I’ve recently had to make modifications to a WHM cPanel powered server which involved direct manipulation to the httpd.conf Apache configuration file.
Now, due to the managed element of WHM cPanel systems, it is very likely that any changes made to httpd.conf will be reverted after an automatic WHM cPanel update. To prevent your httpd.conf file being overwritten, you must make use of the cPanel Distiller.
After making your changes, run the distiller with the following command.
/usr/local/cpanel/bin/apache_conf_distiller --update
This will then ensure that your changes are integrated into the templates which WHM cPanel uses to regenerate the httpd.conf file after an automatic update.
I’ve tested this in CentOS specifically, but it should work in any other operating system, such as Red Hat.