I think you need to format and partition into 2 partitions, then use win2000 cd to install.
1) Format harddisk.
2) Use win2000 or win98 boot disk, run fdisk.
3) In fdisk, I think there's an option to set how big is your partition. You can set to maybe 15Gb.
4) Once done, I think you can use win2000 cd to install. win2000 will then detect that there are 2 partitions, and ask you to select the partitions.
cheers