Help me How to solve 404 Not Found Error

Hello , I am getting one issue after install php script on my domain . My other domain pages are working properly but when i try to access my domain index.php I am getting error 404 not found . My .htaccess rewrite rules are

Options -MultiViews -Indexes
RewriteEngine On

# Handle Authorization Header
RewriteCond %{HTTP:Authorization} .
RewriteRule .* - [E=HTTP_AUTHORIZATION:%{HTTP:Authorization}]

# Redirect Trailing Slashes If Not A Folder...
RewriteCond %{REQUEST_FILENAME} !-d
RewriteCond %{REQUEST_URI} (.+)/$
RewriteRule ^ %1 [L,R=301]

# Handle Front Controller...
RewriteCond %{REQUEST_FILENAME} !-d
RewriteCond %{REQUEST_FILENAME} !-f
RewriteRule ^ index.php [L]

please help me how to solve this 404 not found error ???

I have also getting 404 Not Found Error for my secondary domains (Primary domain works fine) but in my reference; I have restored cPanel backup to VPS’s CyberPanel.
I am also looking for the help to fix it. Please help to resolve this issue.