Functional Exploration of the Polysaccharide Lyase Family PL6

PLoS One. 2016 Jul 20;11(7):e0159415. doi: 10.1371/journal.pone.0159415. eCollection 2016.

Abstract

Alginate, the main cell-wall polysaccharide of brown algae, is composed of two residues: mannuronic acid (M-residues) and, its C5-epimer, guluronic acid (G-residues). Alginate lyases define a class of enzymes that cleave the glycosidic bond of alginate by β-elimination. They are classified according to their ability to recognize the distribution of M- and G-residues and are named M-, G- or MG-lyases. In the CAZy database, alginate lyases have been grouped by sequence similarity into seven distinct polysaccharide lyase families. The polysaccharide lyase family PL6 is subdivided into three subfamilies. Subfamily PL6_1 includes three biochemically characterized enzymes (two alginate lyases and one dermatan sulfatase lyase). No characterized enzymes have been described in the two other subfamilies (PL6_2 and PL6_3). To improve the prediction of polysaccharide-lyase activity in the PL6 family, we re-examined the classification of the PL6 family and biochemically characterized a set of enzymes reflecting the diversity of the protein sequences. Our results show that subfamily PL6_1 includes two dermatan sulfates lyases and several alginate lyases that have various substrate specificities and modes of action. In contrast, subfamilies PL6_2 and PL6_3 were found to contain only endo-poly-MG-lyases.

MeSH terms

  • Alginates / chemistry*
  • Amino Acid Sequence
  • Computational Biology
  • Crystallography, X-Ray
  • Databases, Protein
  • Glucuronic Acid / chemistry
  • Hexuronic Acids / chemistry
  • Membrane Proteins / chemistry
  • Membrane Proteins / genetics
  • Phaeophyceae / enzymology
  • Phylogeny*
  • Polysaccharide-Lyases / chemistry
  • Polysaccharide-Lyases / genetics*
  • Sequence Homology, Amino Acid*
  • Structure-Activity Relationship
  • Substrate Specificity

Substances

  • Alginates
  • Hexuronic Acids
  • Membrane Proteins
  • TMEM115 protein, human
  • guluronic acid
  • Glucuronic Acid
  • mannuronic acid
  • Polysaccharide-Lyases

Grants and funding

The research leading to these results received funding from Brittany Regional Council and OSEO as part of the FUI-AAP14 “Poly-mer” project.