The level and structure of yeast iso-icytochrome c and iso-2-cytochrome c, encoded by the nuclear genes CYCI and CYC7, respectively, are normally not altered in p-mutants, which completely lack the cytochromes aa3 subunits and cytochrome b that are encoded by mitochondrial DNA. In contrast, iso-cytochromes c containing the amino acid change Thr-78 -> Ile (T781) were observed at the normal or near-normal wild-type level in p+ strains but were completely absent in p-mutants. We have demonstrated with the "global" suppressor mutation Asn-52 -* Ile and by pulsechase labeling that the T781 iso-l-cytochrome c undergoes rapid cellular degradation in p-mutants. Furthermore, specific mutations revealed that the deficiency of T781 iso-i cytochrome c can be caused by the lack of cytochrome a-a3 or cytochrome cl, but not by the lack of cytochrome b. Thus, this and certain other, but not all, labile forms of cytochrome c are protected from degradation by the interaction with its physiological partners.Iso-l-cytochrome c (iso-1) and iso-2-cytochrome c (iso-2) are encoded by the CYCl and CYC7 nuclear genes, respectively (1, 2) and these isocytochromes c are found at 95% and 5%, respectively, of the total cytochrome c complement in derepressed cells of the yeast Saccharomyces cerevisiae (3). Early studies revealed that the levels and structures of both isocytochromes c generally are equivalent in p+ and related pstrains-i.e., mutants that completely or partially lack mitochondrial DNA and do not carry out mitochondrial protein synthesis. This finding is consistent with CYCl and CYC7 being nuclear genes and suggested that the synthesis of the isocytochromes c is not significantly influenced by other mitochondrial deficiencies. In contrast, p-strains are completely deficient in cytochromes b and a-a3, a result explained by the fact that mitochondrial DNA encodes cytochrome b and three of the subunits of cytochrome a-a3 (4).The identification and characterization of the iso-2 structural gene, CYC7, in the yeast S. cerevisiae were initially carried out with the CYC7-H1 and CYC7-H3 mutations that caused overproduction of iso-2 because of abnormal promoters (2, 5, 6). The initial screens carried out in these studies relied on complete or partial loss of iso-2 in CYC7-H1 p-and CYC7-H3 p-strains, presumably due to alterations in the translated CYC7 region. Although equivalent amounts of iso-2 were observed in p+ and p-strains having the normal iso-2 sequence, surprisingly about one-third of the cyc7-H1 mutants had a greater deficiency in p-compared with p+ strains (7). In fact, iso-2 was completely deficient in some cyc7-HJ p-mutants, while iso-2 remained at the normal level in the corresponding cyc7-HJ p+ strain.In this study, we have demonstrated that certain amino acid replacements caused iso-1 and iso-2 to become susceptible to degradation preferentially in p-mutants. Furthermore, this increased sensitivity to degradation can arise by the absence ofThe publication costs of this article were defrayed in part by page charge p...