2W5O

Complex structure of the GH93 alpha-L-arabinofuranosidase of Fusarium graminearum with arabinobiose

Summary for 2W5O

• Entry DOI: 10.2210/pdb2w5o/pdb
• Related: 2W5N
• Descriptor: ALPHA-L-ARABINOFURANOSIDASE, alpha-L-arabinofuranose-(1-5)-alpha-L-arabinofuranose, 1,2-ETHANEDIOL, ... (6 entities in total)
• Functional Keywords: hydrolase, alpha-l-arabinofuranosidase, glycosyl hydrolase, gh93, arabinobiose
• Biological source: GIBBERELLA ZEAE
• Total number of polymer chains: 1
• Total formula weight: 42198.48

Authors

Carapito, R.,Imberty, A.,Jeltsch, J.M.,Byrns, S.C.,Tam, P.H.,Lowary, T.L.,Varrot, A.,Phalip, V. (deposition date: 2008-12-11, release date: 2009-03-03, Last modification date: 2024-11-06)

Primary citation

Carapito, R.,Imberty, A.,Jeltsch, J.M.,Byrns, S.C.,Tam, P.H.,Lowary, T.L.,Varrot, A.,Phalip, V.
Molecular Basis of Arabinobio-Hydrolase Activity in Phytopathogenic Fungi. Crystal Structure and Catalytic Mechanism of Fusarium Graminearum Gh93 Exo-Alpha-L-Arabinanase.
J.Biol.Chem., 284:12285-, 2009

PubMed Abstract: The phytopathogenic fungus Fusarium graminearum secretes a very diverse pool of glycoside hydrolases (GHs) aimed at degrading plant cell walls. alpha-l-Arabinanases are essential GHs participating in the complete hydrolysis of hemicellulose, a natural resource for various industrial processes, such as bioethanol or pharmaceuticals production. Arb93A, the exo-1,5-alpha-l-arabinanase of F. graminearum encoded by the gene fg03054.1, belongs to the GH93 family, for which no structural data exists. The enzyme is highly active (1065 units/mg) and displays a strict substrate specificity for linear alpha-1,5-l-arabinan. Biochemical assays and NMR experiments demonstrated that the enzyme releases alpha-1,5-l-arabinobiose from the nonreducing end of the polysaccharide. We determined the crystal structure of the native enzyme and its complex with alpha-1,5-l-arabinobiose, a degradation product of alpha-Me-1,5-l-arabinotetraose, at 1.85 and 2.05A resolution, respectively. Arb93A is a monomeric enzyme, which presents the six-bladed beta-propeller fold characteristic of sialidases of clan GHE. The configuration of the bound arabinobiose is consistent with the retaining mechanism proposed for the GH93 family. Catalytic residues were proposed from the structural analysis, and site-directed mutagenesis was used to validate their role. They are significantly different from those observed for GHE sialidases.

PubMed: 19269961
DOI: 10.1074/JBC.M900439200

Experimental method

X-RAY DIFFRACTION (2.05 Å)