Principles of quasi-equivalence and Euclidean geometry govern the assembly of cubic and dodecahedral cores of pyruvate dehydrogenase complexes

Proc Natl Acad Sci U S A. 1999 Feb 16;96(4):1240-5. doi: 10.1073/pnas.96.4.1240.

Abstract

The pyruvate dehydrogenase multienzyme complex (Mr of 5-10 million) is assembled around a structural core formed of multiple copies of dihydrolipoyl acetyltransferase (E2p), which exhibits the shape of either a cube or a dodecahedron, depending on the source. The crystal structures of the 60-meric dihydrolipoyl acyltransferase cores of Bacillus stearothermophilus and Enterococcus faecalis pyruvate dehydrogenase complexes were determined and revealed a remarkably hollow dodecahedron with an outer diameter of approximately 237 A, 12 large openings of approximately 52 A diameter across the fivefold axes, and an inner cavity with a diameter of approximately 118 A. Comparison of cubic and dodecahedral E2p assemblies shows that combining the principles of quasi-equivalence formulated by Caspar and Klug [Caspar, D. L. & Klug, A. (1962) Cold Spring Harbor Symp. Quant. Biol. 27, 1-4] with strict Euclidean geometric considerations results in predictions of the major features of the E2p dodecahedron matching the observed features almost exactly.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Acetyltransferases / chemistry*
  • Binding Sites
  • Crystallography, X-Ray
  • Dihydrolipoyllysine-Residue Acetyltransferase
  • Enterococcus faecalis / enzymology*
  • Geobacillus stearothermophilus / enzymology*
  • Macromolecular Substances
  • Mathematics
  • Models, Molecular
  • Protein Conformation*
  • Protein Structure, Secondary*
  • Pyruvate Dehydrogenase Complex / chemistry*
  • Software

Substances

  • Macromolecular Substances
  • Pyruvate Dehydrogenase Complex
  • Acetyltransferases
  • Dihydrolipoyllysine-Residue Acetyltransferase

Associated data

  • PDB/1B5S