The original Makefile is available here:
http://biolinux.df.ibilce.unesp.br/naoliv/cdbs/Makefile
Since it doesn't have DESTDIR, I have created a patch (available here:
http://biolinux.df.ibilce.unesp.br/naoliv/cdbs/01-makefile.diff)
Your Patch adds DESTDIR support to the install target, but it cleans
DESTDIR by setting it to the empty string. Remove the "DESTDIR=" line
from the patched Makefile should do the trick. There are alternatives to
simply not setting DESTDIR in the Makefile such as only setting it when
it is currently empty, but that doesn't make sense for DESTDIR under
normal circumstances.