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Often preparations of isolated organelles contain other, unwanted, cellular components. For biochemical experiments to determine the localization of newly identified proteins, or to determine the whole set of proteins (or the proteome) from a desired organelle, these unwanted components often confuse the resulting data. For these types of studies, it is crucial to have highly pure fractions of the desired organelle. Here we describe a protocol for purification of mitochondria from
Saccharomyces cerevisiae
cells devoid of contamination from other cellular compartments.