title: Transition-state theoretical interpretation of the catalytic power of pyruvate decarboxylases: the roles of static and dynamical considerations.
abstract: The catalytic power of two thiamin diphosphate (ThDP)-dependent enzymes, yeast pyruvate decarboxylase (the hysteretically regulated enzyme from Saccharomyces cerevisiae, SCPDC) and bacterial pyruvate decarboxylase (the unregulated enzyme from Zymomonas mobilis, ZMPDC), are analyzed by thorough-going application of transition-state theory, i.e. by a static approach that emphasizes the state-function character of the free energy of activation and takes no explicit account of dynamical considerations. The overall catalytic reaction is resolved into manifolds for addition (conversion of free enzyme and substrate to the complex of enzyme with the pyruvate:ThDP adduct), decarboxylation, and elimination (conversion of the complex of enzyme with the acetaldehyde:ThDP adduct formed by decarboxylation into free product and free enzyme). For SCPDC, the addition manifold is most strongly catalyzed (3x1012-fold, corresponding to net transition-state stabilization of 72 kJ/mol, transition-state stabilization of 83 kJ/mol diminished by reactant-state stabilization of 11 kJ/mol), the decarboxylation manifold is least strongly catalyzed (5x107-fold, corresponding to net transition-state stabilization of 41 kJ/mol, transition-state stabilization of 68 kJ/mol diminished by reactant-state stabilization of 27 kJ/mol), and the elimination manifold is catalyzed to an intermediate degree (2x1010-fold, corresponding to net transition-state stabilization of 59 kJ/mol, transition-state stabilization of 76 kJ/mol diminished by reactant-state stabilization of 17 kJ/mol). A similar situation holds for ZMPDC. There is no need to make an explicit analysis of dynamical factors in order to describe the catalytic mechanism and catalytic power of these complex enzymes.
authors.affiliation: Higuchi Biosciences Center and Departments of Chemistry and Biochemistry Cell and Molecular Biology, University of Kansas, Lawrence, KS 66045-0046, USA.
authors.forename: J
authors.initials: J
authors.lastname: Hong
authors.forename: S
authors.initials: S
authors.lastname: Sun
authors.forename: T
authors.initials: T
authors.lastname: Derrick
authors.forename: C
authors.initials: C
authors.lastname: Larive
authors.forename: K B
authors.initials: KB
authors.lastname: Schowen
authors.forename: R L
authors.initials: RL
authors.lastname: Schowen
mesh_terms: D001419:Bacteria / Q000201:enzymology; D002384:Catalysis; D008954:Models, Biological; D011767:Pyruvate Decarboxylase / Q000378:metabolism*; D013816:Thermodynamics; D013835:Thiamine Pyrophosphate / Q000378:metabolism; D015003:Yeasts / Q000201:enzymology
chemical_list: D011767:Pyruvate Decarboxylase; D013835:Thiamine Pyrophosphate