Just looks like you forgot to chown the dirs tbh.
chown -R user:user /home/user/domains/myDomain.tld/*
Log report
PHP Warning: PHP Startup: Unable to load dynamic library '/usr/local/lib/php/extensions/no-debug-non-zts-20090626/pdo_sqlite.so' - /usr/local/lib/php/extensions/no-debug-non-zts-20090626/pdo_sqlite.so: undefined symbol: sqlite3_libversion in Unknown on line 0
cd /var/log/httpd