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This can be done with Wine Bottles.

1. Install [flatpak](https://flatpak.org/) from your package manager.
2. Install [Bottles](https://flathub.org/apps/com.usebottles.bottles) from Flatpak (may show up as `Discover (Software Center)`)
    * May take a while, because it has many dependencies and flatpak does not support parallel downloads
3. Run Bottles. You may need to reboot for the Desktop entry to appear, but even without rebooting you can run `flatpak run com.usebottles.bottles` to launch it
4. Go into Bottles preferences, `Runners`, and install the Proton runners you want
5. Create a new Bottle of type `Gaming`
6. Go into the prefix's settings, and under `Components` find `Runner` and change it to Proton

When running games through this prefix they will now use Proton, without Steam.