Project name: spytag

Status: done

Started: 2026-04-17 09:47:12
Settings
Chain sequence(s) A: GKVPTIVMVDAYKRYK
input PDB
Selected Chain(s) A
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]                                                (00:00:00)
[WARNING]    runJob:   Working directory already exists (possibly overwriting previous results -ow 
                       to prevent this behavior)                                                   (00:00:00)
[INFO]       runJob:   Starting aggrescan3d job on: input.pdb with A chain(s) selected             (00:00:00)
[INFO]       runJob:   Creating pdb object from: input.pdb                                         (00:00:00)
[INFO]       FoldX:    Starting FoldX energy minimalization                                        (00:00:00)
[INFO]       Analysis: Starting Aggrescan3D on folded.pdb                                          (00:00:08)
[INFO]       Auto_mut: Residue number 7 from chain A and a score of 3.630 omitted from automated   
                       muatation (excluded by the user).                                           (00:00:08)
[INFO]       Auto_mut: Residue number 6 from chain A and a score of 3.014 omitted from automated   
                       muatation (excluded by the user).                                           (00:00:08)
[INFO]       Auto_mut: Residue number 8 from chain A and a score of 2.844 omitted from automated   
                       muatation (excluded by the user).                                           (00:00:08)
[INFO]       Auto_mut: Residue number 9 from chain A and a score of 1.784 omitted from automated   
                       muatation (excluded by the user).                                           (00:00:08)
[INFO]       Auto_mut: Residue number 5 from chain A and a score of 1.378 omitted from automated   
                       muatation (excluded by the user).                                           (00:00:08)
[INFO]       Auto_mut: Residue number 3 from chain A and a score of 0.699 omitted from automated   
                       muatation (excluded by the user).                                           (00:00:08)
[INFO]       Auto_mut: Residue number 4 from chain A and a score of 0.642 omitted from automated   
                       muatation (excluded by the user).                                           (00:00:08)
[INFO]       Auto_mut: Residue number 11 from chain A and a score of -0.160 omitted from automated 
                       muatation (excluded by the user).                                           (00:00:08)
[CRITICAL]   Auto_mut: Couldn't find residues suitable for automated mutations (exceeding a        
                       threshold of -0.20). No automated mutations performed.                      (00:00:08)
[INFO]       Main:     Simulation completed successfully.                                          (00:00:08)
Show buried residues

Minimal score value
-2.1119
Maximal score value
3.6297
Average score
0.3212
Total score value
5.1389

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
mutation
1 G A -0.9410
2 K A -1.1168
3 V A 0.6994
4 P A 0.6425
5 T A 1.3783
6 I A 3.0141
7 V A 3.6297
8 M A 2.8442
9 V A 1.7845
10 D A -0.4042
11 A A -0.1601
12 Y A -0.2349
13 K A -1.6794
14 R A -2.1119
15 Y A -0.7763
16 K A -1.4292
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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.

It seems that no suitable candidates for mutation were found. Please see the simualtion's log


Laboratory of Theory of Biopolymers 2018