Refinement of Haemophilus influenzae diaminopimelic acid epimerase (DapF) at 1.75 A resolution suggests a mechanism for stereocontrol during catalysis

Acta Crystallogr D Biol Crystallogr. 2004 Feb;60(Pt 2):397-400. doi: 10.1107/S0907444903027999. Epub 2004 Jan 23.

Abstract

Diaminopimelate (DAP) epimerase (DapF) is central to the biosynthesis of both lysine and cell-wall peptidoglycan in many bacteria species. The peptidoglycan layer provides great potential for the development of novel antimicrobials as it is a uniquely prokaryotic feature. Crystals of recombinant Haemophilus influenzae DapF that diffract to beyond 2 A resolution have been obtained which facilitated the solution of the structure by molecular replacement at a resolution approximately 1 A higher than that previously determined. An analysis of the structure (i) in comparison to other PLP-independent racemaces and (ii) in relation to the catalytic mechanism and stereospecificity of DapF is presented.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Isomerases / chemistry*
  • Catalysis
  • Cell Wall
  • Cloning, Molecular
  • Crystallography, X-Ray
  • Haemophilus influenzae / metabolism*
  • Lysine / chemistry
  • Models, Chemical
  • Models, Molecular
  • Peptidoglycan / chemistry
  • Recombinant Proteins / chemistry

Substances

  • Peptidoglycan
  • Recombinant Proteins
  • Amino Acid Isomerases
  • diaminopimelate epimerase
  • Lysine