Table 2.
iTRAQ ratios for significantly and ±25% different proteins in mitochondria from red and white muscle
| Identified Proteins | UniProtKB Entry Name | Taxonomy | Molecular Mass, kDa | White/Red Ratio | P |
|---|---|---|---|---|---|
| Fat Metabolism | |||||
| Acetyl-coenzyme A synthetase 2-like, mitochondrial | ACS2L_HUMAN | Homo sapiens | 75 | 0.60 ± 0.08 | 0.038 |
| Mitochondrial carnitine/acylcarnitine carrier protein | MCAT_HUMAN | Homo sapiens | 33 | 1.29 ± 0.10 | 0.035 |
| Very long-chain specific acyl-CoA dehydrogenase, mitochondrial | ACADV_BOVIN | Bos taurus | 71 | 0.74 ± 0.04 | 0.000 |
| Long-chain specific acyl-CoA dehydrogenase, mitochondrial | ACADL_PIG | Sus scrofa | 48 | 0.67 ± 0.02 | 0.004 |
| Short-chain specific acyl-CoA dehydrogenase, mitochondrial | ACADS_PIG | Sus scrofa | 45 | 0.79 ± 0.05 | 0.011 |
| Enoyl-CoA hydratase domain-containing protein 2, mitochondrial | ECHD2_BOVIN | Bos taurus | 32 | 0.71 ± 0.08 | 0.012 |
| Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | HCDH_PIG | Sus scrofa | 34 | 0.80 ± 0.04 | 0.031 |
| 3-ketoacyl-CoA thiolase, mitochondrial | THIM_BOVIN | Bos taurus | 42 | 0.79 ± 0.04 | 0.002 |
| Peroxisomal 3,2-trans-enoyl-CoA isomerase | PECI_MOUSE | Mus musculus | 43 | 0.73 ± 0.02 | 0.007 |
| Trifunctional enzyme subunit alpha, mitochondrial | ECHA_PIG | Sus scrofa | 83 | 0.76 ± 0.04 | 0.002 |
| Oxidative Phosphorylation | |||||
| NADH-ubiquinone oxidoreductase chain 2 | NU2M_PIG | Sus scrofa | 39 | 1.30 ± 0.01 | 0.002 |
| COX assembly mitochondrial protein homolog | COXAM_BOVIN | Bos taurus | 13 | 1.99 ± 0.17 | 0.028 |
| ATP synthase mitochondrial F1 complex assembly factor 2 | ATPF2_BOVIN | Bos taurus | 33 | 0.77 ± 0.02 | 0.007 |
| NADP-Linked Reactions | |||||
| NADPH-dependent carbonyl reductase/NADP-retinol dehydrogenase | DHRS4_PIG | Sus scrofa | 28 | 0.75 ± 0.04 | 0.021 |
| Isocitrate dehydrogenase [NADP], mitochondrial | IDHP_PIG | Sus scrofa | 48 | 0.79 ± 0.05 | 0.008 |
| NADP-dependent malic enzyme, mitochondrial | MAON_HUMAN | Homo sapiens | 67 | 0.80 ± 0.01 | 0.001 |
| TCA Cycle | |||||
| Pyruvate dehydrogenase protein X component | ODPX_BOVIN | Bos taurus | 54 | 0.80 ± 0.06 | 0.020 |
| Isocitrate dehydrogenase [NAD] subunit gamma, mitochondrial | IDH3G_PIG | Sus scrofa | 11 | 1.85 ± 0.24 | 0.016 |
| Amino Acid Metabolism | |||||
| Branched-chain alpha-ketoacid dehydrogenase kinase | BCKD_HUMAN | Homo sapiens | 46 | 0.80 ± 0.04 | 0.031 |
| Branched-chain alpha-ketoacid dehydrogenase E1 component beta chain | ODBB_BOVIN | Bos taurus | 43 | 1.77 ± 0.13 | 0.030 |
| Alanine aminotransferase 1 | ALAT1_BOVIN | Bos taurus | 55 | 0.72 ± 0.06 | 0.049 |
| 3-hydroxyisobutyryl-CoA hydrolase, mitochondrial | HIBCH_BOVIN | Bos taurus | 43 | 1.54 ± 0.12 | 0.045 |
| Methylcrotonoyl-CoA carboxylase beta chain, mitochondrial | MCCB_MOUSE | Mus musculus | 61 | 1.27 ± 0.03 | 0.012 |
| Kynurenine–oxoglutarate transaminase 1 | KAT1_HUMAN | Homo sapiens | 48 | 0.70 ± 0.06 | 0.041 |
| Ribosomal Proteins | |||||
| 28S ribosomal protein S6, mitochondrial | RT06_BOVIN | Bos taurus | 14 | 0.73 ± 0.05 | 0.001 |
| 28S ribosomal protein S16, mitochondrial | RT16_HUMAN | Homo sapiens | 15 | 0.74 ± 0.07 | 0.001 |
| 39S ribosomal protein L10, mitochondrial | RM10_BOVIN | Bos taurus | 29 | 2.03 ± 0.18 | 0.029 |
| 39S ribosomal protein L49, mitochondrial | RM49_BOVIN | Bos taurus | 19 | 1.30 ± 0.06 | 0.037 |
| Membrane/Transport | |||||
| ATP-binding cassette sub-family B member 8, mitochondrial | ABCB8_MOUSE | Mus musculus | 78 | 1.68 ± 0.09 | 0.018 |
| ATP-binding cassette sub-family B member 10, mitochondrial | ABCBA_HUMAN | Homo sapiens | 79 | 0.68 ± 0.04 | 0.018 |
| ATP-binding cassette sub-family C member 2 | MRP2_MOUSE | Mus musculus | 174 | 0.80 ± 0.03 | 0.019 |
| Calcium-binding mitochondrial carrier protein Aralar2 | CMC2_HUMAN | Homo sapiens | 74 | 0.61 ± 0.03 | 0.005 |
| Calcium-binding mitochondrial carrier protein SCaMC-1 | SCMC1_BOVIN | Bos taurus | 53 | 1.98 ± 0.10 | 0.010 |
| Metaxin-2 | MTX2_PIG | Sus scrofa | 30 | 1.33 ± 0.04 | 0.015 |
| MOSC domain-containing protein 2, mitochondrial | MOSC2_BOVIN | Bos taurus | 37 | 1.53 ± 0.19 | 0.037 |
| Mitochondrial inner membrane protein OXA1L | OXA1L_BOVIN | Bos taurus | 49 | 1.33 ± 0.02 | 0.003 |
| Other | |||||
| Glycerol-3-phosphate dehydrogenase, mitochondrial | GPDM_BOVIN | Bos taurus | 81 | 1.62 ± 0.15 | 0.009 |
| Methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial | MMSA_RAT | Rattus norvegicus | 58 | 0.72 ± 0.07 | 0.010 |
| Phospholipid hydroperoxide glutathione peroxidase, mitochondrial | GPX4_HUMAN | Homo sapiens | 22 | 0.47 ± 0.01 | 0.001 |
| Glutaredoxin-related protein 5, mitochondrial | GLRX5_HUMAN | Homo sapiens | 17 | 1.36 ± 0.02 | 0.004 |
| Ubiquinone biosynthesis protein COQ4 homolog, mitochondrial | COQ4_HUMAN | Homo sapiens | 30 | 1.27 ± 0.03 | 0.012 |
| Histidine triad nucleotide-binding protein 2, mitochondrial | HINT2_BOVIN | Bos taurus | 17 | 0.79 ± 0.05 | 0.049 |
| ES1 protein homolog, mitochondrial | ES1_HUMAN | Homo sapiens | 28 | 0.80 ± 0.04 | 0.033 |
| Inorganic pyrophosphatase 2, mitochondrial | IPYR2_MOUSE | Mus musculus | 38 | 0.77 ± 0.05 | 0.045 |
| Complement component 1 Q subcomponent-binding protein, mitochondrial | C1QBP_BOVIN | Bos taurus | 31 | 1.40 ± 0.04 | 0.012 |
| Coiled-coil-helix-coiled-coil-helix domain-containing protein 10, mitochondrial | CHC10_HUMAN | Homo sapiens | 14 | 1.40 ± 0.09 | 0.049 |
| Polymerase I and transcript release factor | PTRF_HUMAN | Homo sapiens | 43 | 2.49 ± 0.14 | 0.008 |
| Brain protein 44 | BR44_HUMAN | Homo sapiens | 14 | 0.80 ± 0.04 | 0.031 |
Red and white muscle mitochondrial samples (n = 3 pairs) were isobaric tag for relative and absolute quantitation (iTRAQ) labeled and analyzed by mass spectrometry. Shown above are the 48 mitochondrial proteins that were significantly and at least 25% different between red and white skeletal muscle mitochondria. The full list of proteins and ratios can be found in Supplemental Materials online at the AJP-Cell Physiol website. White/red values are means ± SE.