NMR structure of the R-module: a parallel beta-roll subunit from an Azotobacter vinelandii mannuronan C-5 epimerase

J Biol Chem. 2006 Mar 17;281(11):7350-6. doi: 10.1074/jbc.M510069200. Epub 2006 Jan 3.

Abstract

In the bacterium Azotobacter vinelandii, a family of seven secreted and calcium-dependent mannuronan C-5 epimerases (AlgE1-7) has been identified. These epimerases are responsible for the epimerization of beta-d-mannuronic acid to alpha-l-guluronic acid in alginate polymers. The epimerases consist of two types of structural modules, designated A (one or two copies) and R (one to seven copies). The structure of the catalytically active A-module from the smallest epimerase AlgE4 (consisting of AR) has been solved recently. This paper describes the NMR structure of the R-module from AlgE4 and its titration with a substrate analogue and paramagnetic thulium ions. The R-module folds into a right-handed parallel beta-roll. The overall shape of the R-module is an elongated molecule with a positively charged patch that interacts with the substrate. Titration of the R-module with thulium indicated possible calcium binding sites in the loops formed by the nonarepeat sequences in the N-terminal part of the molecule and the importance of calcium binding for the stability of the R-module. Structure calculations showed that calcium ions can be incorporated in these loops without structural violations and changes. Based on the structure and the electrostatic surface potential of both the A- and R-module from AlgE4, a model for the appearance of the whole protein is proposed.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alginates / chemistry
  • Amino Acid Sequence
  • Amino Acids / chemistry
  • Azotobacter vinelandii / enzymology*
  • Calcium / metabolism
  • Carbohydrate Epimerases / chemistry
  • Hexuronic Acids / chemistry
  • Ions
  • Magnetic Resonance Spectroscopy
  • Models, Molecular
  • Models, Statistical
  • Molecular Conformation
  • Molecular Sequence Data
  • Polymers / chemistry
  • Protein Binding
  • Protein Conformation
  • Protein Folding
  • Protein Structure, Secondary
  • Protein Structure, Tertiary
  • Thulium / chemistry

Substances

  • Alginates
  • Amino Acids
  • Hexuronic Acids
  • Ions
  • Polymers
  • guluronic acid
  • Thulium
  • mannuronic acid
  • Carbohydrate Epimerases
  • mannuronan c-5-epimerase
  • Calcium

Associated data

  • PDB/2AGM