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I would have walked straight into that trap! I will spec 4 x 3tb from different manufacturers and lob them into the qnap box.
Will then spec a fast processor small box with just an SSD to run plex off.
Sam_w-
One last question... will the Plex server be just a Plex server?
i.e. will it be in a basement, and other clients connect to it?
Or will you be connecting this to the primary TV in house that happens to be a 4k beast, and on the Plex server you'll also run Plex Media Theater?
If the former, the graphics card is irrelevant, if the latter than you'll want a decent graphics card that can be passively cooled when not in use.
I went with this one: http://www.amazon.co.uk/Gigabyte-Nvidia-Graphics-Cards-128-Bit/dp/B00UMVCYTM
It's got hardware decoders for the core video codecs you're likely to have, and the large fans are silent when it's hot, and when it's cold it's decent enough to turn the fans off entirely (saves power, keeps the room silent).
But this is not needed if the Plex server is not going to be connected to a TV. Mine is connected to a 4K TV and so I went for a 4K graphics card that can be silent.
Velocio
That is pretty much perfect for your usage.
As for disks... go for size now, don't buy all of the disks from the same manufacturer and from the same batch. i.e. if you really insist on buy all Seagate or Western Digital drives... order 2 from one supplier, 1 from another, 1 from another.
Disks made at the same time, and with the same spec, tend to fail at the same time. RAID5 will give you protection against a single disk failure, but don't push your luck by buying identical disks from the same production batch that will likely fail at the same time. Just mix it up, so long as the capacity is the same there is nothing stopping you mixing producers either... feel free to mix Samsung with Seagate, etc.