Polymer liquid-liquid two-phase systems offer a unique opportunity to
study the mechanisms of protein stabilization during freezing and free
ze-drying. Fourier transform infrared spectroscopy was used to monitor
the structural integrity of recombinant hemoglobin frozen and lyophil
ized in the separated phases of a polyethylene glycol (PEG)-dextran sy
stem. Protein in each phase of an equilibrated biphasic PEG-dextran sy
stem experiences similar levels of structural protection against freez
ing stresses despite large differences in polymer concentration. This
result further demonstrates previous suggestions that proteins are pro
tected during freezing by the preferential exclusion mechanism. There
are, however, distinct differences in the level of structural protecti
on that polymers in equilibrium phases provide to proteins during lyop
hilization, emphasizing that the mechanisms of protein protection duri
ng freezing and drying are fundamentally different. In addition, we pr
ovide evidence that phase separation per se occurring during the cours
e of the lyophilization cycle can be detrimental to the structural sta
bility of a protein.