Article
Biochemistry & Molecular Biology
Damien Bretagne, Arnaud Paris, Rene de Vaumas, Pierre Lafite, Richard Daniellou
Summary: β-D-Xylosidase DtXyl from Dictyoglomus thermophilum is a potential thermostable biocatalyst for producing biologically active ginsenosides intermediates. The crystal structure of DtXyl reveals hydrophobic residues in the active site that play a crucial role in binding and hydrolyzing Notoginsenoside R1, showing distinct properties from other residues in the GH39 xylosidase family.
Article
Chemistry, Physical
Jorick Franceus, Jolien Lormans, Lore Cools, Matthias D'hooghe, Tom Desmet
Summary: The study demonstrates significant phosphorylase activity can be established in GH3 glycoside hydrolases through single-site substitutions and further optimized through mutational paths. These findings suggest new insights into developing phosphorylases and provide a novel approach for future research in this field.
Article
Biochemistry & Molecular Biology
Sina Kordes, Sergio Romero-Romero, Leonie Lutz, Birte Hoecker
Summary: This study investigates the effects of introducing salt bridge clusters into different protein structures on their stability and conformational stability, revealing that salt bridge clusters can have varying impacts on the conformational stability of proteins.
Review
Biotechnology & Applied Microbiology
Mauro Mendonca, Mario Barroca, Tony Collins
Summary: This article summarizes 9 glycoside hydrolase families containing enzymes with endo-1,4-8-xylanase activity and discusses their properties, similarities, differences, and biotechnological perspectives. It provides detailed information on substrate specificities, hydrolysis patterns, and the structural determinants of these enzymes, as well as taxonomic aspects of the source organisms. The article highlights shortcomings in current knowledge and identifies research areas that require further clarification. It aims to motivate further research on these enzymes and particularly on the lesser-known endo-1,4-8-xylanase containing families, which will serve as a foundation for the knowledge-based development of process-fitted enzymes in the biobased industries of the future.
BIOTECHNOLOGY ADVANCES
(2023)
Article
Biochemistry & Molecular Biology
Jonas Gregor Wiese, Sooruban Shanmugaratnam, Birte Hoecker
Summary: The successful extension of a robust TIM-barrel scaffold by adding a short de novo helix opens up opportunities for diversifying it towards more pocket-like arrangements, making it a potential building block for future design of binding or catalytic sites.
Article
Soil Science
Limin Fan, Fajun Li, Xi Chen, Lihong Shen, Yuyao Chu, Liping Qiu, Gengdong Hu, Chao Song, Dandan Li, Shunlong Meng, Jiazhang Chen
Summary: In this study, researchers investigated the effects of the red swamp crayfish on the glycoside hydrolase families and fungal communities in soils. They found that the introduction of crayfish was the main factor responsible for the variations in GH families and fungi. Furthermore, they discovered that the abundance of fungi in soils influenced the bacterial chitinase gene abundance, rather than the crayfish exoskeleton.
APPLIED SOIL ECOLOGY
(2023)
Article
Multidisciplinary Sciences
Rohit Jain, Khaja Muneeruddin, Jeremy Anderson, Michael J. Harms, Scott A. Shaffer, C. Robert Matthews
Summary: The study revealed the folding mechanisms of bacterial IGPS TIM barrel enzyme using HDX-MS, identifying protected sites and stable cores, and emphasizing the key role of hydrophobicity in stabilizing high-energy folding intermediates.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biochemistry & Molecular Biology
Sergio Romero-Romero, Miguel Costas, Daniel-Adriano Silva Manzano, Sina Kordes, Erendira Rojas-Ortega, Cinthya Tapia, Yasel Guerra, Sooruban Shanmugaratnam, Adela Rodriguez-Romero, David Baker, Birte Hoecker, D. Alejandro Fernandez-Velasco
Summary: The study successfully designed a collection of stable de novo TIM barrels (DeNovoTIMs) and observed significant non-additive or epistatic effects when stabilizing mutations from different regions of the barrel were combined. This work is an important step towards the fine-tuned modulation of protein stability by design.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Ruonan Wu, Clyde A. Smith, Garry W. Buchko, Ian K. Blaby, David Paez-Espino, Nikos C. Kyrpides, Yasuo Yoshikuni, Jason E. McDermott, Kirsten S. Hofmockel, John R. Cort, Janet K. Jansson
Summary: Metagenomics has revealed the presence of auxiliary metabolic genes (AMGs) in soil viral genomes, and this study provides evidence that these AMGs actually produce functional proteins that can metabolize chitin. The crystal structure of a soil viral AMG product, which exhibits chitosanase activity, has been determined, providing insights into substrate specificity and enzyme mechanism. These findings support the idea that soil viruses contribute auxiliary functions to their hosts.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Zhixiang Yuan, Ying Zhao, Zhitong Mo, Hongxia Liu
Summary: This study discovered that glycoside hydrolases from plant-growth-promoting rhizobacteria (PGPR) can induce defense responses in plants, including cell death and early defense responses. These findings provide a new method for the biological control of plant diseases.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Physiology
Samara Graciane da Costa-Latge, Paul Bates, Rod Dillon, Fernando Ariel Genta
Summary: Sugar-rich food sources are essential for sandflies to meet their energy demands and are mainly digested by glycoside hydrolases. Lutzomyia longipalpis genome contains GH13 and GH31 genes that code for enzymes involved in various aspects of sugar metabolism, with potential roles in blood digestion and interaction with Leishmania. The expansion of alpha-amylases in the genome suggests specialization of proteins for different substrates, possibly due to the diverse plant food availability in the sandflies' natural habitat.
FRONTIERS IN PHYSIOLOGY
(2021)
Article
Materials Science, Paper & Wood
Xiaoyan Zhu, Shanshan Xin, Hao Ding, Yang Yang, Yiling Chen, Xiangqian Li, Hao Shi, Zhongbiao Tan, Jia Zhou, Pei Liu
Summary: The noncatalytic protein Athe_0181 secreted by Caldicellulosiruptor bescii was shown to have high affinity to lignocellulose and played a role in the synergism of glycoside hydrolases for efficient hydrolysis of lignocellulose.
Article
Plant Sciences
Bo Wang, Guichun Wu, Kaihuai Li, Jun Ling, Yancun Zhao, Fengquan Liu
Summary: This study investigated the relationship between protein glycosylation and pathogenicity using Xanthomonas oryzae pv. oryzae as a model. The deletion of PXO_03177 altered the protein levels of outer membrane proteins and affected outer membrane integrity. The study provides evidence that protein glycosylation is essential for the virulence of plant pathogenic bacteria.
Article
Plant Sciences
Jiaying Zou, Chunquan Jiang, Shanshan Qiu, Guohua Duan, Guanqun Wang, Dayong Li, Siwen Yu, Dan Zhao, Wenxian Sun
Summary: Rice false smut caused by Ustilaginoidea virens poses a significant threat to rice grain yield and quality globally. The GH42 protein UvGHF1, secreted by U. virens, not only acts as a crucial virulence factor during the infection process but also functions as a PAMP in rice and tobacco. Additionally, UvGHF1 induces cell death in tobacco and triggers pattern-triggered immunity in rice.
MOLECULAR PLANT PATHOLOGY
(2023)
Article
Plant Sciences
Ryoji Shinya, Haru Kirino, Hironobu Morisaka, Yuko Takeuchi-Kaneko, Kazuyoshi Futai, Mitsuyoshi Ueda
Summary: The study identified that the secreted proteins Bx-GH30 and Bx-CAT2 play a crucial role in the virulence of B. xylophilus in host pine trees, potentially contributing to pine wilt disease.
FRONTIERS IN PLANT SCIENCE
(2021)
