With all the PHP drama today i suspended every website on the Manage tab. When the site is suspended and the nginx template is replaced, all the domain aliases are not added to the server_name option. This means that all domains/aliases didn't show the nice looking suspension message, but just showed the browser error that there couldn't be a connection to the website. Because of the aliases aren't configured in the nginx templates with server_name.
Please update the suspended nginx template to also include the domain aliases like normal :)