Project name: d5d220fec1b8430

Status: done

Started: 2026-05-08 23:03:41
Chain sequence(s) A: MFEFKFEFKDDDDKEGTFTSDVSSYLEGQAAKEFIAWLVRGRG
input PDB
Selected Chain(s) A
Distance of aggregation 10 Å
FoldX usage Yes
pH calculations No
alphaCutter usage No
Dynamic mode Yes
Automated mutations No
Downloads Download all the data
Simulation log
[INFO]       Logger:   Verbosity set to: 2 - [INFO]                                                (00:00:01)
[WARNING]    runJob:   Working directory already exists (possibly overwriting previous results -ow 
                       to prevent this behavior)                                                   (00:00:01)
[INFO]       runJob:   Starting aggrescan3d job on: input.pdb with A chain(s) selected             (00:00:01)
[INFO]       runJob:   Creating pdb object from: input.pdb                                         (00:00:01)
[INFO]       FoldX:    Starting FoldX energy minimization                                          (00:00:01)
[INFO]       CABS:     Running CABS flex simulation                                                (00:00:43)
[INFO]       Analysis: Starting Aggrescan4D on model_8.pdb                                         (00:04:40)
[INFO]       Analysis: Starting Aggrescan4D on model_6.pdb                                         (00:04:40)
[INFO]       Analysis: Starting Aggrescan4D on model_11.pdb                                        (00:04:40)
[INFO]       Analysis: Starting Aggrescan4D on model_7.pdb                                         (00:04:40)
[INFO]       Analysis: Starting Aggrescan4D on model_3.pdb                                         (00:04:40)
[INFO]       Analysis: Starting Aggrescan4D on model_5.pdb                                         (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on model_1.pdb                                         (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on model_0.pdb                                         (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on model_2.pdb                                         (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on model_4.pdb                                         (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on model_10.pdb                                        (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on model_9.pdb                                         (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on input.pdb                                           (00:04:41)
[INFO]       Analysis: Starting Aggrescan4D on folded.pdb                                          (00:04:42)
[INFO]       Main:     Simulation completed successfully.                                          (00:04:43)
Show buried residues

Minimal score value
-4.2779
Maximal score value
2.1008
Average score
-0.6075
Total score value
-26.1233

The table below lists A4D score for protein residues. Residues with A4D score > 0.0000 are marked by yellow rows.

residue index residue name chain Aggrescan4D score mutation
1 M A 1.0681
2 F A 2.1008
3 E A -0.0822
4 F A 1.5485
5 K A -0.4915
6 F A 0.5459
7 E A -1.4786
8 F A -1.4794
9 K A -3.2102
10 D A -3.7602
11 D A -3.9594
12 D A -4.2779
13 D A -4.0048
14 K A 0.0000
15 E A -2.4367
16 G A -1.7174
17 T A -0.9426
18 F A 0.0000
19 T A -0.9548
20 S A -0.9214
21 D A -1.3402
22 V A 0.5339
23 S A 0.0328
24 S A 0.5896
25 Y A 1.5180
26 L A 1.5594
27 E A 0.8132
28 G A -0.8967
29 Q A -1.6132
30 A A -0.6815
31 A A 0.0000
32 K A -2.2513
33 E A -1.1213
34 F A 0.0000
35 I A 0.2792
36 A A 0.5224
37 W A 0.9229
38 L A 1.1242
39 V A 1.4410
40 R A -0.6889
41 G A -0.8005
42 R A -0.7569
43 G A -0.8556
Download PDB file
View in 3Dmol

CABS-flex predictions of flexibility of input structure

In dynamic mode, A4D analysis is performed on the set of models reflecting fluctuations of the input structure (predicted by CABS-flex method, models are numbered from 0 to 11) and the input model. Their A4D scores are provided below in the table.
The right panel presents comparison of the most aggregation prone model (with the highest A4D score, -0.6075 in this case) with the input model (the most aggregation prone model in blue, input in red) and RMSF plot which shows the extent of residue fluctuations in Angstroms (predicted by CABS-flex).

Model
Average A4D Score
model_1 -0.6075 View CSV PDB
model_6 -0.6728 View CSV PDB
model_5 -0.7503 View CSV PDB
input -0.8407 View CSV PDB
model_4 -0.8433 View CSV PDB
model_3 -0.9021 View CSV PDB
model_2 -0.9042 View CSV PDB
CABS_average -0.9255 View CSV PDB
model_11 -0.9691 View CSV PDB
model_0 -1.0044 View CSV PDB
model_9 -1.0768 View CSV PDB
model_8 -1.0795 View CSV PDB
model_7 -1.0852 View CSV PDB
model_10 -1.2101 View CSV PDB