Grey screen on startup with folder and question mark

My computer was already running slow but after I downloaded, edited and burned a home movie to disk, my screen froze with the screen locked black. So I force shutdown my Mac holding the power button but when I booted back up the screen turned white and instead if the usual apple, a blinking folder with a question mark comes on. I read other discussions on it and tried the solutions and I've given up and want to reinstall with my install disks so i put install disk one in and try to erase and reinstall, it asks for a destination to install the software, but my "Macintosh HD" is not shown as an option to write to, only my partitoned portable hard drive. I have all my files on the hard drive backed up on time machine so I don't mind erasing and restarting.
Please help

Have you tried running repair disk from the install dvd.  Follow the article below and see if that helps
http://support.apple.com/kb/ts1440

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