018 | 0.60 |
| 288_H | 413_L | 1.017 | 0.60 |
| 210_N | 291_V | 1.016 | 0.59 |
| 272_F | 275_G | 1.016 | 0.59 |
| 51_S | 65_R | 1.014 | 0.59 |
| 271_D | 406_A | 1.013 | 0.59 |
| 246_D | 299_R | 1.011 | 0.59 |
| 47_L | 200_N | 1.008 | 0.59 |
| 400_V | 429_S | 1.003 | 0.58 |
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 | |
| 1yp2A | 4 | 0.817 | 100 | 0.621 | Contact Map |
| 3brkX | 1 | 0.7553 | 100 | 0.629 | Contact Map |
| 2ggoA | 1 | 0.7638 | 100 | 0.645 | Contact Map |
| 4g3qA | 1 | 0.8213 | 100 | 0.656 | Contact Map |
| 1hm9A | 2 | 0.7872 | 100 | 0.658 | Contact Map |
| 2v0hA | 1 | 0.7872 | 100 | 0.661 | Contact Map |
| 4fceA | 1 | 0.7745 | 100 | 0.668 | Contact Map |
| 2icyA | 2 | 0.7702 | 100 | 0.748 | Contact Map |
| 2i5kA | 2 | 0.7468 | 100 | 0.766 | Contact Map |
| 3jukA | 4 | 0.5064 | 100 | 0.775 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)