Currently you cannot download PDF from a website using the browser. But if it is MOBI, PRC, AZW, TXT it definitely works over 3G or wifi. That's how Magic Catalog and Feedbooks guides work: they launch the browser and download to your documents folder.
calibre Content Server works as well, but it is a lot simpler to use over wifi on a local network. Otherwise you have to navigate firewalls and such. Again, however PDF is disallowed (as are most file types).
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