MAD analyses of yeast 5-aminolaevulinate dehydratase: their use in structure determination and in defining the metal-binding sites

Acta Crystallogr D Biol Crystallogr. 2000 Apr;56(Pt 4):421-30. doi: 10.1107/s0907444900000597.

Abstract

MAD experiments attempting to solve the structure of 5--aminolaevulinic acid dehydratase using Zn and Pb edges are described. The data obtained proved insufficient for a complete structure solution but were invaluable in subsequent identification of metal-binding sites using anomalous difference Fourier analyses once the structure of the enzyme had been solved. These sites include the highly inhibitory substitution of an enzymic cofactor Zn(2+) ion by Pb(2+) ions, which represents a major contribution towards understanding the molecular basis of lead poisoning. The MAD data collected at the Pb edge were also used with isomorphous replacement data from the same Pb co-crystal and a Hg co-crystal to provide the first delineation of the enzyme's quaternary structure. In this MADIR analysis, the Hg co-crystal data were treated as native data. Anomalous difference Fouriers were again used, revealing that Hg(2+) had substituted for the same Zn(2+) cofactor ion as had Pb(2+), a finding of fundamental importance for the understanding of mercury poisoning. In addition, Pt(2+) ions were found to bind at the same place in the structure. The refined structures of the Pb- and the Hg-complexed enzymes are presented at 2.5 and 3.0 A resolution, respectively.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Absorptiometry, Photon / methods
  • Binding Sites
  • Crystallography, X-Ray / methods
  • Fourier Analysis
  • Lead / metabolism
  • Mercuric Chloride / metabolism
  • Metals / metabolism*
  • Models, Molecular
  • Organometallic Compounds / metabolism
  • Porphobilinogen Synthase / chemistry*
  • Porphobilinogen Synthase / metabolism*
  • Protein Conformation
  • Saccharomyces cerevisiae / enzymology
  • Zinc / metabolism

Substances

  • Metals
  • Organometallic Compounds
  • Lead
  • Mercuric Chloride
  • Porphobilinogen Synthase
  • Zinc
  • lead acetate