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Structural and biophysical characterization of a multidomain xylanase Xyl
Thesis (PhD (Biochemistry))--University of Pretoria, 2024.
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University of Pretoria
2024
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| _version_ | 1867613468109045760 |
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| access_status_str | Open Access |
| author2 | Schubert, Wolf-Dieter |
| author_browse | Schubert, Wolf-Dieter |
| author_facet | Schubert, Wolf-Dieter |
| collection | Thesis |
| dc_rights_str_mv | © 2023 University of Pretoria. All rights reserved. The copyright in this work vests in the University of Pretoria. No part of this work may be reproduced or transmitted in any form or by any means, without the prior written permission of the University of Pretoria. |
| description | Thesis (PhD (Biochemistry))--University of Pretoria, 2024. |
| format | Thesis |
| id | oai:repository.up.ac.za:2263/94641 |
| institution | University of Pretoria (South Africa) |
| language | English |
| last_indexed | 2026-06-10T12:36:37.472Z |
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| provenance_str_mv | Harvested via OAI-PMH from UPSpace — University of Pretoria Institutional Repository |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | University of Pretoria |
| publisherStr | University of Pretoria |
| record_format | dspace |
| source_str | UPSpace — University of Pretoria Institutional Repository |
| spelling | oai:repository.up.ac.za:2263/94641 Structural and biophysical characterization of a multidomain xylanase Xyl Schubert, Wolf-Dieter u14334209@tuks.co.za Anye, Valentine UCTD GH11 Xylanase X-ray crystallography CE4 CBM36 Sustainable Development Goals (SDGs) SDG-07: Affordable and clean energy Natural and agricultural science theses SDG-07 Thesis (PhD (Biochemistry))--University of Pretoria, 2024. The depletion of fossil fuels, associated pollution, and resulting health hazards are of concern worldwide. Woody biomass provides an alternative source of cleaner and renewable energy by being converted into biofuels through processes like fermentation and saccharification. The efficient use of woody biomass relies on effective xylan depolymerization. Xylans, heteropolysaccharides with 1,4-linked β-D-xylopyranose units, form the main constituent of hemicellulose, the second most abundant wood component. However, their complex structure impedes enzymatic breakdown, elevating biomass recalcitrance and hindering biofuel production efficiency. Successful xylan depolymerization is essential for optimizing the utilization of woody biomass as a sustainable and efficient energy source. Xylan depolymerization involves hemicellulolytic xylanases from glycoside hydrolase (GH) families 5, 8, 10, 11, 30, 43, 62, and 98 in the CAZy database, with xylanases playing a key but not exclusive role in this enzymatic process. We analysed a multidomain xylanase (Xyl) from the hindgut metagenome of the snouted harvester termite Trinervitermes trinervoides that releases xylobiose and xylotriose from beech and birch xylan and wheat arabinoxylan. The four domains of Xyl include an N-terminal GH11 xylanase domain, two family 36-like carbohydrate-binding domains Xyl-CBM36-1 and 2, and a C-terminal CE4 acetylxylan esterase domain. This study aimed to explore the structure, function, and biophysical properties of the multidomain xylanase Xyl, examining both individual domains and their combinations. Various molecular biology methods to include gene cloning, protein production and purification and biochemical and crystallography methods were employed. The crystal structures of Xyl-GH11, Xyl-CBM36-1 and Xyl-CE4 domains were solved alongside the crystal structure of the two-domain construct, GH11-CBM36-1. The two-domain crystal structure revealed extensive similarity to known GH11 domain structures, however, there was no electron density corresponding to the Xyl-CBM36 1 domain, suggesting a random orientation of the Xyl-CBM36-1 domain relative to the Xyl-GH11 domain. Isothermal titration calorimetry (ITC) experiments similarly did not reveal specific interactions between the individual Xyl domains, implying a “beads-on-a-string” model for Xyl and its domains. Funding: W-D: Grant number ST/R002754/1; U.K. Global Challenge Research Fund Grant: START - Synchrotron Techniques for African Research and Technology (Science and Technology Facilities Council) W-D: South African NRF grant UID 103867. Biochemistry PhD (Biochemistry) Unrestricted Faculty of Natural and Agricultural Sciences SDG-07: Affordable and clean energy 2024-02-15T09:30:56Z 2024-02-15T09:30:56Z 2024-05-08 2024-01-24 Thesis * A2024 http://hdl.handle.net/2263/94641 en © 2023 University of Pretoria. All rights reserved. The copyright in this work vests in the University of Pretoria. No part of this work may be reproduced or transmitted in any form or by any means, without the prior written permission of the University of Pretoria. application/pdf University of Pretoria |
| spellingShingle | UCTD GH11 Xylanase X-ray crystallography CE4 CBM36 Sustainable Development Goals (SDGs) SDG-07: Affordable and clean energy Natural and agricultural science theses SDG-07 Structural and biophysical characterization of a multidomain xylanase Xyl |
| title | Structural and biophysical characterization of a multidomain xylanase Xyl |
| title_full | Structural and biophysical characterization of a multidomain xylanase Xyl |
| title_fullStr | Structural and biophysical characterization of a multidomain xylanase Xyl |
| title_full_unstemmed | Structural and biophysical characterization of a multidomain xylanase Xyl |
| title_short | Structural and biophysical characterization of a multidomain xylanase Xyl |
| title_sort | structural and biophysical characterization of a multidomain xylanase xyl |
| topic | UCTD GH11 Xylanase X-ray crystallography CE4 CBM36 Sustainable Development Goals (SDGs) SDG-07: Affordable and clean energy Natural and agricultural science theses SDG-07 |
| url | http://hdl.handle.net/2263/94641 |