A biomedical beam line has been designed for the experimental area of a proton therapy facility to deliver mm to sub-mm size beams in the energy range of 20-50 MeV using the TRANSPORT/TURTLE beam optics codes and a newly-written program. The proton therapy facility is equipped with a 230 MeV fixed-energy cyclotron and an energy selection system based on a degrader and slits, so that beam currents available for therapy decrease at lower energies in the therapeutic beam energy range of 70-230 MeV. The new beam line system is composed of an energy-degrader, two slits, and three quadrupole magnets. The minimum beam sizes achievable at the focal point are estimated for the two energies of 50 and 20 MeV. The focused FWHM beam size is approximately 0.3 mm with an expected beam current of 20 pA when the beam energy is reduced to 50 MeV from 100 MeV, and roughly 0.8 mm with a current of 10 pA for a 20 MeV beam.