problem with ftp file permissions

[kilburn]

These files are owned by root, so you obviously get permission denied errors when trying to change them. Run "chown -R vu2004:vu2004 /var/www/virtual/domain.com/htdocs" as root, and you'll be able to correctly handle files through FTP afterwards.

Now, try to create a new website and see if the default files are created as root. If this is the case, you've hit a bug. Otherwise, you changed the permissions somehow and it's your fault.