Ok i have just found something out which is quite interesting.
In my house we have 3 computers. 2 pcs and 1 laptop. We use a wireless router which the laptop is connected to wirelessly and the 2 pcs connect via ethernet cables.
1 pc is used as a server to host an online game server. The other pc is my personal one which is used the most.
So i went on the laptop and could access all the internet fine, every webpage opened etc. No problems there. I went onto the server pc and that pc has the same symptoms as my personal one.

So to some up, when i had the trojan on my personal pc the only thing that didn't work was windows updates, which is obviously bad as i can not get any security update fixes. After removing the trojan windows updates now works but no programs can update themselves, i can't access webpages properly and my remote connection to the server pc no longer works. How the hell does this make sense. Surely there should be more problems with the trojan than without?? Im getting really confused now. I really really don't want to have to format this pc as ill have to buy another HD just to back everything up. I mean i have the most important things backed up but if i formatted there would be a lot of things i would 'like' to keep.