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Glycoside hydrolase

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https://www.readbyqxmd.com/read/29351964/chitinase-like-proteins-as-regulators-of-innate-immunity-and-tissue-repair-helpful-lessons-for-asthma
#1
REVIEW
Tara E Sutherland
Chitinases and chitinase-like proteins (CLPs) belong to the glycoside hydrolase family 18 of proteins. Chitinases are expressed in mammals and lower organisms, facilitate chitin degradation, and hence act as host-defence enzymes. Gene duplication and loss-of-function mutations of enzymatically active chitinases have resulted in the expression of a diverse range of CLPs across different species. CLPs are genes that are increasingly associated with inflammation and tissue remodelling not only in mammals but also across distant species...
January 19, 2018: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29348510/genome-and-secretome-analysis-of-pochonia-chlamydosporia-provide-new-insight-into-egg-parasitic-mechanisms
#2
Runmao Lin, Feifei Qin, Baoming Shen, Qianqian Shi, Chichuan Liu, Xi Zhang, Yang Jiao, Jun Lu, Yaoyao Gao, Marta Suarez-Fernandez, Federico Lopez-Moya, Luis Vicente Lopez-Llorca, Gang Wang, Zhenchuan Mao, Jian Ling, Yuhong Yang, Xinyue Cheng, Bingyan Xie
Pochonia chlamydosporia infects eggs and females of economically important plant-parasitic nematodes. The fungal isolates parasitizing different nematodes are genetically distinct. To understand their intraspecific genetic differentiation, parasitic mechanisms, and adaptive evolution, we assembled seven putative chromosomes of P. chlamydosporia strain 170 isolated from root-knot nematode eggs (~44 Mb, including 7.19% of transposable elements) and compared them with the genome of the strain 123 (~41 Mb) isolated from cereal cyst nematode...
January 18, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29344086/correlation-of-structure-function-and-protein-dynamics-in-gh7-cellobiohydrolases-from-trichoderma-atroviride-t-reesei-and-t-harzianum
#3
Anna S Borisova, Elena V Eneyskaya, Suvamay Jana, Silke F Badino, Jeppe Kari, Antonella Amore, Magnus Karlsson, Henrik Hansson, Mats Sandgren, Michael E Himmel, Peter Westh, Christina M Payne, Anna A Kulminskaya, Jerry Ståhlberg
Background: The ascomycete fungus Trichoderma reesei is the predominant source of enzymes for industrial conversion of lignocellulose. Its glycoside hydrolase family 7 cellobiohydrolase (GH7 CBH) TreCel7A constitutes nearly half of the enzyme cocktail by weight and is the major workhorse in the cellulose hydrolysis process. The orthologs from Trichoderma atroviride (TatCel7A) and Trichoderma harzianum (ThaCel7A) show high sequence identity with TreCel7A, ~ 80%, and represent naturally evolved combinations of cellulose-binding tunnel-enclosing loop motifs, which have been suggested to influence intrinsic cellobiohydrolase properties, such as endo-initiation, processivity, and off-rate...
2018: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/29343191/thermophilic-xylanases-from-bench-to-bottle
#4
Abdul Basit, Junquan Liu, Kashif Rahim, Wei Jiang, Huiqiang Lou
Lignocellulosic biomass is a valuable raw material. As technology has evolved, industrial interest in new ways to take advantage of this raw material has grown. Biomass is treated with different microbial cells or enzymes under ideal industrial conditions to produce the desired products. Xylanases are the key enzymes that degrade the xylosidic linkages in the xylan backbone of the biomass, and commercial enzymes are categorized into different glycoside hydrolase families. Thermophilic microorganisms are excellent sources of industrially relevant thermostable enzymes that can withstand the harsh conditions of industrial processing...
January 17, 2018: Critical Reviews in Biotechnology
https://www.readbyqxmd.com/read/29339290/biocatalytic-strategies-in-the-production-of-galacto-oligosaccharides-and-its-global-status
#5
REVIEW
Parmjit S Panesar, Rupinder Kaur, Ram S Singh, John F Kennedy
Galactooligosaccharides (GOSs) are the non-digestible carbohydrates that are composed of 3-10 or longer molecules of galactose and the terminal glucose molecule. These are considered as prebiotics owing to their various health benefits, and therefore is the major focus of research. These are generally synthesized by the catalytic activity of the glycoside hydrolases (GH) utilizing lactose as a substrate, which results in the mixture of GOSs differing in their degree of polymerization. Different microbial glycoside hydrolases have been used for the production...
January 12, 2018: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/29321205/advantages-of-a-distant-cellulase-catalytic-base
#6
Tucker Burgin, Jerry Ståhlberg, Heather B Mayes
The inverting glycoside hydrolase Trichoderma reesei (Hypocrea jecorina) Cel6A is a promising candidate for protein engineering for more economical production of biofuels. Until recently, its catalytic mechanism had been uncertain: the best candidate residue to serve as a catalytic base, D175, is further from the glycosidic cleavage site than in other glycoside hydrolase enzymes. Recent unbiased transition path sampling simulations revealed the hydrolytic mechanism for this more distant base, employing a water wire; however, it is not clear why the enzyme employs a more distant catalytic base, a highly-conserved feature among homologs across different kingdoms...
January 10, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29317507/identification-of-euglena-gracilis-%C3%AE-1-3-glucan-phosphorylase-and-establishment-of-a-new-glycoside-hydrolase-gh-family-gh149
#7
Sakonwan Kuhaudomlarp, Nicola J Patron, Bernard Henrissat, Martin Rejzek, Gerhard Saalbach, Robert A Field
Glycoside phosphorylases (EC 2.4.x.x) carry out the reversible phosphorolysis of glucan polymers, producing the corresponding sugar 1-phosphate and a shortened glycan chain. β-1,3-Glucan phosphorylase activities have been reported in the photosynthetic Euglenozoan Euglena gracilis, but the cognate protein sequences have not been identified to date. Continuing our efforts to understand the glycobiology of E. gracilis, we identified a candidate phosphorylase sequence, designated EgP1, by proteomic analysis of an enriched cellular protein lysate...
January 9, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29317504/structural-analysis-of-group-ii-chitinase-chtii-catalysis-completes-the-puzzle-of-chitin-hydrolysis-in-insects
#8
Wei Chen, Mingbo Qu, Yong Zhou, Qing Yang
Chitin is a linear homopolymer of N-acetyl-β-D-glucosamines and a major structural component of insect cuticles. Chitin hydrolysis involves glycoside hydrolase family 18 (GH18) chitinases. In insects, chitin hydrolysis is essential for periodic shedding of the old cuticle ecdysis and proceeds via a pathway different from that in the well-studied bacterial chitinolytic system. Group II chitinase (ChtII) is a widespread chitinolytic enzyme in insects and contains the greatest number of catalytic domains and chitin binding domains among chitinases...
January 9, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29306435/fluorescence-quenched-substrates-for-quantitative-live-cell-imaging-of-glucocerebrosidase-activity
#9
Roger A Ashmus, David L Shen, David J Vocadlo
Glucocerebrosidase (GCase) is a lysosomal glycoside hydrolase that cleaves the glycolipid glucosylceramide (GlcCer). Deficiencies of this enzyme lead to accumulation of GlcCer and the development of the lysosomal storage disease known as Gaucher's disease. Recently, loss-of-function mutations in the GBA1 gene that encodes GCase have been linked to Parkinson's disease. Currently pursued therapeutic strategies to increase GCase involve enzyme replacement therapy, chemical chaperone therapy, and GCase activators...
2018: Methods in Enzymology
https://www.readbyqxmd.com/read/29306433/insights-into-glucan-polysaccharide-recognition-using-glucooligosaccharide-microarrays-with-oxime-linked-neoglycolipid-probes
#10
Yan Liu, Angelina S Palma, Ten Feizi, Wengang Chai
Glucans are polysaccharides of increasing biomedical interest because of their involvement in mechanisms of pathogen recognition, modulation of the immune system and anticancer, and health-promoting activities. Most of these biological activities occur through specific interactions with glucan-recognizing proteins. However, detailed molecular studies of glucan recognition remain a challenge mainly due to the inherent sequence heterogeneity and polydispersity of glucan polysaccharides, and associated difficulties in their purification and sequence characterization...
2018: Methods in Enzymology
https://www.readbyqxmd.com/read/29302817/characterization-of-a-long-chain-%C3%AE-galactosidase-from-papiliotrema-flavescens
#11
Barbora Stratilová, Jaroslav Klaudiny, Pavel Řehulka, Eva Stratilová, Csilla Mészárosová, Soňa Garajová, Barbora Pavlatovská, Helena Řehulková, Stanislav Kozmon, Sergej Šesták, Zuzana Firáková, Renáta Vadkertiová
α-Galactosidases are assigned to the class of hydrolases and the subclass of glycoside hydrolases (GHs). They belong to six GH families and include the only characterized α-galactosidases from yeasts (GH 27, Saccharomyces cerevisiae). The present study focuses on an investigation of the lactose-inducible α-galactosidase produced by Papiliotrema flavescens. The enzyme was present on the surface of cells and in the cytosol. Its temperature optimum was about 60 °C and the pH optimum was 4.8; the pH stability ranged from 3...
January 4, 2018: World Journal of Microbiology & Biotechnology
https://www.readbyqxmd.com/read/29302718/action-of-different-types-of-endoxylanases-on-eucalyptus-xylan-in-situ
#12
Vladimír Puchart, Lucia Fraňová, Kristian B R Mørkeberg Krogh, Tine Hoff, Peter Biely
Most studies of the mode of action of industrially important endoxylanases have been done on alkali extracted-plant xylan. In just few cases, the native form of the polysaccharide, acetylated xylan, was used as a substrate. In this work action of xylanases belonging to three glycoside hydrolase families, GH10, GH11, and GH30 was investigated on acetylglucuronoxylan directly in hardwood cell walls. Powdered eucalyptus wood was used as xylanase substrate. Enzyme-generated fragments were characterized by TLC, MALDI ToF MS, and NMR spectroscopy...
January 4, 2018: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29287324/development-and-characterization-of-an-%C3%AE-l-rhamnosidase-mutant-with-improved-thermostability-and-a-higher-efficiency-for-debittering-orange-juice
#13
Li Jun Li, Zhe Yu Wu, Yue Yu, Lu Jia Zhang, Yan Bing Zhu, Hui Ni, Feng Chen
The glycoside hydrolase, α-l-rhamnosidase, could remove the bitter taste of naringin from citrus juices. However, most α-l-rhamnosidases are easily deactivated at high temperatures, limiting the practice in debittering citrus juices. The V529A mutant of the α-l-rhamnosidase r-Rha1 from Aspergillus niger JMU-TS528 was developed with improved thermostability using directed evolution technology and site-directed mutagenesis. The enzyme mutant had a half-live of thermal inactivation T(1/2) of 1.92 h, 25.00 min, and 2 min at 60, 65, and 70 °C, respectively...
April 15, 2018: Food Chemistry
https://www.readbyqxmd.com/read/29285933/qm-mm-and-mm-md-simulations-on-the-pyrimidine-specific-nucleoside-hydrolase-a-comprehensive-understanding-toward-enzymatic-hydrolysis-of-uridine
#14
Fangfang Fan, Nan-Hao Chen, Yong-Heng Wang, Ruibo Wu, Zexing Cao
The pyrimidine-specific nucleoside hydrolase Yeik (CU-NH) from Escherichia coli cleaves the N-glycosidic bond of uridine and cytidine with a 102~104-fold faster than that of purine nucleoside substrates such as inosine. Such remarkable substrate specificity and the plausible hydrolytic mechanisms of uridine have been explored by using QM/MM and MM MD simulations. The present calculations show that the relatively stronger hydrogen bond interactions between uridine and the active-site residues Gln227 and Tyr231 in CU-NH play an important role in enhancing the substrate binding and thus promoting the N-glycosidic bond cleavage, in comparison with inosine...
December 29, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/29273737/hydrolytic-activity-determination-of-tail-tubular-protein-a-of-klebsiella-pneumoniae-bacteriophages-towards-saccharide-substrates
#15
Ewa Brzozowska, Anna Pyra, Krzysztof Pawlik, Monika Janik, Sabina Górska, Natalia Urbańska, Zuzanna Drulis-Kawa, Andrzej Gamian
In this paper, the enzymatic activity, substrate specificity and antibiofilm feature of bacteriophage dual-function tail proteins are presented. So far, tail tubular proteins A-TTPAgp31 and TTPAgp44-have been considered as structural proteins of Klebsiella pneumoniae bacteriophages KP32 and KP34, respectively. Our results show that TTPAgp31 is able to hydrolyze maltose as well as Red-starch. The activity of 1 µM of the protein was calculated as 47.6 milli-Units/assay relating to the α-amylase activity. It degrades capsular polysaccharides (cPS), slime polysaccharides (sPS) and lipopolysaccharide (LPS) of K...
December 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29251740/the-role-of-catalytic-residue-pka-on-the-hydrolysis-transglycosylation-partition-in-family-3-%C3%AE-glucosidases
#16
Inacrist Geronimo, Christina M Payne, Mats Sandgren
β-Glucosidases (βgls) primarily catalyze the hydrolysis of the terminal glycosidic bond at the non-reducing end of β-glucosides, although glycosidic bond synthesis (called transglycosylation) can also occur in the presence of another acceptor. In the final reaction step, the glucose product or another substrate competes with water for transfer to the glycosyl-enzyme intermediate. The factors governing the balance between the two pathways are not fully known; however, the involvement of ionizable residues in binding and catalysis suggests that their pKa may play a role...
December 18, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/29251719/expression-system-for-structural-and-functional-studies-of-human-glycosylation-enzymes
#17
Kelley W Moremen, Annapoorani Ramiah, Melissa Stuart, Jason Steel, Lu Meng, Farhad Forouhar, Heather A Moniz, Gagandeep Gahlay, Zhongwei Gao, Digantkumar Chapla, Shuo Wang, Jeong-Yeh Yang, Pradeep Kumar Prabhakar, Roy Johnson, Mitche Dela Rosa, Christoph Geisler, Alison V Nairn, Jayaraman Seetharaman, Sheng-Cheng Wu, Liang Tong, Harry J Gilbert, Joshua LaBaer, Donald L Jarvis
Vertebrate glycoproteins and glycolipids are synthesized in complex biosynthetic pathways localized predominantly within membrane compartments of the secretory pathway. The enzymes that catalyze these reactions are exquisitely specific, yet few have been extensively characterized because of challenges associated with their recombinant expression as functional products. We used a modular approach to create an expression vector library encoding all known human glycosyltransferases, glycoside hydrolases, and sulfotransferases, as well as other glycan-modifying enzymes...
December 18, 2017: Nature Chemical Biology
https://www.readbyqxmd.com/read/29250902/biochemical-characterization-and-mechanistic-analysis-of-the-levoglucosan-kinase-from-lipomyces-starkeyi
#18
Christina Rother, Alexander Gutmann, Ramakrishna Gudiminchi, Hansjörg Weber, Alexander Lepak, Bernd Nidetzky
Levoglucosan kinase (LGK) catalyzes the simultaneous hydrolysis and phosphorylation of levoglucosan (1,6-anhydro-β-D-glucopyranose) in the presence of Mg2+-ATP. For the Lipomyces starkeyi LGK, we show here with real-time in situ NMR spectroscopy at 10°C and pH 7.0 that the enzymatic reaction proceeds with inversion of anomeric stereochemistry, resulting in the formation of α-D-glucose-6-phosphate, in a manner reminiscent of an inverting β-glycoside hydrolase. Kinetic characterization revealed the Mg2+ concentration for optimum activity (20-50 mM), the apparent binding of levoglucosan (Km = 180 mM) and ATP (Km = 1...
December 18, 2017: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/29246508/structural-and-thermodynamic-characterization-of-endo-1-3-%C3%AE-glucanase-insights-into-the-substrate-recognition-mechanism
#19
Masayuki Oda, Satomi Inaba, Narutoshi Kamiya, Gert-Jan Bekker, Bunzo Mikami
Endo-1,3-β-glucanase from Cellulosimicrobium cellulans is composed of a catalytic domain and a carbohydrate-binding module. We have determined the X-ray crystal structure of the catalytic domain at a high resolution of 1.66Å. The overall fold is a sandwich-like β-jelly roll architecture like the enzymes in the glycoside hydrolase family 16. The substrate-binding cleft has a length and a width of ~28 and ~15Å, respectively, which is thought to be capable of accommodating at least six glucopyranose units...
December 12, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29243204/genome-wide-assessment-of-polygalacturonases-like-pgl-genes-of-medicago-truncatula-sorghum-bicolor-vitis-vinifera-and-oryza-sativa-using-comparative-genomics-approach
#20
Gautam Anand, Sangeeta Yadav, Aiman Tanveer, Jeya Nasim, Nitish K Singh, Amit K Dubey, Dinesh Yadav
The polygalacturonases (PG) is one of the important members of pectin-degrading glycoside hydrolases of the family GH28. In plants, PG represents multigene families associated with diverse processes. In the present study, an attempt has been made to investigate the diversity of PG genes among monocots and dicots with respect to phylogeny, gene duplication and subcellular localization to get an insight into the evolutionary and functional attributes. The genome-wide assessment of Medicago truncatula, Vitis vinifera Sorghum bicolor, and Oryza sativa L...
December 14, 2017: Interdisciplinary Sciences, Computational Life Sciences
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