Well for the Sony you'll want Adobe DRM'd ePub (unless you're willing to deDRM and convert then you can hit Amazon and B&N) so I'd say Books On Board and Kobo (even though their search still isn't great). That's for books from the big pubs anyway.
You can also get DRM free ePub (and other formats) from Webscription, Fictionwise (their Multiformat line) and Smashwords as well as direct from most small pubs.
For public domain (some creative commons) here at Mobile Read, Feedbooks, Manybooks, Munseys, and of course Project Gutenberg.
It really depends on what you like to read.
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