Email this article 3D Structure Modeling of Alpha-Amino Acid Ester Hydrolase from Xanthomonas rubrilineans
- Authors: Zarubina S.A.1,2, Uporov I.V.1, Fedorchuk E.A.1,2, Fedorchuk V.V.1,2, Sklyarenko A.V.3, Yarotsky S.V.3, Tishkov V.I.1,2,4
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Affiliations:
- Department of Chemical Enzymology, Faculty of Chemistry, M.V. Lomonosov Moscow State University
- Innovations and High Technologies MSU Ltd
- State Research Institute for Genetics and Selection of Industrial Microorganisms (GosNIIgenetika)
- A.N. Bach Institute of Biochemistry, Russian Academy of Sciences
- Issue: Vol 5, No 4 (2013)
- Pages: 62-70
- Section: Research Articles
- URL: https://actanaturae.ru/2075-8251/article/view/10572
- DOI: https://doi.org/10.32607/20758251-2013-5-4-62-70
- ID: 10572
Cite item
Abstract
Alpha-amino acid ester hydrolase (EC 3.1.1.43, AEH) is a promising biocatalyst for the production of semi-synthetic β-lactam antibiotics, penicillins and cephalosporins. The AEH gene from Xanthomonas rubrilineans (XrAEH) was recently cloned in this laboratory. The three-dimensional structure of XrAEH was simulated using the homology modeling method for rational design experiments. The analysis of the active site was performed, and its structure was specified. The key amino acid residues in the active site - the catalytic triad (Ser175, His341 and Asp308), oxyanion hole (Tyr83 and Tyr176), and carboxylate cluster (carboxylate groups of Asp209, Glu310 and Asp311) - were identified. It was shown that the optimal configuration of residues in the active site occurs with a negative net charge -1 in the carboxylate cluster. Docking of different substrates in the AEH active site was carried out, which allowed us to obtain structures of XrAEH complexes with the ampicillin, amoxicillin, cephalexin, D-phenylglycine, and 4-hydroxy-D-phenylglycine methyl ester. Modeling of XrAEH enzyme complexes with various substrates was used to show the structures for whose synthesis this enzyme will show the highest efficiency.
Full Text
3D Structure Modeling of Alpha-Amino Acid Ester Hydrolase from Xanthomonas rubrilineans
About the authors
S. A. Zarubina
Department of Chemical Enzymology, Faculty of Chemistry, M.V. Lomonosov Moscow State University; Innovations and High Technologies MSU Ltd
Author for correspondence.
Email: vitishkov@gmail.com
Russian Federation
I. V. Uporov
Department of Chemical Enzymology, Faculty of Chemistry, M.V. Lomonosov Moscow State University
Email: vitishkov@gmail.com
Russian Federation
E. A. Fedorchuk
Department of Chemical Enzymology, Faculty of Chemistry, M.V. Lomonosov Moscow State University; Innovations and High Technologies MSU Ltd
Email: vitishkov@gmail.com
Russian Federation
V. V. Fedorchuk
Department of Chemical Enzymology, Faculty of Chemistry, M.V. Lomonosov Moscow State University; Innovations and High Technologies MSU Ltd
Email: vitishkov@gmail.com
Russian Federation
A. V. Sklyarenko
State Research Institute for Genetics and Selection of Industrial Microorganisms (GosNIIgenetika)
Email: vitishkov@gmail.com
Russian Federation
S. V. Yarotsky
State Research Institute for Genetics and Selection of Industrial Microorganisms (GosNIIgenetika)
Email: vitishkov@gmail.com
Russian Federation
V. I. Tishkov
Department of Chemical Enzymology, Faculty of Chemistry, M.V. Lomonosov Moscow State University; Innovations and High Technologies MSU Ltd; A.N. Bach Institute of Biochemistry, Russian Academy of Sciences
Email: vitishkov@gmail.com
Russian Federation
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