How to restore OS from time machine to a non-booting Mac HD

My Mac HD has been playing up for some time and today it finally decided to not work at all. This was after I had installed 10.7.3 yesterday. I booted from my OS Leopard CD and installed it on my second HD which is usually used for data storage.  I did try to restore the Mac HD from my Time Machine backup but I kept getting errors and the computer (MacPro early 2008 model - 6gb ram, 300gb HD)  kept rebooting.
So the computer now boots from the second HD and I have repaired the Mac HD and verified it but it still will not boot.  How can I use Time Machine to restore the system to the now non-booting Mac HD?  When I try, it wants to do a backup of the new booting second HD which doesn't have all of my apps, docs etc (which are all on the Mac HD still).
Thanks

On the second HD, I'm using 10.5.8 (couldn't find my Snow Leopard disk) while the corrupted Mac HD had the latest 10.7.3.  I did try migration assistant but it didn't work, I guess because the 2 operating systems are different.  I will spend time today to try and find my Snow disk and upgrade and then upgrade again to my download version of Lion - on the second HD. When I look at the Mac HD it appears to be intact (that is, all files seem to be there) so I don't know why it can't boot unless on one of my migration attempts, something has gone awry.  I still have Apple Care on the machine and have put in a service request so will see what happens from there.
Thanks for the help.
Cathie

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