Ground is ground -- so you can "touch" any ground. Same with the various supply buses => i.e. 3.3v is 3.3v; 5v is 5v; etc.
Your wires are "... upside and backwards ..." from the diagrams because it depends on whether you're looking at the motherboard connector or the power cable ==> see the pictures at the top corners of this page:
http://pinouts.ru/Power/atx_v2_pinout.shtml