The glucocorticoid methylprednisolone has clinically important anti;inflammatory effects at high concentrations through unknown mechanisms. Methylprednisolone at 0.2 mg/107 cells inhibits respiration in Concanavalin-A(ConA)-stimulated thymocytes from rats by about 20%. We have used topdown elasticity analysis to identify the blocks of reactions within oxidative phosphorylation in thymocytes whose kinetics are significantly affected by treatment with methylprednisolone. At this concentration methylprednisolone greatly inhibited the reactions of substrate oxidation and increased mitochondrial proton leak but did not significantly affect the synthesis and turnover of ATP by the phosphorylating system. Metabolic control analysis showed that oxygen consumption by ConAtreated thymocytes was controlled largely (0.51) by the phosphorylating system but also by proton leak (0.32) and substrate oxidation (0.17); this is similar to the distribution of control in hepatocytes, suggesting that this pattern may be general in cells. Methylprednisolone lowered control by the phosphorylating system to 0.26 and raised control by substrate oxidation to 0.37. From these results we conclude that the inhibition of respiration in ConA-stimulated thymocytes by methylprednisolone at this concentration results from an inhibition of substrate oxidation and a smaller stimulation of mitochondrial proton leak, with only a minor contribution of any effects within the phosphorylating system.The therapeutic effects of glucocorticoids are mostly receptor-mediated. However, clinical observations and experimental findings suggest that there are also rapid direct effects that are not mediated by induction or repression of specific genes. It is well known that the application of methylprednisolone in megadoses is an effective treatment in acute situations of autoimmune diseases (see e.g. Barile and La- Abbreviations. ConA, concanavalin A ; C, overall flux control coefficient; E , overall elasticity coefficient, J,,, or J,, total rate of oxygen consumption; J , rate of oxygen consumption required to pump protons out at a rate equal to their rate of return through the phosphorylating system ; JL, rate of oxygen consumption required to pump protons out at a rate equal to their rate of return through the proton leak; A tym, mitochondrial membrane potential; FCCP, carbonyl cyanide p-trifluoromethoxyphenylhydrazone; Ph,MeP+, triphenylmethylphosphonium cation ; Ph,MePBr, triphenylmethylphosphonium bromide ; P/O ratio, ATP molecules synthesized0 atom consumed; ADP/O ratio, ADP molecules consumed/O atom consumed. The superscripts and subscripts S, L and P refer to the three blocks of reactions that produce or consume dtyy,: substrate oxidation (cytosolic catabolic reactions, citric acid cycle, electron transport chain), proton leak (leak of protons and any proton-transporting cation cycles across the mitochondrial inner membrane) and the phosphorylation system (ATP synthesis and transport, all cellular ATP-consuming reactions) respectively. valle, 1992; de Gla...