Use the below CLI commands to backup important files in a server.
PS: have in mind that this assumes a specific folder structure
cd / && tar -zcf /data/backup/server_etc_[project-name]_prod_backup_[date].tar.gz etc
cd /data && tar -zcf /data/backup/projects_[project-name]_prod_backup_[date].tar.gz projects
cd backup/ && mysqldump --all-databases --single-transaction --quick --lock-tables=false > full-[project-name]-backup-$(date +%F).sql -u root -p