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Teze D, Shuoker B, Chaberski EK, Kunstmann S, Fredslund F, Nielsen TS, Stender EGP, Peters GHJ, Karlsson EN, Welner DH, Hachem MA. The Catalytic Acid–Base in GH109 Resides in a Conserved GGHGG Loop and Allows for Comparable α-Retaining and β-Inverting Activity in an N-Acetylgalactosaminidase from Akkermansia muciniphila. ACS Catal 2020. [DOI: 10.1021/acscatal.9b04474] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- David Teze
- Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Lyngby, Denmark
- Enzyme Engineering and Structural Biology, The Novo Nordisk Center for Biosustainability, Kemitorvet, Building 220, DK-2800 Lyngby, Denmark
| | - Bashar Shuoker
- Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Lyngby, Denmark
- Biotechnology, Department of Chemistry (KILU), Lund University, Post Office Box 124, 221 00 Lund, Sweden
| | - Evan Kirk Chaberski
- Enzyme Engineering and Structural Biology, The Novo Nordisk Center for Biosustainability, Kemitorvet, Building 220, DK-2800 Lyngby, Denmark
| | - Sonja Kunstmann
- Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Lyngby, Denmark
| | - Folmer Fredslund
- Enzyme Engineering and Structural Biology, The Novo Nordisk Center for Biosustainability, Kemitorvet, Building 220, DK-2800 Lyngby, Denmark
| | - Tine Sofie Nielsen
- Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Lyngby, Denmark
| | - Emil G. P. Stender
- Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Lyngby, Denmark
| | - Günther H. J. Peters
- Department of Chemistry, Technical University of Denmark, DK-2800 Lyngby, Denmark
| | - Eva Nordberg Karlsson
- Biotechnology, Department of Chemistry (KILU), Lund University, Post Office Box 124, 221 00 Lund, Sweden
| | - Ditte Hededam Welner
- Enzyme Engineering and Structural Biology, The Novo Nordisk Center for Biosustainability, Kemitorvet, Building 220, DK-2800 Lyngby, Denmark
| | - Maher Abou Hachem
- Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Lyngby, Denmark
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Adabala PJP, Shamsi Kazem Abadi S, Akintola O, Bhosale S, Bennet AJ. Conformationally Controlled Reactivity of Carbasugars Uncovers the Choreography of Glycoside Hydrolase Catalysis. J Org Chem 2020; 85:3336-3348. [PMID: 31994882 DOI: 10.1021/acs.joc.9b03152] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Glycoside hydrolases (GHs) catalyze hydrolyses of glycoconjugates in which the enzyme choreographs a series of conformational changes during the catalytic cycle. As a result, some GH families, including α-amylases (GH13), have their chemical steps concealed kinetically. To address this issue for a GH13 enzyme, we prepared seven cyclohexenyl-based carbasugars of α-d-glucopyranoside that we show are good covalent inhibitors of a GH13 yeast α-glucosidase. The linear free energy relationships between rate constants and pKa of the leaving group are curved upward, which is indicative of a change in mechanism, with the better leaving groups reacting by an SN1 mechanism, while reaction rates for the worse leaving groups are limited by a conformational change of the Michaelis complex prior to a rapid SN2 reaction with the enzymatic nucleophile. Five bicyclo[4.1.0]heptyl-based carbaglucoses were tested with this enzyme, and our results are consistent with pseudoglycosidic bond cleavage that occurs via SN1 transition states that include nonproductive binding of the leaving group to the enzyme. In total, we show that the conformationally orthogonal reactions of these two carbasugars reveal mechanistic details hidden by conformational changes that the Michaelis complex of the enzyme and natural substrate undergoes which align the nucleophile for efficient catalysis.
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Affiliation(s)
- Pal John Pal Adabala
- Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada
| | - Saeideh Shamsi Kazem Abadi
- Department of Molecular Biology and Biochemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada
| | - Oluwafemi Akintola
- Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada
| | - Sandeep Bhosale
- Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada
| | - Andrew J Bennet
- Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada
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