I have the 5500, but I don't use the appradio2 (I just plug in my normal iPhone 5 cable to the USB so I can thumbs up/down Pandora).
Try using the lightning cable that came with your iPhone 5 instead of the one Pioneer gives you?
I know when I plugged my Windows phone (work phone) into the USB to see if it would charge I got an "Incompatible USB" message, but it still charged it at least.
Also, do you have the AppRadio app on your phone? Not sure if that makes a difference either, but it's worth a shot.
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