6P2K

Crystal structure of AFV00434, an ancestral GH74 enzyme

Summary for 6P2K

• Entry DOI: 10.2210/pdb6p2k/pdb
• Related: 6P2L 6P2M 6P2N 6P2O
• Descriptor: Fibronectin type III domain-containing protein, ZINC ION, ACETATE ION, ... (7 entities in total)
• Functional Keywords: gh74, glycosyl hydrolase, 7-fold beta-propeller, hydrolase
• Biological source: Simiduia agarivorans (strain DSM 21679 / JCM 13881 / BCRC 17597 / SA1)
• Total number of polymer chains: 2
• Total formula weight: 176364.90

Authors

Stogios, P.J.,Skarina, T.,Arnal, G.,Brumer, H.,Savchenko, A. (deposition date: 2019-05-21, release date: 2019-07-31, Last modification date: 2024-03-13)

Primary citation

Arnal, G.,Stogios, P.J.,Asohan, J.,Attia, M.A.,Skarina, T.,Viborg, A.H.,Henrissat, B.,Savchenko, A.,Brumer, H.
Substrate specificity, regiospecificity, and processivity in glycoside hydrolase family 74.
J.Biol.Chem., 294:13233-13247, 2019

PubMed Abstract: Glycoside hydrolase family 74 (GH74) is a historically important family of -β-glucanases. On the basis of early reports of detectable activity on cellulose and soluble cellulose derivatives, GH74 was originally considered to be a "cellulase" family, although more recent studies have generally indicated a high specificity toward the ubiquitous plant cell wall matrix glycan xyloglucan. Previous studies have indicated that GH74 xyloglucanases differ in backbone cleavage regiospecificities and can adopt three distinct hydrolytic modes of action: , -dissociative, and -processive. To improve functional predictions within GH74, here we coupled in-depth biochemical characterization of 17 recombinant proteins with structural biology-based investigations in the context of a comprehensive molecular phylogeny, including all previously characterized family members. Elucidation of four new GH74 tertiary structures, as well as one distantly related dual seven-bladed β-propeller protein from a marine bacterium, highlighted key structure-function relationships along protein evolutionary trajectories. We could define five phylogenetic groups, which delineated the mode of action and the regiospecificity of GH74 members. At the extremes, a major group of enzymes diverged to hydrolyze the backbone of xyloglucan nonspecifically with a dissociative mode of action and relaxed backbone regiospecificity. In contrast, a sister group of GH74 enzymes has evolved a large hydrophobic platform comprising 10 subsites, which facilitates processivity. Overall, the findings of our study refine our understanding of catalysis in GH74, providing a framework for future experimentation as well as for bioinformatics predictions of sequences emerging from (meta)genomic studies.

PubMed: 31324716
DOI: 10.1074/jbc.RA119.009861

Experimental method

X-RAY DIFFRACTION (2.15 Å)