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Table 3 Chemical formulas, standard molal Gibbs energies and other properties for reference model proteins for compartments in yeast cellsa.

From: Calculation of the relative metastabilities of proteins in subcellular compartments of Saccharomyces cerevisiae

Location Number Length Formula Z log
actin 22 469.41 C2316.66H3636.43N632.31O721.64S10.01 -18506 -5.3 -0.119 -74.7
ambiguous 123 572.02 C2816.55H4465.61N759.39O870.87S17.91 -22616 -9.6 -0.146 NA
bud 57 462.56 C2366.32H3668.44N614.02O681.16S20.19 -16641 5.4 -0.179 -75.4
bud.neck 11 905.26 C4543.68H7203.75N1250.35O1443.95S26.67 -38103 -16.8 -0.113 -69.2
cell.periphery 38 826.07 C4178.75H6505.8N1098.18O1229.93S33.77 -30641 1.7 -0.164 -79.4
cytoplasm 746 436.12 C2164.42H3440.33N590.61O659.94S12.66 -17065 -2.7 -0.149 -73.5
early.Golgi 9 622.83 C3198.27H5068.06N821.28O972.56S21.53 -25441 -19.7 -0.193 -78.0
endosome 30 484.06 C2441.34H3871.24N661.02O767.51S14.17 -20265 -12.1 -0.133 -75.8
ER 197 245.57 C1206.09H1897.94N314.1O365.15S8.58 -9276 -3.0 -0.173 -77.8
ER.to.Golgi 5 595.02 C2951.77H4601.25N790.99O907.31S18.89 -22861 -13.3 -0.127 NA
Golgi 14 481.43 C2502.96H3880.54N651.84O740S13.63 -18516 -5.4 -0.167 -77.6
late.Golgi 29 787.94 C4015.6H6312.79N1044.15O1217.15S22.72 -31255 -24.7 -0.174 -77.4
lipid.particle 17 501.83 C2573.36H3985.56N672.88O751.67S17.52 -18687 -4.1 -0.167 -75.0
microtubule 10 497.13 C2509.19H3969.36N690O774.61S17.95 -20031 -4.0 -0.125 -75.0
mitochondrion 426 402.95 C1987.87H3166.52N542.82O596.6S13.18 -15221 3.3 -0.160 -75.9
nuclear.periphery 46 815.58 C4111H6516.46N1092.04O1272.05S20.55 -33146 -11.5 -0.159 -77.0
nucleolus 60 605.43 C2990.75H4768.81N820.31O957.91S14.52 -25444 -10.4 -0.121 -75.6
nucleus 453 339.30 C1683.49H2686.85N472.89O517.13S8.7 -13342 3.4 -0.129 -75.0
peroxisome 18 422.30 C2117.28H3334.08N568.6O641.97S13.56 -16400 -2.0 -0.150 -74.8
punctate.composite 61 467.64 C2320.38H3662.92N633.84O751.45S10.52 -19985 -22.3 -0.102 NA
spindle.pole 30 398.53 C1996.48H3176.93N555.45O642.49S12.63 -17251 -13.5 -0.100 -79.5
vacuolar.membrane 45 709.78 C3532.93H5555.77N943.21O1075.43S23.29 -27439 -15.3 -0.150 -73.4
vacuole 67 428.85 C2078.86H3186.53N542.71O668.01S14.34 -17065 -18.1 -0.093 -73.2
  1. a. Chemical formulas of nonionized reference model proteins and standard molal Gibbs energy of formation from the elements ( in kcal mol-1, at 25°C and 1 bar) and net ionization state (Z) at pH = 7 of ionized reference model proteins were calculated using the amino acid compositions given in Additional File 2. Values of the nominal oxidation state of carbon () were calculated using Eqn. (6). The model log values for the compartments were obtained from the metastability limits of subcellular interactions listed in Table 4 (see text).