Table 2.
Protein Spots Identifications and Fold Changes
| MS/MS ID | SSN | NCBI Account Number | Unique Peptides | Corrected Mowse | Observed, pI/MW | Theoretical, pI/MW | CRT vs DHF | P | q |
|---|---|---|---|---|---|---|---|---|---|
| Aldehyde dehydrogenase | 1 | gi 73995214 | 14 | 1142 | 6.0/50 | 6.63/57 | 1.7 | 0.037 | 0.28 |
| α-Keto acid dehydrogenase E2 | 2 | gi 57088195 | 10 | 685 | 6.3/50 | 8.46/54 | 2.5 | 0.015 | 0.20 |
| ATP synthase-α (fragment) | 3 | gi 94574274 | 13 | 1203 | 6.6/24 | 9.21/60 | –1.6 | 0.006 | 0.15 |
| ATP synthase-β (fragment) | 4 | gi 73968432 | 12 | 925 | 5.3/28 | 5.21/56 | –2.9 | 0.001 | 0.04 |
| ATP synthase-β (fragment) | 5 | gi 73968432 | 14 | 1224 | 5.1/36 | 5.21/56 | –2.7 | 0.010 | 0.18 |
| ATP synthase-β (fragment) | 6 | gi 73968432 | 15 | 1304 | 5.1/48 | 5.21/56 | –2.6 | 0.033 | 0.27 |
| ATP synthase-β (fragment) | 7 | gi 73968432 | 5 | 422 | 5.1/23 | 5.21/56 | –2.3 | 0.004 | 0.11 |
| ATP synthase-β (fragment) | 8 | gi 73968432 | 18 | 1524 | 5.2/50 | 5.21/56 | –1.9 | 0.001 | 0.08 |
| ATP synthase-β (fragment) | 9 | gi 73968432 | 14 | 1130 | 5.2/39 | 5.21/56 | –1.8 | 0.005 | 0.13 |
| Cytochrome C | 10 | gi 73974739 | 9 | 691 | 6.6/35 | 8.8/37 | –2.1 | 0.002 | 0.08 |
| Cytochrome C | 11 | gi 73974739 | 8 | 610 | 6.4/35 | 8.8/37 | –1.6 | 0.001 | 0.07 |
| Fatty acid-binding protein | 12 | gi 57043188 | 5 | 413 | 6.3/13 | 6.29/15 | 4.2 | 0.041 | 0.30 |
| Ferredoxin reductase | 13 | gi 73964937 | 5 | 292 | 9.0/50 | 9.37/54 | 2.3 | 0.029 | 0.26 |
| Leucine-rich PPR motif-containing protein (Leu-rich PPR) | 14 | gi 73970116 | 24 | 1595 | 6.3/131 | 6.46/158 | 2.4 | 0.012 | 0.19 |
| Mito Ribo S22 (MRP-S22) | 15 | gi 73990290 | 15 | 1082 | 6.5/40 | 7.7/41 | –1.5 | 0.013 | 0.19 |
| NADH-dehydrogenase, 14 kDa | 16 | gi 73969393 | 6 | 457 | 10.0/13 | 10.93/23 | 1.7 | 0.001 | 0.04 |
| NADH-dehydrogenase Fe-S 30 kDa | 17 | gi 73983298 | 8 | 666 | 5.9/28 | 6.99/30 | –1.6 | 0.031 | 0.27 |
| NADH-dehydrogenase Fe-S 75 kDa | 18 | gi 74005216 | 14 | 1024 | 5.7/133 | 5.85/80 | 5.5 | 0.001 | 0.04 |
| NADH-ubiquinone oxidoreductase B16.6 | 19 | gi 57101296 | 11 | 814 | 8.75/13 | 8.89/17 | 4.7 | 0.007 | 0.15 |
| Programmed cell death 8 isoform 2 isoform 6 (AIF) | 20 | gi 74008419 | 16 | 1198 | 8.0/61 | 9.09/66 | 2.1 | 0.022 | 0.23 |
| Prohibitin 2 | 21 | gi 76616402 | 12 | 936 | 9.7/31 | 10.04/32 | 4.8 | 0.001 | 0.07 |
| PC | 22 | gi 73982897 | 31 | 2303 | 6.7/120 | 6.32/129 | 2.7 | 0.033 | 0.27 |
| PDH E1 | 23 | gi 76660371 | 10 | 696 | 6.3/48 | 8.54/40 | >10 | 0.035 | 0.27 |
| PDH E2 | 24 | gi 73954761 | 3 | 182 | 6.4/55 | 8.39/69 | 2.5 | 0.002 | 0.08 |
| SAM50-like protein CGI-51 | 25 | gi 73969335 | 12 | 768 | 6.3/51 | 6.44/50 | 2.8 | 0.024 | 0.24 |
| Succinate dehydrogenase | 26 | gi 74003064 | 19 | 1366 | 6.75/70 | 7.29/73 | 2.3 | 0.001 | 0.04 |
| Thioredoxin-dependent peroxide reductase | 27 | gi 73998671 | 10 | 765 | 6.3/20 | 8.33/28 | >10 | 0.011 | 0.19 |
| Ubiquinol-cytochrome C reductase binding protein | 28 | gi 73999619 | 9 | 566 | 9.2/11 | 9.10/17 | 3.3 | 0.013 | 0.20 |
| VDAC2 | 29 | gi 73953097 | 9 | 776 | 6.6/39 | 7.48/32 | –1.6 | 0.036 | 0.28 |
| VDAC3 | 30 | gi 73979119 | 8 | 735 | 9.0/30 | 8.95/31 | 2.8 | 0.007 | 0.15 |
| XP_533991 | 31 | gi 73987821 | 10 | 636 | 5.9/24 | 6.99/30 | –1.8 | 0.001 | 0.04 |
| Mitochondria associated proteins | |||||||||
| Desmin | A | gi 59958381 | 28 | 2063 | 5.3/53 | 5.21/53 | 2.1 | 0.003 | 0.10 |
| GAPDH | B | gi 50978862 | 7 | 504 | 7.6/38 | 6.90/36 | 2.0 | 0.023 | 0.23 |
Two levels of stringency were applied for both statistical (P≤0.05, q≤0.3, or 30% false discovery rate) and biological (1.5-fold change) significance. Proteins with q>0.2, which normally would not merit claims of signals were retained for their "biological coherence" (eg, subunits of the same complex, see the online Data Supplement). AIF indicates apoptosis-inducing factor; GAPDH, glyceraldehyde 3-phosphate dehydrogenase; NADH, reduced nicotinamide-adenine dinucleotide; PC, pyruvate carboxylase; PDH, pyruvate dehydrogenase; PPR; and VDAC, voltage-dependent anion channel.