CAZypedia needs your help! We have many unassigned GH, PL, CE, AA, GT, and CBM pages in need of Authors and Responsible Curators.
Scientists at all career stages, including students, are welcome to contribute to CAZypedia. Read more here, and in the 10th anniversary article in Glycobiology.
New to the CAZy classification? Read this first.
*
Consider attending the 15th Carbohydrate Bioengineering Meeting in Ghent, 5-8 May 2024.
Difference between revisions of "Glycoside Hydrolase Family 138"
Harry Brumer (talk | contribs) (Created page with "<!-- RESPONSIBLE CURATORS: Please replace the {{UnderConstruction}} tag below with {{CuratorApproved}} when the page is ready for wider public consumption --> {{UnderConstruct...") |
|||
| (11 intermediate revisions by 4 users not shown) | |||
| Line 1: | Line 1: | ||
| − | + | {{CuratorApproved}} | |
| − | |||
* [[Author]]: ^^^Didier Ndeh^^^ | * [[Author]]: ^^^Didier Ndeh^^^ | ||
* [[Responsible Curator]]: ^^^Harry Gilbert^^^ | * [[Responsible Curator]]: ^^^Harry Gilbert^^^ | ||
| Line 12: | Line 11: | ||
|- | |- | ||
|'''Clan''' | |'''Clan''' | ||
| − | | | + | |none |
|- | |- | ||
|'''Mechanism''' | |'''Mechanism''' | ||
| − | | | + | |unknown |
|- | |- | ||
|'''Active site residues''' | |'''Active site residues''' | ||
| − | | | + | |unknown |
|- | |- | ||
|{{Hl2}} colspan="2" align="center" |'''CAZy DB link''' | |{{Hl2}} colspan="2" align="center" |'''CAZy DB link''' | ||
| Line 29: | Line 28: | ||
== Substrate specificities == | == Substrate specificities == | ||
| − | + | [[Glycoside hydrolases]] of family 138 exhibit α-D-galacturonidase activity. This is based on data from the characterisation of the founding member of the family BT0997 encoded by the human gut bacterium ''B. thetaiotaomicron'' <cite>Ndeh2017</cite>. BT0997 hydrolyses a fragment (GalA-α1,2(GalA-β1,3)(2MeXyl-α1,3-Fuc-α1,4)Rha-α1,3-Api) of chain A from the pectic polysaccharide rhamnogalacturonan II, producing D-galacturonic acid and the resulting oligosaccharide GalA-β1,3(2MeXyl-α1,3Fuc-α1,4)Rha-α1,3Api <cite>Ndeh2017</cite>. Several members of this family have been identified in gut and environmental bacteria with a majority of the encoding microbes belonging to the Bacteroidetes phylum <cite>Lombard2014 Cantarel2009</cite>. This phylum is highly represented in human gut microbial populations <cite>Qin2010</cite>. | |
| − | |||
| − | |||
| − | |||
| − | |||
== Kinetics and Mechanism == | == Kinetics and Mechanism == | ||
| − | + | The kinetic mechanism for this family has not been reported. | |
== Catalytic Residues == | == Catalytic Residues == | ||
| − | + | The catalytic residues for this family have not yet been identified. | |
== Three-dimensional structures == | == Three-dimensional structures == | ||
| − | + | No 3D structure for a member of this family has been currently reported. | |
== Family Firsts == | == Family Firsts == | ||
| − | ;First stereochemistry determination: | + | ;First stereochemistry determination:Currently unknown. |
| − | ;First catalytic nucleophile identification: | + | ;First catalytic nucleophile identification:Currently unknown. |
| − | ;First general acid/base residue identification: | + | ;First general acid/base residue identification:Currently unknown. |
| − | ;First 3-D structure: | + | ;First 3-D structure:Currently unknown. |
== References == | == References == | ||
<biblio> | <biblio> | ||
#Cantarel2009 pmid=18838391 | #Cantarel2009 pmid=18838391 | ||
| − | # | + | #Ndeh2017 pmid=28329766 |
| + | #Qin2010 pmid=20203603 | ||
| + | #Lombard2014 pmid=24270786 | ||
| + | |||
| + | |||
</biblio> | </biblio> | ||
[[Category:Glycoside Hydrolase Families|GH138]] | [[Category:Glycoside Hydrolase Families|GH138]] | ||
Revision as of 14:52, 16 February 2018
This page has been approved by the Responsible Curator as essentially complete. CAZypedia is a living document, so further improvement of this page is still possible. If you would like to suggest an addition or correction, please contact the page's Responsible Curator directly by e-mail.
- Author: ^^^Didier Ndeh^^^
- Responsible Curator: ^^^Harry Gilbert^^^
| Glycoside Hydrolase Family GH138 | |
| Clan | none |
| Mechanism | unknown |
| Active site residues | unknown |
| CAZy DB link | |
| http://www.cazy.org/GH138.html | |
Substrate specificities
Glycoside hydrolases of family 138 exhibit α-D-galacturonidase activity. This is based on data from the characterisation of the founding member of the family BT0997 encoded by the human gut bacterium B. thetaiotaomicron [1]. BT0997 hydrolyses a fragment (GalA-α1,2(GalA-β1,3)(2MeXyl-α1,3-Fuc-α1,4)Rha-α1,3-Api) of chain A from the pectic polysaccharide rhamnogalacturonan II, producing D-galacturonic acid and the resulting oligosaccharide GalA-β1,3(2MeXyl-α1,3Fuc-α1,4)Rha-α1,3Api [1]. Several members of this family have been identified in gut and environmental bacteria with a majority of the encoding microbes belonging to the Bacteroidetes phylum [2, 3]. This phylum is highly represented in human gut microbial populations [4].
Kinetics and Mechanism
The kinetic mechanism for this family has not been reported.
Catalytic Residues
The catalytic residues for this family have not yet been identified.
Three-dimensional structures
No 3D structure for a member of this family has been currently reported.
Family Firsts
- First stereochemistry determination
- Currently unknown.
- First catalytic nucleophile identification
- Currently unknown.
- First general acid/base residue identification
- Currently unknown.
- First 3-D structure
- Currently unknown.
References
- Ndeh D, Rogowski A, Cartmell A, Luis AS, Baslé A, Gray J, Venditto I, Briggs J, Zhang X, Labourel A, Terrapon N, Buffetto F, Nepogodiev S, Xiao Y, Field RA, Zhu Y, O'Neil MA, Urbanowicz BR, York WS, Davies GJ, Abbott DW, Ralet MC, Martens EC, Henrissat B, and Gilbert HJ. (2017). Complex pectin metabolism by gut bacteria reveals novel catalytic functions. Nature. 2017;544(7648):65-70. DOI:10.1038/nature21725 |
- Lombard V, Golaconda Ramulu H, Drula E, Coutinho PM, and Henrissat B. (2014). The carbohydrate-active enzymes database (CAZy) in 2013. Nucleic Acids Res. 2014;42(Database issue):D490-5. DOI:10.1093/nar/gkt1178 |
- Cantarel BL, Coutinho PM, Rancurel C, Bernard T, Lombard V, and Henrissat B. (2009). The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics. Nucleic Acids Res. 2009;37(Database issue):D233-8. DOI:10.1093/nar/gkn663 |
- Qin J, Li R, Raes J, Arumugam M, Burgdorf KS, Manichanh C, Nielsen T, Pons N, Levenez F, Yamada T, Mende DR, Li J, Xu J, Li S, Li D, Cao J, Wang B, Liang H, Zheng H, Xie Y, Tap J, Lepage P, Bertalan M, Batto JM, Hansen T, Le Paslier D, Linneberg A, Nielsen HB, Pelletier E, Renault P, Sicheritz-Ponten T, Turner K, Zhu H, Yu C, Li S, Jian M, Zhou Y, Li Y, Zhang X, Li S, Qin N, Yang H, Wang J, Brunak S, Doré J, Guarner F, Kristiansen K, Pedersen O, Parkhill J, Weissenbach J, MetaHIT Consortium, Bork P, Ehrlich SD, and Wang J. (2010). A human gut microbial gene catalogue established by metagenomic sequencing. Nature. 2010;464(7285):59-65. DOI:10.1038/nature08821 |