I've recently been looking for better ways to publish online editions of the newspaper I work for. We don't have a full content managed workflow internally, nor do we use automatic layout, so CMS-driven cross-publshing isn't currently an option. We're stuck with finding something to do with the PDFs that come out of the print production process for the forseeable future.
Scribd appears to be a much more impressive option than direct PDF publishing or tools like flexpaper & pdf2swf. The HTML5 viewer is amazing. Note how all the elements are selectable, columns have been correctly recognised in the pdf text, etc?
Here's an example.