| Chain sequence(s) |
E: AVLSPHCEAAHFGLWRICTKRGEKNCSYF
input PDB |
| Selected Chain(s) | E |
| Distance of aggregation | 10 Å |
| FoldX usage | Yes |
| Dynamic mode | No |
| Automated mutations | Yes |
| Downloads | Download all the data |
| Simulation log |
[INFO] Logger: Verbosity set to: 2 - [INFO] (00:00:09)
[WARNING] runJob: Working directory already exists (possibly overwriting previous results -ow
to prevent this behavior) (00:00:09)
[INFO] runJob: Starting aggrescan3d job on: input.pdb with E chain(s) selected (00:00:09)
[INFO] runJob: Creating pdb object from: input.pdb (00:00:09)
[INFO] FoldX: Starting FoldX energy minimalization (00:00:09)
[INFO] Analysis: Starting Aggrescan3D on folded.pdb (00:00:38)
[INFO] Auto_mut: Residue number 83 from chain E and a score of 2.559 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 82 from chain E and a score of 2.192 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 51 from chain E and a score of 2.178 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 53 from chain E and a score of 2.028 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 34 from chain E and a score of 1.920 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 54 from chain E and a score of 1.690 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 33 from chain E and a score of 1.218 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 52 from chain E and a score of 1.072 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 35 from chain E and a score of 0.558 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 81 from chain E and a score of 0.394 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 50 from chain E and a score of 0.197 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 55 from chain E and a score of 0.188 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 49 from chain E and a score of 0.000 omitted from automated
muatation (excluded by the user). (00:00:39)
[INFO] Auto_mut: Residue number 56 from chain E and a score of 0.000 omitted from automated
muatation (excluded by the user). (00:00:39)
[CRITICAL] Auto_mut: Couldn't find residues suitable for automated mutations (exceeding a
threshold of -0.20). No automated mutations performed. (00:00:39)
[INFO] Main: Simulation completed successfully. (00:00:39)
|
The table below lists A3D score for protein residues. Residues with A3D score > 0.0000 are marked by yellow rows.
| residue index | residue name | chain | Aggrescan3D score | mutation |
|---|---|---|---|---|
| residue index | residue name | chain | Aggrescan3D score | |
| 33 | A | E | 1.2181 | |
| 34 | V | E | 1.9198 | |
| 35 | L | E | 0.5584 | |
| 36 | S | E | -0.6354 | |
| 37 | P | E | -0.8208 | |
| 38 | H | E | -1.2907 | |
| 46 | C | E | -1.7789 | |
| 47 | E | E | -3.1218 | |
| 48 | A | E | -1.8324 | |
| 49 | A | E | 0.0000 | |
| 50 | H | E | 0.1971 | |
| 51 | F | E | 2.1783 | |
| 52 | G | E | 1.0723 | |
| 53 | L | E | 2.0283 | |
| 54 | W | E | 1.6905 | |
| 55 | R | E | 0.1884 | |
| 56 | I | E | 0.0000 | |
| 57 | C | E | -0.7994 | |
| 58 | T | E | -2.4951 | |
| 59 | K | E | -4.1269 | |
| 60 | R | E | -3.9645 | |
| 76 | G | E | -2.6251 | |
| 77 | E | E | -4.1754 | |
| 78 | K | E | -4.2245 | |
| 79 | N | E | -3.1692 | |
| 80 | C | E | -1.2879 | |
| 81 | S | E | 0.3936 | |
| 82 | Y | E | 2.1921 | |
| 83 | F | E | 2.5589 |
Automated mutations analysis
In the automated mutations mode, the server selects aggregation prone resides
and each selected residue is mutated to glutamic acid, lysine, aspartic acid and arginine.
The table below shows 2 best scored mutants for each mutated residue. Protein variants
are ordered according to the mutation effect they had on protein stability
(energetic effect) together with the difference in the average per-residue aggregation score
between the wild type and the mutant (in the table green values indicate a positive change,
grey are neutral, and orange/red mean destabilizing or more aggregation prone mutants).
Summary for all the mutants can be found in this
CSV file.