7EZT image
Entry Detail
PDB ID:
7EZT
Keywords:
Title:
The structure and functional mechanism of nucleotide regulated acetylhexosaminidase Am2136 from Akkermansia muciniphila
Biological Source:
PDB Version:
Deposition Date:
2021-06-02
Release Date:
2022-11-02
Method Details:
Experimental Method:
Resolution:
2.81 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Beta-N-acetylhexosaminidase
Chain IDs:A
Chain Length:737
Number of Molecules:1
Biological Source:Akkermansia muciniphila (strain ATCC BAA-835 / Muc)
Polymer Type:polypeptide(L)
Description:Beta-N-acetylhexosaminidase
Chain IDs:B
Chain Length:727
Number of Molecules:1
Biological Source:Akkermansia muciniphila (strain ATCC BAA-835 / Muc)
Polymer Type:polypeptide(L)
Description:Beta-N-acetylhexosaminidase
Chain IDs:C
Chain Length:731
Number of Molecules:1
Biological Source:Akkermansia muciniphila (strain ATCC BAA-835 / Muc)
Polymer Type:polypeptide(L)
Description:Beta-N-acetylhexosaminidase
Chain IDs:D
Chain Length:734
Number of Molecules:1
Biological Source:Akkermansia muciniphila (strain ATCC BAA-835 / Muc)
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
MSE A MET modified residue
Ligand Molecules
Primary Citation
Nucleotide binding as an allosteric regulatory mechanism for Akkermansia muciniphila beta- N -acetylhexosaminidase Am2136.
Gut Microbes 14 2143221 2143221 (2022)
PMID: 36394293 DOI: 10.1080/19490976.2022.2143221

Abstact

β-N-acetylhexosaminidases (EC3.2.1.52), which belong to the glycosyl hydrolase family GH20, are important enzymes for oligosaccharides modification. Numerous microbial β-N-acetylhexosaminidases have been investigated for applications in biology, biomedicine and biotechnology. Akkermansia muciniphila is an anaerobic intestinal commensal bacterium which possesses specific β-N-acetylhexosaminidases for gut mucosal layer colonization and mucin degradation. In this study, we assessed the in vitro mucin glycan cleavage activity of the A. muciniphila β-N-acetylhexosaminidase Am2136 and demonstrated its ability that hydrolyzing the β-linkages joining N-acetylglucosamine to a wide variety of aglycone residues, which indicated that Am2136 may be a generalist β-N-acetylhexosaminidase. Structural and enzyme activity assay experiments allowed us to probe the essential function of the inter-domain interactions in β23-β33. Importantly, we revealed that the hydrolysis activity of Am2136 was enhanced by nucleotides. We further speculated that this activation mechanism might be associated with the conformational motions between domain III and IV. To our knowledge, this is the first report of nucleotide effector regulated β-N-acetylhexosaminidase, to reveal its novel biological functions. These findings contribute to understanding the distinct properties within the GH20 family and lay a certain foundation to develop controllable glycan hydrolyzing catalysts.Abbreviations: OD600 - optical cell densities at 600 nm; LB - Luria-Bertani; IPTG - isopropyl β-D-1-thiogalactopyranoside; PMSF - phenylmethanesulfonyl fluoride; rmsd - root mean square deviation; GlcNAc - N-acetyl-β-D-glucosamine; GalNAc - N-acetyl-β-D-galactosamine; Gal - galactose.

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Primary Citation of related structures