fixing boot sector and boot loader

Hello list, I am running a dual boot machine, suse 9.2 and w2k. My w2k install has died on me again (or it just feels abandoned). So I need to reinstall it. But this will kill the bootsector on c: (as I have to reformat c: too) which I guess will stop my suse install from working. My question is, is it relatively painless to just fix the suse boot loader once my machine is tainted with w2k again (I got the 9.2 DVD)? I thought I´d ask first before I am on my own. As my knowledge of linux is quite limited. Mikael