Krypton wasn't always Kryptonite, just like Superman didn't always have his Super powers...
The explosion that destroyed Krypton changed the atomic structure of the rock, turning it Radioactive.
Kryptonite is most harmfull to Kryptonions, but it is also deadly to humans over long periods of time.
at the moment in the DCU as far as i am aware there are only 4 types of Kryptonite, Green (standard type), Red (rarer but still found here and there), Black (extremely rare) and Blue (only found in Bizarro's dimension.)
this can be explained as these were different types of geology on Krypton (basically they're versions of different earth stone, Basalt, Marble, ignious... you get the picture) and whe the explosion turned these stones radioactive is changed them to have different properties, so marble became green K, obsidian became black K and so forth.
thats how i understand it anyway.

M
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