recently I reinstall my Windows because my hardrive failed when thunderstorm strike my town.
This is strange, because usually thunderstorm only makes my usb device temporary disabled, but now i think it getting worse.
Is there any way to protect my pc from this natural phenomenon?
Chances are some other components may have been damaged. Lightning is unpredictable; even with proper surge protection, there is no guarantee your PC will escape damage should there be a nearby strike.
The only really safe option if things get nasty is to unplug the computer and wait the storm out.
my house isn't grounded, but i'm using wire to ground my case to the wall
Hmm... That is a concern. Well get it done. Its very important. today your PC tomorrow your TV, who knows. I had my TV blow up even with my house properly grounded. Probably you may already have it done and you don't know about it.