Question How to safely recreate a server without losing DB and files?

[Anton Keller]

Due to inability to solve my Apache/Nginx problem, I have the need to cover the following:
I need to fully recreate parts of my server without losing precious time backing up DB and httpdocs files.
Usually I only setup DB and httpdocs files and the rest is (to me) simple configuration process.
I would like to know a safe / fast way to rebuild Apache / Nginx / all templates from scratch while keeping my app safe.

Any way to help me get some peace of mind with that?