| JULY30_eIF2B_human_gamma |
| ID: | 1501460767 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 452 (445) | ||
| Sequences: | 919 (558) | ||
| Seq/Len: | 2.065 | ||
| Nf(neff/√len): | 26.5 |
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: 2.065).
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 |
| 392_L | 398_V | 5.621 | 1.00 |
| 390_C | 404_I | 4.871 | 1.00 |
| 121_F | 129_A | 3.614 | 1.00 |
| 387_I | 390_C | 3.427 | 1.00 |
| 404_I | 407_S | 3.264 | 1.00 |
| 378_S | 395_S | 3.154 | 1.00 |
| 399_E | 417_K | 3.071 | 1.00 |
| 409_I | 415_I | 2.958 | 1.00 |
| 382_K | 400_E | 2.773 | 1.00 |
| 385_V | 400_E | 2.720 | 1.00 |
| 368_S | 385_V | 2.677 | 1.00 |
| 373_S | 387_I | 2.595 | 1.00 |
| 409_I | 413_A | 2.500 | 1.00 |
| 387_I | 392_L | 2.300 | 1.00 |
| 25_K | 107_D | 2.268 | 1.00 |
| 421_I | 426_I | 2.201 | 1.00 |
| 402_S | 419_A | 2.189 | 1.00 |
| 392_L | 396_V | 2.091 | 0.99 |
| 368_S | 400_E | 2.059 | 0.99 |
| 107_D | 312_R | 2.049 | 0.99 |
| 30_V | 35_L | 2.029 | 0.99 |
| 40_L | 51_V | 1.999 | 0.99 |
| 88_D | 91_R | 1.975 | 0.99 |
| 48_F | 102_L | 1.948 | 0.99 |
| 383_D | 400_E | 1.905 | 0.99 |
| 370_I | 373_S | 1.856 | 0.98 |
| 352_V | 356_S | 1.827 | 0.98 |
| 375_I | 379_C | 1.805 | 0.98 |
| 365_G | 383_D | 1.794 | 0.98 |
| 404_I | 421_I | 1.750 | 0.97 |
| 13_G | 25_K | 1.720 | 0.97 |
| 7_V | 40_L | 1.718 | 0.97 |
| 309_L | 325_Q | 1.699 | 0.96 |
| 416_E | 431_R | 1.675 | 0.96 |
| 313_V | 322_A | 1.660 | 0.96 |
| 417_K | 434_A | 1.660 | 0.96 |
| 320_M | 391_L | 1.657 | 0.96 |
| 377_S | 394_N | 1.600 | 0.94 |
| 24_P | 27_L | 1.599 | 0.94 |
| 379_C | 392_L | 1.591 | 0.94 |
| 327_P | 357_L | 1.581 | 0.94 |
| 130_M | 167_L | 1.580 | 0.94 |
| 105_S | 203_H | 1.579 | 0.94 |
| 396_V | 410_C | 1.578 | 0.94 |
| 385_V | 417_K | 1.551 | 0.93 |
| 380_L | 397_T | 1.546 | 0.93 |
| 364_I | 370_I | 1.541 | 0.93 |
| 416_E | 434_A | 1.539 | 0.93 |
| 361_E | 387_I | 1.539 | 0.93 |
| 25_K | 35_L | 1.530 | 0.93 |
| 399_E | 419_A | 1.512 | 0.92 |
| 103_V | 224_I | 1.503 | 0.92 |
| 224_I | 228_L | 1.499 | 0.92 |
| 387_I | 403_N | 1.469 | 0.90 |
| 370_I | 375_I | 1.463 | 0.90 |
| 407_S | 424_C | 1.438 | 0.89 |
| 400_E | 417_K | 1.429 | 0.89 |
| 363_Q | 380_L | 1.426 | 0.89 |
| 433_E | 436_A | 1.423 | 0.88 |
| 361_E | 378_S | 1.415 | 0.88 |
| 421_I | 424_C | 1.408 | 0.88 |
| 415_I | 421_I | 1.387 | 0.87 |
| 358_I | 378_S | 1.385 | 0.87 |
| 399_E | 416_E | 1.378 | 0.86 |
| 365_G | 400_E | 1.363 | 0.85 |
| 20_T | 107_D | 1.362 | 0.85 |
| 404_I | 409_I | 1.350 | 0.85 |
| 8_M | 205_Y | 1.347 | 0.84 |
| 384_R | 400_E | 1.343 | 0.84 |
| 362_T | 379_C | 1.339 | 0.84 |
| 27_L | 34_P | 1.337 | 0.84 |
| 25_K | 312_R | 1.336 | 0.84 |
| 84_M | 92_Y | 1.323 | 0.83 |
| 24_P | 34_P | 1.316 | 0.83 |
| 388_T | 405_Q | 1.309 | 0.82 |
| 132_M | 158_I | 1.305 | 0.82 |
| 208_K | 233_V | 1.285 | 0.80 |
| 97_L | 101_V | 1.285 | 0.80 |
| 6_V | 9_A | 1.282 | 0.80 |
| 207_L | 224_I | 1.278 | 0.80 |
| 399_E | 402_S | 1.277 | 0.80 |
| 158_I | 167_L | 1.269 | 0.79 |
| 396_V | 442_V | 1.266 | 0.79 |
| 73_P | 78_I | 1.264 | 0.79 |
| 402_S | 416_E | 1.262 | 0.79 |
| 346_I | 350_H | 1.261 | 0.79 |
| 392_L | 409_I | 1.250 | 0.78 |
| 385_V | 398_V | 1.236 | 0.77 |
| 39_P | 104_L | 1.225 | 0.76 |
| 2_E | 122_R | 1.224 | 0.76 |
| 358_I | 398_V | 1.220 | 0.75 |
| 341_H | 377_S | 1.209 | 0.74 |
| 11_G | 25_K | 1.208 | 0.74 |
| 36_I | 206_C | 1.202 | 0.74 |
| 78_I | 206_C | 1.200 | 0.74 |
| 368_S | 387_I | 1.199 | 0.74 |
| 413_A | 426_I | 1.198 | 0.74 |
| 379_C | 396_V | 1.197 | 0.73 |
| 439_V | 442_V | 1.196 | 0.73 |
| 266_F | 269_E | 1.195 | 0.73 |
| 209_K | 213_D | 1.190 | 0.73 |
| 34_P | 38_Y | 1.190 | 0.73 |
| 407_S | 415_I | 1.189 | 0.73 |
| 35_L | 230_P | 1.184 | 0.72 |
| 410_C | 428_S | 1.183 | 0.72 |
| 19_L | 230_P | 1.181 | 0.72 |
| 401_G | 418_G | 1.177 | 0.72 |
| 10_V | 25_K | 1.176 | 0.72 |
| 438_R | 443_I | 1.171 | 0.71 |
| 396_V | 402_S | 1.166 | 0.71 |
| 384_R | 401_G | 1.161 | 0.70 |
| 85_G | 103_V | 1.157 | 0.70 |
| 15_R | 25_K | 1.151 | 0.69 |
| 25_K | 86_T | 1.145 | 0.69 |
| 105_S | 108_L | 1.141 | 0.68 |
| 35_L | 39_P | 1.140 | 0.68 |
| 251_E | 257_E | 1.138 | 0.68 |
| 375_I | 381_I | 1.138 | 0.68 |
| 314_S | 324_R | 1.136 | 0.68 |
| 126_A | 132_M | 1.126 | 0.67 |
| 419_A | 436_A | 1.123 | 0.66 |
| 355_D | 372_R | 1.123 | 0.66 |
| 370_I | 388_T | 1.122 | 0.66 |
| 412_N | 421_I | 1.121 | 0.66 |
| 25_K | 105_S | 1.119 | 0.66 |
| 367_K | 371_K | 1.116 | 0.66 |
| 29_P | 34_P | 1.114 | 0.66 |
| 97_L | 336_E | 1.114 | 0.66 |
| 332_A | 335_P | 1.112 | 0.65 |
| 393_M | 410_C | 1.112 | 0.65 |
| 109_I | 374_V | 1.112 | 0.65 |
| 101_V | 207_L | 1.112 | 0.65 |
| 182_I | 403_N | 1.111 | 0.65 |
| 285_C | 288_D | 1.111 | 0.65 |
| 30_V | 109_I | 1.103 | 0.64 |
| 8_M | 86_T | 1.098 | 0.64 |
| 235_K | 238_S | 1.097 | 0.64 |
| 112_V | 364_I | 1.096 | 0.64 |
| 374_V | 391_L | 1.094 | 0.64 |
| 267_I | 274_N | 1.089 | 0.63 |
| 34_P | 37_W | 1.079 | 0.62 |
| 415_I | 426_I | 1.079 | 0.62 |
| 359_G | 362_T | 1.074 | 0.61 |
| 29_P | 379_C | 1.072 | 0.61 |
| 429_G | 435_K | 1.068 | 0.61 |
| 3_F | 122_R | 1.062 | 0.60 |
| 25_K | 205_Y | 1.062 | 0.60 |
| 110_T | 387_I | 1.062 | 0.60 |
| 390_C | 407_S | 1.059 | 0.60 |
| 112_V | 131_L | 1.058 | 0.60 |
| 48_F | 429_G | 1.058 | 0.60 |
| 155_R | 197_T | 1.053 | 0.59 |
| 326_V | 408_V | 1.052 | 0.59 |
| 233_V | 236_Q | 1.050 | 0.59 |
| 365_G | 412_N | 1.049 | 0.59 |
| 205_Y | 210_Y | 1.048 | 0.59 |
| 234_R | 238_S | 1.047 | 0.58 |
| 414_V | 431_R | 1.047 | 0.58 |
| 281_C | 284_A | 1.043 | 0.58 |
| 371_K | 388_T | 1.041 | 0.58 |
| 15_R | 26_P | 1.040 | 0.58 |
| 224_I | 229_I | 1.040 | 0.58 |
| 87_A | 215_L | 1.040 | 0.58 |
| 164_G | 389_N | 1.040 | 0.58 |
| 32_N | 359_G | 1.039 | 0.58 |
| 365_G | 368_S | 1.038 | 0.57 |
| 125_D | 409_I | 1.035 | 0.57 |
| 414_V | 417_K | 1.035 | 0.57 |
| 86_T | 205_Y | 1.031 | 0.57 |
| 200_V | 424_C | 1.030 | 0.57 |
| 395_S | 402_S | 1.030 | 0.57 |
| 394_N | 411_N | 1.030 | 0.57 |
| 35_L | 313_V | 1.029 | 0.56 |
| 89_S | 336_E | 1.027 | 0.56 |
| 223_S | 226_S | 1.025 | 0.56 |
| 376_G | 379_C | 1.023 | 0.56 |
| 102_L | 411_N | 1.022 | 0.56 |
| 103_V | 315_T | 1.020 | 0.55 |
| 113_A | 409_I | 1.020 | 0.55 |
| 197_T | 205_Y | 1.018 | 0.55 |
| 49_E | 114_L | 1.018 | 0.55 |
| 409_I | 426_I | 1.016 | 0.55 |
| 251_E | 256_K | 1.013 | 0.55 |
| 80_D | 120_L | 1.012 | 0.55 |
| 128_L | 229_I | 1.012 | 0.55 |
| 385_V | 399_E | 1.007 | 0.54 |
| 32_N | 38_Y | 1.004 | 0.54 |
| 329_L | 335_P | 1.001 | 0.53 |
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 | |
| 3brkX | 1 | 0.7522 | 100 | 0.575 | Contact Map |
| 1yp2A | 4 | 0.8053 | 100 | 0.579 | Contact Map |
| 2ggoA | 1 | 0.7633 | 100 | 0.615 | Contact Map |
| 1hm9A | 2 | 0.7788 | 100 | 0.629 | Contact Map |
| 4g3qA | 1 | 0.7965 | 100 | 0.637 | Contact Map |
| 2v0hA | 1 | 0.7898 | 100 | 0.648 | Contact Map |
| 4fceA | 1 | 0.7788 | 100 | 0.657 | Contact Map |
| 2icyA | 2 | 0.7345 | 100 | 0.708 | Contact Map |
| 2i5kA | 2 | 0.7434 | 100 | 0.729 | Contact Map |
| 4r7pA | 4 | 0 | 100 | 0.743 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)