6JEB image
Deposition Date 2019-02-05
Release Date 2019-03-13
Last Version Date 2023-11-22
Entry Detail
PDB ID:
6JEB
Keywords:
Title:
crystal structure of a beta-N-acetylhexosaminidase
Biological Source:
Method Details:
Experimental Method:
Resolution:
1.50 Å
R-Value Free:
0.14
R-Value Work:
0.11
R-Value Observed:
0.11
Space Group:
P 61 2 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Beta-N-acetylhexosaminidase
Gene (Uniprot):Amuc_2018
Chain IDs:A
Chain Length:469
Number of Molecules:1
Biological Source:Akkermansia muciniphila (strain ATCC BAA-835 / Muc)
Primary Citation
Crystallographic evidence for substrate-assisted catalysis of beta-N-acetylhexosaminidas from Akkermansia muciniphila.
Biochem. Biophys. Res. Commun. 511 833 839 (2019)
PMID: 30846208 DOI: 10.1016/j.bbrc.2019.02.074

Abstact

β-N-acetylhexosaminidases from Akkermansia muciniphila was reported to perform the crystal structure with GlcNAc complex, which proved to be the substrate of Am2301. Domain II of Am2301 is consisted of amino acid residues 111-489 and is folded as a (β/α)8 barrel with the active site combined of the glycosyl hydrolases. Crystallographic evidence showed that Asp-278 and Glu-279 could be the catalytic site and Tyr-373 may plays a role on binding the substrate. Moreover, Am2301 prefers to bind Zn ion, which similar to other GH 20 family. Enzyme activity and kinetic parameters of wild-type Am2301 and mutants proved that Asp-278 and Glu-279 are the catalytic sites and they play a critical role on the catalytic process. Overall, our results demonstrate that Am2301 and its complex with GlcNAC provide obvious structural evidence for substrate-assisted catalysis. Obviously, this expands our understanding on the mode of substrate-assisted reaction for this enzyme family in Akkermansia muciniphila.

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