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Research article - Peer-reviewed, 2013

Structural, Biochemical, and Computational Characterization of the Glycoside Hydrolase Family 7 Cellobiohydrolase of the Tree-killing Fungus Heterobasidion irregulare

Haddad Momeni, Majid; Payne, Christina M.; Hansson, Henrik; Mikkelsen, Nils; Svedberg, Jesper; Sandgren, Mats; Beckham, Gregg T.; Ståhlberg, Jerry

Abstract

Root rot fungi of the Heterobasidion annosum complex are the most damaging pathogens in temperate forests, and the recently sequenced Heterobasidion irregulare genome revealed over 280 carbohydrate-active enzymes. Here, H. irregulare was grown on biomass, and the most abundant protein in the culture filtrate was identified as the only family 7 glycoside hydrolase in the genome, which consists of a single catalytic domain, lacking a linker and carbohydrate-binding module. The enzyme, HirCel7A, was characterized biochemically to determine the optimal conditions for activity. HirCel7A was crystallized and the structure, refined at 1.7 Å resolution, confirms that HirCel7A is a cellobiohydrolase rather than an endoglucanase, with a cellulose-binding tunnel that is more closed than Phanerochaete chrysosporium Cel7D and more open than Hypocrea jecorina Cel7A, suggesting intermediate enzyme properties. Molecular simulations were conducted to ascertain differences in enzyme-ligand interactions, ligand solvation, and loop flexibility between the family 7 glycoside hydrolase cellobiohydrolases from H. irregulare, H. jecorina, and P. chrysosporium. The structural comparisons and simulations suggest significant differences in enzyme-ligand interactions at the tunnel entrance in the −7 to −4 binding sites and suggest that a tyrosine residue at the tunnel entrance of HirCel7A may serve as an additional ligand-binding site. Additionally, the loops over the active site in H. jecorina Cel7A are more closed than loops in the other two enzymes, which has implications for the degree of processivity, endo-initiation, and substrate dissociation. Overall, this study highlights molecular level features important to understanding this biologically and industrially important family of glycoside hydrolases.

Keywords

glycoside hydrolase, GH7, cellobiohydrolase, Heterobasidion irregulare, Hypocrea jecorina, Phanerochaete chrysosporium, molecular dynamics

Published in

Journal of Biological Chemistry
2013, Volume: 288, number: 8, pages: 5861-5872

      SLU Authors

    • Haddad Momeni, Majid

      • Department of Molecular Biology, Swedish University of Agricultural Sciences
      • Hansson, Henrik

        • Department of Molecular Biology, Swedish University of Agricultural Sciences
        • Mikkelsen, Nils

          • Department of Molecular Biology, Swedish University of Agricultural Sciences
          • Sandgren, Mats

            • Department of Molecular Biology, Swedish University of Agricultural Sciences
            • Ståhlberg, Jerry

              • Department of Molecular Biology, Swedish University of Agricultural Sciences

            UKÄ Subject classification

            Structural Biology
            Biochemistry and Molecular Biology
            Theoretical Chemistry

            Publication Identifiers

            DOI: https://doi.org/10.1074/jbc.M112.440891

            Permanent link to this page (URI)

            https://res.slu.se/id/publ/39075