5N6U image
Deposition Date 2017-02-16
Release Date 2017-04-12
Last Version Date 2024-10-23
Entry Detail
PDB ID:
5N6U
Keywords:
Title:
Crystal structure of Beta-D-Mannosidase from Dictyoglomus thermophilum.
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.08 Å
R-Value Free:
0.25
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Beta-mannosidase
Gene (Uniprot):DICTH_1692
Chain IDs:A, B, C, D
Chain Length:836
Number of Molecules:4
Biological Source:Dictyoglomus thermophilum H-6-12
Ligand Molecules
Primary Citation
Is the acid/base catalytic residue mutation in beta-d-mannosidase DtMan from Dictyoglomus thermophilum sufficient enough to provide thioglycoligase activity?
Biochimie 137 190 196 (2017)
PMID: 28385558 DOI: 10.1016/j.biochi.2017.03.020

Abstact

Glycoside hydrolases can be turned into thioglycoligase by mutation of the acid/base catalytic carboxylate residue. These mutants have proven valuable to generate S-glycosides, however, few examples in literature have described efficient thioglycoligase activity, and even fewer the underlying molecular mechanism. DtMan, a GH2 family β-d-mannosidase from the thermophilic Dictyoglomus thermophilum was cloned and expressed in E. coli. The recombinant protein is highly specific for β-d-mannosides, and exhibits efficient catalysis constants coupled to thermostability. However, seven variants bearing mutated acid/base residue could not be turned into efficient thioligases. Crystal structure of DtMan Glu425Cys mutant and molecular modeling calculations have demonstrated that unlike other GH2 thioligase reported, active site accessibility of thiol acceptor may be impaired by entrance loop rigidity. This structural feature may explain why DtMan mutants do not exhibit thioglycoligase activity.

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Primary Citation of related structures