7D9B
Crystal structure of alpha-glucosidase
Summary for 7D9B
| Entry DOI | 10.2210/pdb7d9b/pdb |
| Descriptor | Alpha-glycosidase, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, GLYCEROL, ... (6 entities in total) |
| Functional Keywords | glycoside hydrolase, maltooligosaccharides, carbohydrate metabolism, hydrolase |
| Biological source | Weissella cibaria |
| Total number of polymer chains | 1 |
| Total formula weight | 69295.45 |
| Authors | Krusong, K.,Wangpaiboon, K.,Kim, S.,Mori, T.,Hakoshima, T. (deposition date: 2020-10-12, release date: 2021-08-11, Last modification date: 2023-11-29) |
| Primary citation | Wangpaiboon, K.,Laohawuttichai, P.,Kim, S.Y.,Mori, T.,Nakapong, S.,Pichyangkura, R.,Pongsawasdi, P.,Hakoshima, T.,Krusong, K. A GH13 alpha-glucosidase from Weissella cibaria uncommonly acts on short-chain maltooligosaccharides. Acta Crystallogr D Struct Biol, 77:1064-1076, 2021 Cited by PubMed Abstract: α-Glucosidase (EC 3.2.1.20) is a carbohydrate-hydrolyzing enzyme which generally cleaves α-1,4-glycosidic bonds of oligosaccharides and starch from the nonreducing ends. In this study, the novel α-glucosidase from Weissella cibaria BBK-1 (WcAG) was biochemically and structurally characterized. WcAG belongs to glycoside hydrolase family 13 (GH13) and to the neopullanase subfamily. It exhibits distinct hydrolytic activity towards the α-1,4 linkages of short-chain oligosaccharides from the reducing end. The enzyme prefers to hydrolyse maltotriose and acarbose, while it cannot hydrolyse cyclic oligosaccharides and polysaccharides. In addition, WcAG can cleave pullulan hydrolysates and strongly exhibits transglycosylation activity in the presence of maltose. Size-exclusion chromatography and X-ray crystal structures revealed that WcAG forms a homodimer in which the N-terminal domain of one monomer is orientated in proximity to the catalytic domain of another, creating the substrate-binding groove. Crystal structures of WcAG in complexes with maltose, maltotriose and acarbose revealed a remarkable enzyme active site with accessible +2, +1 and -1 subsites, along with an Arg-Glu gate (Arg176-Glu296) in front of the active site. The -2 and -3 subsites were blocked by Met119 and Asn120 from the N-terminal domain of a different subunit, resulting in an extremely restricted substrate preference. PubMed: 34342279DOI: 10.1107/S205979832100677X PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.58 Å) |
Structure validation
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