Issue 12, 2014

pKa cycling of the general acid/base in glycoside hydrolase families 33 and 34

Abstract

Glycoside hydrolase families 33 and 34 catalyse the hydrolysis of terminal sialic acid residues from sialyl oligosaccharides and glycoconjugates with a net retention of the stereochemistry at the anomeric centre. It is generally believed that the conserved aspartic acid in the active site functions as a general acid to protonate the hydroxyl group of the departing aglycone during glycosylation, and then as a general base to facilitate the nucleophilic attack of the water molecule on the intermediate state during the deglycosylation reaction. The dual role of the general acid/base places specific demands upon its protonation state, and thus pKa values. However, it is not fully understood how this catalytic residue can achieve such pKa cycling during catalysis. We present both MM and combined QM/MM simulations to characterise the pKa values of the proposed catalytic general acid/base in the glycoside hydrolase families 33 and 34. Collectively, our study suggests that the binding of anionic substrates and the local solvation properties along with the neutralisation of the nearby glutamic acid upon glycosylation modulate the electrostatic environment around the general acid/base to achieve its proper protonation states.

Graphical abstract: pKa cycling of the general acid/base in glycoside hydrolase families 33 and 34

Supplementary files

Article information

Article type
Paper
Submitted
23 Jan 2014
Accepted
11 Feb 2014
First published
18 Feb 2014

Phys. Chem. Chem. Phys., 2014,16, 5785-5792

pKa cycling of the general acid/base in glycoside hydrolase families 33 and 34

H. Yu and T. M. Griffiths, Phys. Chem. Chem. Phys., 2014, 16, 5785 DOI: 10.1039/C4CP00351A

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