Human leukocyte interferon can be separated into two classes of subspecies by polynucleotide-agarose affinity chromatography; 30-40% of the molecular species have the polynucleotide-binding property and 60-70% lack affinity for the polynucleotide ligand. When analyzed on sodium dodecyl sulfate/polyacrylamide gel electrophoresis, the former class of interferon has a slower mobility corresponding to the migration of a polypeptide of 21,000 daltons, while the latter class has a faster mobility corresponding to a polypeptide of 13,500-15,000 daltons. By analogy to the behavior of other interferons and a class of nucleotidyl transferases on the polynucleotide-agarose chromatography, we suggest that the human leukocyte interferon having the polynucleotide-binding site is in a possibly "native" conformation and the loss of affinity for polynucleotide results from a degradative alteration of the native molecules. Moreover, the alteration of interferon is accompanied by an increase in heterospecific activity on bovine cells. It is suggested that the polypeptide domain responsible for species specificity may be closely related to the polynucleotide binding area. The modified interferon molecule, however, still conserves its antiviral activity. The simplicity and the high capacity of polynucleotide-agarose chromatography make this a powerful technique for the purification of interferon. The easy separation of these two classes of human leukocyte interferon makes the purification procedures more rational and will facilitate the preparation of both subspecies to a high degree of molecular homogeneity. Human leukocyte interferon (Hu Le IF) contains two subpopulations of active molecules, which are differentiated by their molecular sizes, charge properties, and even biological activities (1-6). Such heterogeneity, resulting from the presence of molecular species having different physicochemical properties, complicates the purification of leukocyte interferon.In particular, the strategy for purification has been mostly orientated by the recovery of as much initial activity as possible, necessitating copurification of the two subpopulations.We have recently described an affinity chromatography with blue dextran or polynucleotide as ligand for proteins interacting with nucleic acids (7). Such chromatography not only allows the separation of proteins having a polynucleotide-binding site from other classes of proteins but also can be used to separate one native enzyme from a degraded enzyme that has lost the polynucleotide attachment site (7). The methodology was also applied to the characterization and purification of both viral and immune interferons (8-11). We postulate that the polynucleotide-binding property, observed with mouse types I and II and human interferons, could be a basic characteristic of this antiviral protein. This property also could reveal a structural homology between the mouse types I and II interferons (10). In this paper, we show that Hu Le IF can be separated into two classes of molecules according...