5M8E

Crystal structure of a GH43 arabonofuranosidase from Weissella sp. strain 142

Summary for 5M8E

• Entry DOI: 10.2210/pdb5m8e/pdb
• Descriptor: Alpha-N-arabinofuranosidase, CALCIUM ION, IMIDAZOLE, ... (5 entities in total)
• Functional Keywords: arabinofuranosidase, 5-bladed beta-propeller fold, family 43, hydrolase
• Biological source: Weissella cibaria
• Total number of polymer chains: 2
• Total formula weight: 80124.94

Authors

Linares-Pasten, J.,Logan, D.T.,Nordberg Karlsson, E. (deposition date: 2016-10-28, release date: 2017-05-10, Last modification date: 2024-01-17)

Primary citation

Linares-Pasten, J.A.,Falck, P.,Albasri, K.,Kjellstrom, S.,Adlercreutz, P.,Logan, D.T.,Karlsson, E.N.
Three-dimensional structures and functional studies of two GH43 arabinofuranosidases from Weissella sp. strain 142 and Lactobacillus brevis.
FEBS J., 284:2019-2036, 2017

PubMed Abstract: Arabinofuranosidases degrade arabinose-containing oligo and polysaccharides, releasing l-arabinose, which is a potentially useful sugar, shown to reduce glycemic response under certain conditions. Arabinofuranosidases (Arafs) are frequently found in GH43, one of the most common GH-families encoded in genomes in gut microbiota, and hence it is of interest to increase understanding of the function of these enzymes in species occurring in the gut. Here we have produced, characterized and solved the three-dimensional structures, at 1.9 and 2.0 Å resolution respectively, of two homologous GH43 enzymes, classified under subfamily 26, from Lactobacillus brevis DSM1269 (LbAraf43) and Weissella strain 142 (WAraf43), respectively. The enzymes, with 74% sequence identity to each other, are composed of a single catalytic module with a β-propeller structure typical of GH43, and an active-site pocket with three identifiable subsites (-1, +1, and +2). According to size exclusion chromatography, native WAraf43 is a dimer, while LbAraf43 is a tetramer in solution. Both of them show activity with similar catalytic efficiency on 1,5-α-l-arabinooligosaccharides with a degree of polymerization (DP) of 2-3. Activity is restricted to substrates of low DP, and the reason for this is believed to be an extended loop at the entrance to the active site, creating interactions in the +2 subsite.

PubMed: 28485897
DOI: 10.1111/febs.14101

Experimental method

X-RAY DIFFRACTION (2 Å)