Project name: KM005_lineal_cap_cluster0_Aggrescan4D

Chain sequence(s)	A: RYRPGTVALREIRRYQKSTE
Selected Chain(s)	A
Distance of aggregation	10 Å
FoldX usage	Yes
pH calculations	Yes
alphaCutter usage	No
Dynamic mode	No
Automated mutations	No

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)
[WARNING]    PDB-Info: The input structure is likely a peptide. Results may be inaccurate.         (00:00:00)
[INFO]       PDB-Info: The input structure is partially or entirely disordered. Average score is   
                       recommended for pH analysis.                                                (00:00:01)
[INFO]       FoldX:    Starting FoldX energy minimization                                          (00:00:01)
[INFO]       Analysis: Starting Aggrescan4D on folded.pdb                                          (00:00:18)
[INFO]       agg3D:    Running pKa-ANI on                                                          
                       /STORAGE/DATA/lcbio/aggreskan/1793630cef56630/tmp/folded.pdb                (00:00:18)
[INFO]       Main:     Simulation completed successfully.                                          (00:00:35)

• Minimal score value: -3.1055
• Maximal score value: 1.1509
• Average score: -1.2909
• Total score value: -25.819

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	R	A	-1.8738
2	Y	A	-0.5194
3	R	A	-1.7894
4	P	A	-0.7640
5	G	A	-0.2938
6	T	A	0.6628
7	V	A	1.1509
8	A	A	0.0712
9	L	A	0.2886
10	R	A	-1.5809
11	E	A	-1.7326
12	I	A	-0.4673
13	R	A	-2.5223
14	R	A	-3.0223
15	Y	A	-1.6170
16	Q	A	-2.7858
17	K	A	-3.1055
18	S	A	-1.6907
19	T	A	-1.5967
20	E	A	-2.6310

Calculations for various pH values

This page contains details and comparisons for all models calculated at different pH points.
Please find suggestions on interpreting the results below. More details can be found in the Tutorial.
The input structure is likely a peptide. Results may be inaccurate. The input structure is partially or entirely disordered. Average score is recommended for pH analysis.

pH	Average A4D Score	Max A4D Score
4.0	-2.5967	0.8293
4.5	-2.6743	0.7915
5.0	-2.786	0.7289
5.5	-2.9115	0.6787
6.0	-3.0231	0.6787
6.5	-3.0914	0.6787
7.0	-3.1007	0.6787
7.5	-3.0621	0.6787
8.0	-2.9981	0.6787
8.5	-2.9242	0.6787
9.0	-2.8479	0.6787