TABLE 3.
Classification of proteins of interest into functional categories
Proteins of interest were classified into five distinct functional categories: mitochondrial stress proteins, mitochondrial metabolic enzymes, respiratory chain subunits, mitochondrial ribosomal proteins, and mtDNA nucleoid proteins (marked with asterisks). Submitochondrial localization of proteins is indicated (M, matrix; IM, inner mitochondrial membrane) as well as their significance in the present study. Indicated protein names are from the Saccharomyces Genome Database.
| Functional categories and proteins of interest | Mitochondrial localization | mtDNA nucleoid proteins | Significance in this study |
|---|---|---|---|
| Mitochondrial stress proteins | |||
| Hsp78 | M | Mitochondrial stress response in Δpim1 mitochondria | |
| Hsp60 | M | * (29) | Mitochondrial stress response in Δpim1 mitochondria |
| Sod2 | M | Mitochondrial stress response in Δpim1 mitochondria | |
| Phb1 | IM | Interacting partner of Pim1 (also interacts with the m-AAA protease (43)) | |
| Phb2 | IM | Interacting partner of Pim1 (also interacts with the m-AAA protease (43)) | |
| Mitochondrial metabolic enzymes | |||
| Pdb1 (PDH complex) | M | * (30) | Degradation substrate of Pim1 protease |
| Lat1 (PDH complex) | M | Degradation substrate of Pim1 protease | |
| Lpd1 (PDH complex) | M | * (29) | Degradation substrate of Pim1 protease |
| Kgd2 (KGDH complex) | M | * (29) | Degradation substrate of Pim1 protease |
| CoQ5 | M | Degradation substrate of Pim1 protease | |
| Dld1 | IM | Degradation substrate of Pim1 protease | |
| Ald4 | M | * (29) | Degradation substrate of Pim1 protease |
| Aim17 | M | Degradation substrate of Pim1 protease | |
| Ilv5 | M | * (29) | Degradation substrate of Pim1 protease (already identified (14)) |
| Respiratory chain subunits | |||
| Qcr2 (complex III) | IM | Degradation substrate of Pim1 protease | |
| Rip1 (complex III) | IM | Degradation substrate of Pim1 protease | |
| Cox4 (complex IV) | IM | Degradation substrate of Pim1 protease | |
| Atp1 (complex V) | IM | * (29) | Degradation substrate of Pim1 protease (already identified (47)) |
| Atp2 (complex V) | IM | Degradation substrate of Pim1 protease (already identified (7, 47)) | |
| Atp7 (complex V) | IM | Degradation substrate of Pim1 protease/Interacting partner of Pim1 (also partially degraded by the m-AAA protease (74)) | |
| Mitochondrial ribosomal protein | |||
| Mrp20 | M | Degradation substrate of Pim1 protease (already identified (22)) | |