| AKT1 |
| ID: | 1503584126 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 480 (450) | ||
| Sequences: | 3308 (2544.1) | ||
| Seq/Len: | 7.351 | ||
| Nf(neff/√len): | 119.9 |
Jackhmmer Results: (2016_04)
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: 7.351).
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 |
| 247_E | 373_G | 3.564 | 1.00 |
| 378_S | 405_H | 3.323 | 1.00 |
| 167_V | 178_M | 3.089 | 1.00 |
| 228_E | 289_K | 2.790 | 1.00 |
| 262_D | 403_M | 2.772 | 1.00 |
| 254_G | 339_M | 2.748 | 1.00 |
| 378_S | 382_G | 2.723 | 1.00 |
| 256_E | 287_H | 2.681 | 1.00 |
| 343_M | 376_A | 2.472 | 1.00 |
| 167_V | 176_Y | 2.292 | 1.00 |
| 385_K | 390_Q | 2.282 | 1.00 |
| 260_A | 290_I | 2.260 | 1.00 |
| 332_W | 383_L | 2.056 | 1.00 |
| 415_D | 420_K | 2.046 | 1.00 |
| 151_E | 168_K | 2.011 | 1.00 |
| 275_L | 338_V | 1.886 | 1.00 |
| 339_M | 379_L | 1.856 | 1.00 |
| 250_A | 339_M | 1.831 | 1.00 |
| 261_L | 335_L | 1.791 | 1.00 |
| 412_V | 415_D | 1.789 | 1.00 |
| 247_E | 407_F | 1.763 | 1.00 |
| 207_H | 263_Y | 1.721 | 1.00 |
| 251_R | 410_N | 1.706 | 1.00 |
| 387_D | 390_Q | 1.704 | 1.00 |
| 150_F | 215_Y | 1.689 | 1.00 |
| 206_R | 212_A | 1.674 | 1.00 |
| 151_E | 170_K | 1.674 | 1.00 |
| 236_F | 278_E | 1.660 | 1.00 |
| 213_L | 225_F | 1.642 | 1.00 |
| 46_D | 50_S | 1.620 | 1.00 |
| 154_K | 166_L | 1.605 | 1.00 |
| 262_D | 400_K | 1.567 | 1.00 |
| 262_D | 266_S | 1.562 | 1.00 |
| 254_G | 335_L | 1.558 | 1.00 |
| 183_K | 218_Q | 1.555 | 1.00 |
| 281_M | 291_T | 1.545 | 1.00 |
| 382_G | 392_L | 1.540 | 1.00 |
| 344_C | 372_L | 1.518 | 0.99 |
| 51_P | 54_N | 1.515 | 0.99 |
| 91_E | 94_E | 1.512 | 0.99 |
| 49_E | 52_L | 1.503 | 0.99 |
| 62_L | 65_T | 1.501 | 0.99 |
| 326_Y | 330_V | 1.477 | 0.99 |
| 60_C | 65_T | 1.470 | 0.99 |
| 258_V | 402_I | 1.468 | 0.99 |
| 166_L | 175_Y | 1.467 | 0.99 |
| 178_M | 226_V | 1.455 | 0.99 |
| 214_K | 228_E | 1.437 | 0.99 |
| 258_V | 335_L | 1.436 | 0.99 |
| 66_E | 69_R | 1.409 | 0.99 |
| 169_E | 172_T | 1.405 | 0.99 |
| 364_E | 386_K | 1.394 | 0.99 |
| 93_P | 96_R | 1.377 | 0.99 |
| 44_D | 47_Q | 1.372 | 0.99 |
| 379_L | 402_I | 1.372 | 0.99 |
| 92_T | 95_E | 1.367 | 0.99 |
| 42_P | 45_V | 1.356 | 0.99 |
| 81_T | 84_I | 1.355 | 0.99 |
| 63_M | 66_E | 1.354 | 0.99 |
| 67_R | 71_N | 1.353 | 0.98 |
| 351_N | 356_K | 1.351 | 0.98 |
| 46_D | 49_E | 1.344 | 0.98 |
| 81_T | 85_E | 1.335 | 0.98 |
| 40_E | 43_Q | 1.334 | 0.98 |
| 125_P | 128_N | 1.332 | 0.98 |
| 44_D | 48_R | 1.325 | 0.98 |
| 62_L | 66_E | 1.324 | 0.98 |
| 41_R | 44_D | 1.320 | 0.98 |
| 95_E | 100_A | 1.307 | 0.98 |
| 73_F | 76_R | 1.305 | 0.98 |
| 57_V | 60_C | 1.303 | 0.98 |
| 250_A | 343_M | 1.298 | 0.98 |
| 95_E | 99_W | 1.290 | 0.98 |
| 329_A | 393_G | 1.276 | 0.98 |
| 276_K | 312_T | 1.275 | 0.98 |
| 48_R | 52_L | 1.269 | 0.97 |
| 76_R | 79_Q | 1.257 | 0.97 |
| 50_S | 54_N | 1.254 | 0.97 |
| 59_Q | 62_L | 1.251 | 0.97 |
| 277_L | 315_Y | 1.249 | 0.97 |
| 234_E | 278_E | 1.248 | 0.97 |
| 96_R | 99_W | 1.246 | 0.97 |
| 75_I | 79_Q | 1.238 | 0.97 |
| 104_Q | 108_D | 1.235 | 0.97 |
| 122_S | 125_P | 1.224 | 0.97 |
| 61_Q | 66_E | 1.221 | 0.97 |
| 70_P | 73_F | 1.220 | 0.97 |
| 65_T | 70_P | 1.220 | 0.97 |
| 117_T | 121_R | 1.218 | 0.97 |
| 262_D | 399_A | 1.215 | 0.96 |
| 317_A | 330_V | 1.195 | 0.96 |
| 400_K | 404_Q | 1.194 | 0.96 |
| 332_W | 399_A | 1.187 | 0.96 |
| 100_A | 105_T | 1.181 | 0.96 |
| 61_Q | 73_F | 1.177 | 0.96 |
| 166_L | 229_Y | 1.176 | 0.96 |
| 109_G | 112_R | 1.174 | 0.95 |
| 155_L | 158_K | 1.173 | 0.95 |
| 59_Q | 63_M | 1.173 | 0.95 |
| 107_A | 110_L | 1.173 | 0.95 |
| 64_K | 68_P | 1.172 | 0.95 |
| 248_D | 251_R | 1.171 | 0.95 |
| 311_G | 348_P | 1.171 | 0.95 |
| 81_T | 86_R | 1.164 | 0.95 |
| 110_L | 113_Q | 1.149 | 0.95 |
| 111_K | 114_E | 1.144 | 0.95 |
| 45_V | 49_E | 1.142 | 0.95 |
| 73_F | 79_Q | 1.138 | 0.94 |
| 106_V | 109_G | 1.138 | 0.94 |
| 108_D | 111_K | 1.132 | 0.94 |
| 159_G | 177_A | 1.131 | 0.94 |
| 54_N | 57_V | 1.129 | 0.94 |
| 379_L | 392_L | 1.122 | 0.94 |
| 379_L | 408_F | 1.122 | 0.94 |
| 423_P | 427_P | 1.117 | 0.94 |
| 34_T | 37_G | 1.115 | 0.94 |
| 66_E | 70_P | 1.115 | 0.94 |
| 230_A | 289_K | 1.114 | 0.94 |
| 297_K | 306_M | 1.111 | 0.93 |
| 74_I | 77_C | 1.110 | 0.93 |
| 430_T | 436_R | 1.110 | 0.93 |
| 45_V | 48_R | 1.109 | 0.93 |
| 447_I | 450_T | 1.108 | 0.93 |
| 68_P | 71_N | 1.108 | 0.93 |
| 60_C | 64_K | 1.108 | 0.93 |
| 58_A | 61_Q | 1.107 | 0.93 |
| 115_E | 118_M | 1.107 | 0.93 |
| 332_W | 402_I | 1.101 | 0.93 |
| 31_N | 34_T | 1.100 | 0.93 |
| 61_Q | 65_T | 1.098 | 0.93 |
| 112_R | 115_E | 1.097 | 0.93 |
| 77_C | 82_T | 1.096 | 0.93 |
| 379_L | 405_H | 1.092 | 0.93 |
| 100_A | 104_Q | 1.088 | 0.92 |
| 63_M | 67_R | 1.083 | 0.92 |
| 72_T | 76_R | 1.083 | 0.92 |
| 64_K | 69_R | 1.080 | 0.92 |
| 66_E | 71_N | 1.079 | 0.92 |
| 70_P | 74_I | 1.078 | 0.92 |
| 39_K | 43_Q | 1.078 | 0.92 |
| 105_T | 111_K | 1.077 | 0.92 |
| 52_L | 56_S | 1.077 | 0.92 |
| 119_D | 122_S | 1.075 | 0.92 |
| 47_Q | 50_S | 1.075 | 0.92 |
| 78_L | 83_V | 1.074 | 0.92 |
| 434_D | 438_F | 1.073 | 0.92 |
| 90_V | 93_P | 1.070 | 0.92 |
| 64_K | 67_R | 1.068 | 0.92 |
| 43_Q | 47_Q | 1.067 | 0.91 |
| 36_I | 40_E | 1.066 | 0.91 |
| 38_Y | 41_R | 1.065 | 0.91 |
| 106_V | 110_L | 1.064 | 0.91 |
| 72_T | 75_I | 1.063 | 0.91 |
| 155_L | 163_K | 1.061 | 0.91 |
| 372_L | 380_L | 1.059 | 0.91 |
| 65_T | 69_R | 1.058 | 0.91 |
| 64_K | 71_N | 1.058 | 0.91 |
| 51_P | 55_F | 1.058 | 0.91 |
| 89_H | 92_T | 1.057 | 0.91 |
| 100_A | 103_I | 1.055 | 0.91 |
| 98_E | 102_A | 1.054 | 0.91 |
| 82_T | 86_R | 1.052 | 0.91 |
| 126_S | 129_S | 1.050 | 0.91 |
| 368_F | 377_K | 1.044 | 0.90 |
| 74_I | 78_L | 1.044 | 0.90 |
| 78_L | 82_T | 1.043 | 0.90 |
| 60_C | 63_M | 1.042 | 0.90 |
| 76_R | 83_V | 1.039 | 0.90 |
| 380_L | 384_L | 1.038 | 0.90 |
| 79_Q | 82_T | 1.035 | 0.90 |
| 49_E | 53_N | 1.033 | 0.90 |
| 120_F | 123_G | 1.033 | 0.90 |
| 52_L | 55_F | 1.031 | 0.90 |
| 333_W | 349_F | 1.031 | 0.90 |
| 54_N | 58_A | 1.029 | 0.89 |
| 81_T | 87_T | 1.027 | 0.89 |
| 107_A | 111_K | 1.027 | 0.89 |
| 78_L | 81_T | 1.026 | 0.89 |
| 123_G | 126_S | 1.026 | 0.89 |
| 71_N | 74_I | 1.026 | 0.89 |
| 128_N | 131_A | 1.024 | 0.89 |
| 56_S | 64_K | 1.023 | 0.89 |
| 48_R | 51_P | 1.022 | 0.89 |
| 43_Q | 46_D | 1.021 | 0.89 |
| 283_D | 287_H | 1.021 | 0.89 |
| 53_N | 56_S | 1.020 | 0.89 |
| 152_Y | 167_V | 1.019 | 0.89 |
| 424_P | 427_P | 1.017 | 0.89 |
| 155_L | 165_I | 1.016 | 0.89 |
| 80_W | 83_V | 1.015 | 0.89 |
| 37_G | 43_Q | 1.014 | 0.88 |
| 467_P | 470_P | 1.014 | 0.88 |
| 76_R | 82_T | 1.014 | 0.88 |
| 115_E | 121_R | 1.011 | 0.88 |
| 59_Q | 65_T | 1.009 | 0.88 |
| 71_N | 82_T | 1.008 | 0.88 |
| 106_V | 113_Q | 1.008 | 0.88 |
| 448_T | 453_D | 1.008 | 0.88 |
| 38_Y | 43_Q | 1.008 | 0.88 |
| 94_E | 97_E | 1.007 | 0.88 |
| 103_I | 107_A | 1.006 | 0.88 |
| 427_P | 434_D | 1.005 | 0.88 |
| 315_Y | 341_E | 1.000 | 0.88 |
| 280_L | 290_I | 1.000 | 0.88 |
| 379_L | 383_L | 1.000 | 0.88 |
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 | |
| 4ejnA | 1 | 0.7833 | 100 | 0.263 | Contact Map |
| 4gv1A | 1 | 0.6854 | 100 | 0.304 | Contact Map |
| 4lqsA | 1 | 0.7229 | 100 | 0.324 | Contact Map |
| 4dc2A | 1 | 0.6729 | 100 | 0.325 | Contact Map |
| 2i0eA | 2 | 0.6729 | 100 | 0.334 | Contact Map |
| 3pfqA | 1 | 0.7979 | 100 | 0.337 | Contact Map |
| 3txoA | 1 | 0.6562 | 100 | 0.338 | Contact Map |
| 4aw2A | 1 | 0.7896 | 100 | 0.338 | Contact Map |
| 2r5tA | 1 | 0.5896 | 100 | 0.339 | Contact Map |
| 1xjdA | 1 | 0.5792 | 100 | 0.34 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)