I found it out myself:
First there has to be a new dconf-database located in /etc/dconf/
.
Create the database by creating the following file:
sudo nano /etc/dconf/profile/user
with the following content:
user-db:user
system-db:local
This shows gnome, where your settings are stored.
Next define, what your profile looks like. To do so create the following folder and file
sudo mkdir /etc/dconf/db/local.d
sudo nano /etc/dconf/db/local.d/my_style
and put something like this in:
[org/gnome/desktop/app-folders]
folder-children=['myfolder']
[org/gnome/desktop/app-folders/folders/myfolder]
name='Preferences'
apps=['app1.desktop', 'app2.desktop']
[org/gnome/shell]
app-picker-layout=[{'firefox.desktop': <{'position': <0>}>,'myfolder': <{'position': <1>}>}]
Then put a lock on these settings to keept the changes (however then they cannot be changed)
sudo mkdir /etc/dconf/db/local.d/locks
sudo nano /etc/ dconf/db/local.d/locks/mystyle
with the following content:
/org/gnome/desktop/app-folders/folder-children
/org/gnome/desktop/app-folders/folders/myfolder/name
/org/gnome/desktop/app-folders/folders/myfolder/apps
/org/gnome/shell/app-picker-layout
Finally reload your dconf:
sudo dconf update
Login, logout. Done.