Table 5 Oxygen fugacities, root mean square deviations and correlation coefficients in comparisons of intracompartmental protein interactionsa.
Most abundant proteins | Model complexes | ||||||||
|---|---|---|---|---|---|---|---|---|---|
Location | n | log | RMSD | ρ | Complex | n | log | RMSD | ρ |
actin | 22 | -75.5 | 0.61 | 0.19 | 1 | 5 | -77.0 | 0.49 | -0.10 |
ambiguous | 50 | -73.5 | 0.90 | 0.42 | 2 | 7 | -76.5 | 0.52 | 0.50 |
bud | 50 | -72.5 | 1.17 | -0.02 | 3 | 5 | -73.5 | 0.53 | -0.30 |
bud neck | 11 | -75.5 | 0.73 | 0.02 | 4 | 6 | -78.5 | 0.56 | 0.66 |
cell periphery | 38 | -74.5 | 0.63 | 0.42 | 5 | 4 | -74.5 | 0.45 | 0.20 |
cytoplasm | 50 | -78.0 | 1.09 | 0.19 | 6 | 7 | -78.5 | 0.64 | -0.82 |
early Golgi | 9 | -74.0 | 0.72 | 0.45 | 7 | 4 | -76.0 | 0.66 | -0.80 |
endosome | 30 | -75.5 | 0.86 | 0.28 | 8 | 4 | -76.5 | 0.76 | -0.80 |
ER | 49 | -76.0 | 0.97 | 0.03 | 9 | 3 | -77.0 | 0.07 | 1.00 |
ER to Golgi | 5 | -78.0 | 0.40 | 0.40 | 10 | 4 | -76.0 | 0.45 | 1.00 |
Golgi | 14 | -76.0 | 0.88 | -0.54 | 11 | 10 | -74.5 | 0.62 | -0.04 |
late Golgi | 29 | -76.0 | 0.73 | 0.17 | 12 | 5 | -75.0 | 1.15 | 0.60 |
lipid particle | 17 | -78.0 | 0.92 | 0.22 | 13 | 12 | -76.0 | 0.93 | -0.19 |
microtubule | 10 | -75.0 | 0.61 | 0.36 | 14 | 7 | -74.5 | 1.04 | -0.75 |
mitochondrion | 50 | -75.0 | 0.53 | 0.46 | 15 | 17 | -77.5 | 0.44 | 0.30 |
nuclear periphery | 46 | -76.0 | 0.62 | 0.32 | 16 | 23 | -76.0 | 0.43 | 0.52 |
nucleolus | 50 | -74.0 | 0.72 | 0.18 | 17 | 6 | -77.5 | 0.26 | 1.00 |
nucleus | 50 | -75.0 | 0.80 | -0.02 | 18 | 5 | -78.5 | 0.24 | 0.90 |
peroxisome | 18 | -75.5 | 0.55 | 0.56 | 19 | 8 | -75.5 | 0.65 | 0.57 |
punctate composite | 49 | -74.0 | 0.78 | 0.19 | 20 | 15 | -74.0 | 0.68 | 0.64 |
spindle pole | 30 | -75.5 | 1.02 | 0.12 | 21 | 5 | -72.0 | 0.78 | 0.80 |
vacuolar membrane | 45 | -74.0 | 0.92 | 0.48 | 22 | 15 | -74.0 | 0.94 | 0.50 |
vacuole | 50 | -74.5 | 1.42 | 0.23 | 23 | 9 | -75.0 | 0.71 | 0.52 |
- a. Values of log
in each location were obtained by comparing calculated and experimental logarithms of activities of the most abundant proteins in different subcellular compartments and of model complexes for each location (Additional File 6). n denotes the number of model proteins used in the calculations. RMSD values were calculated using Eqn. (7), and ρ denotes the Spearman rank correlation coefficient, calculated using Eqn. (8).