I just found a (semi) GUI version for you KDE users out there...
http://members.shaw.ca/khessels/kfolding/index.html
it still runs the console version, but it also has a nice applet you can put on your taskbar that shows it's progress... it also (supposedly - see below) has something like the windows GUI version, where it draws the molecule you're computing.
below: That part isn't working on my system--it comes up, but the options are all greyed out and the window doesn't render anything at all. but the progress bar applet is working.
edit: it probably does work, but I f'ed something up and OpenGL isn't working on my box...
