New to the CAZy classification? Read this first.
Want to learn more about CAZypedia? Read the CAZypedia 10th anniversary article in Glycobiology.

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Revision as of 21:01, 27 November 2013

Welcome to CAZypedia!
The Encyclopedia of Carbohydrate-Active Enzymes.
Cazypedia logo big.png

Purpose

CAZypedia has been initiated as a community-driven resource to assemble a comprehensive encyclopedia of the "CAZymes," the carbohydrate-active enzymes and associated carbohydrate-binding modules involved in the synthesis and degradation of complex carbohydrates. CAZypedia is inspired by, and closely connected with, the actively curated CAZy Database. It's probably fair to say that CAZypedians are, like our friends at the CAZy DB, a group of "biocurators."
If you are new to the CAZyme classification, "Sorting the Diverse" by Professors Gideon Davies and Michael Sinnott (The Biochemist, 2008, vol. 30, part 4, pp. 26-32) provides an excellent introduction and historical perspective.

Content

CAZypedia initially focussed on the Glycoside Hydrolase Families defined in the CAZy Database, and we continue to strive for complete coverage of this diverse class of enzymes. Other catabolic and anabolic CAZymes, as well as Auxiliary redox enzymes and non-catalytic Carbohydrate Binding Modules, continue to be incorporated as interest and engagement from the scientific community grows. In addition, there is a Lexicon of terms relevant to CAZymes and carbohydrate chemistry.
These and other aspects of CAZypedia's content can be accessed through the menus on the left side of each page.

How CAZypedia works

CAZypedia is built on authoring and editing principles similar to those of other expert-based online encyclopedias (cf. Citizendium, Scholarpedia). All contributors to CAZypedia, from the Authors to the Board of Curators, are experts in the field. Transparency is achieved through the use of contributors' real names and published biographies in CAZypedia. Individual entries in CAZypedia are managed by Responsible Curators, who are responsible for selecting expert Authors and coordinating author contributions on individual pages. Selection of Responsible Curators, based on their specialist expertise and ability to participate in the active maintenance of entry content, is handled by the Senior Curators.
More information on CAZypedia's content and editorial policies is available here.
A short lecture and a set of slides presenting CAZypedia are freely available here.
An article describing CAZypedia's genesis and evolution has been published in the journal Glycobiology.

Contact

If you would like to get involved with CAZypedia or suggest an improvement, please contact the Board of Curators.

Latest news

15 May 2020: CBM20 for 2020! The multifunctional starch-disrupting, starch-binding and enzyme targeting CBM20 family is now up and running in CAZypedia. These pervasive CBMs have been identified in CAZy families including glycoside hydrolases and lytic polysaccharide monooxygenases but also in non-CAZy enzymes. The page was authored by Marie Sofie Møller with Birte Svensson and Stefan Janecek acting as responsible curators. Find out more on this starch-interacting family here.

15 May 2020: More on beta(1,3)-glucanases. The Glycoside Hydrolase Family 64 page, Authored by Julie Grondin, was completed and Curator Approved today. GH64 comprises a group of β-1,3-glucanases, primarily from bacteria.The archetype of this family was originally cloned from a Streptomyces species in the late 1990's and was the subject of mechanistic and structural analysis through the first decade of the new millenium. Notably, analysis by a team led by Bernard Henrissat defined that this enzyme, and thus family, uses an inverting mechanism, further disntiguishing it from well-known retaining beta(1,3)-glucanases of GH16, GH17, and others, including the recently described GH158 beta(1,3)-glucanases reported below. Read more about the unique Glycoside Hydrolase Family 64 here.


11 May 2020: Three more from the gut. Alan Cartmell completed no less than three new Glycoside Hydrolase Family pages on this day. Glycoside Hydrolase Family 137, Glycoside Hydrolase Family 140, and Glycoside Hydrolase Family 145 were all created from a series of studies of Polysacchardie Utilization Loci from human gut bacteria by Harry Gilbert's group, to which Alan contributed defining crystallography. Alan has also taken over the duty of Responsible Curator of these pages following the retirement of the venerable Professor Gilbert, one of CAZypedia's founding Senior Curators. Read more about the substrate specificity and structural biology of these three diverse families on their corresponding pages.


6 May 2020: CE #1! The first Carbohydrate Esterase Family page in the series, CE1, was Curator Approved today. Authored by Casper Wilkens, the Carbohydrate Esterase Family 1 page describes an old family of carbohydrate-specific and other esterases, members of which were identified through classical biochemistry before the present age of easy gene cloning and sequencing. Carbohydrate-active members of CE1 include acetyl xylan esterases, cinnamoyl esterases, and feruloyl esterases responsible for hydrolyzing pendant acyl groups from plant cell wall matrix glycans (hemicelluloses). Read more about the long history of Carbohydrate Esterase Family 1 here.


10 April 2020: Yet another new one from the gut. Today, Author Kazune Tamura completed the Glycoside Hydrolase Family 158 page. GH158 emerged in 2019 from a high-throughput biochemical survey of sequences identified as distantly related to glycoside hydrolases by the CAZy team, who first demonstrated endo-beta(1,3)-glucanase activity for the founding member of the family from the human gut bacterium Victivallis vadensis. Contemporaneously, analysis of homolgos from human gut Bacteroides species by Guillaume Dejean and Kazune Tamura resolved details of the specificity, mechanism, and tertiary structure of GH158 members in Polysaccharide Utilization Loci. Read about the detailed history and juicy details of this new GH family here.


8 April 2020: Another new one from the gut. The Glycoside Hydrolase Family 164 page, which was authored by Zachary Armstrong, was upgraded to Curator Approved status by Responsible Curator Gideon Davies today. Glycoside Hydrolase Family 164 is yet another newly discovered GH family from a human gut bacterium - this time through a large-scale effort by teams at AFMB and CERMAV spearheaded by Bernard Henrissat. The founding member of GH164 is a beta-mannosidase from Bacteroides salyersiae, on which Zach and Gideon performed a classic mechanistic and structural analysis to define the central aspects of catalysis in this new family. Read more about this new - and currently tiny - GH family here.


> older news

Dedication

CAZypedia is dedicated to the late Prof. Bruce Stone, whose enthusiasm to create a comprehensive encyclopedia of carbohydrate-active enzymes was essential in the genesis of this project.