Epub 3 encompasses at least three quite different kinds of ebooks:
1) Ebooks that could be epub2, but have a bit fancier formatting.
2) Interactive multimedia.
3) Flxed layout, basically like a PDF.
This is a huge simplification. #1 can even include epub converted from mobi, azw3/kf8 or epub2. Most of #1 will be accepted by Amazon.
Type #2 is better as an iOS and Android app to have easy distribution.
Amazon will accept actual pdfs on Send to Kindle. On KDP they are for paper. Amazon sells fixed layout stuff in different formats, but I've no idea what you upload to KDP.
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