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Difference between revisions of "Glycoside Hydrolase Family 138"

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* [[Author]]: ^^^Didier Ndeh^^^
 
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== Substrate specificities ==
 
== Substrate specificities ==
Glycoside hydrolases of family 138 (GH138) exhibit α-D-galacturonidase activity. This is based on data from the characterisation of the founding member of the family BT0997 encoded by the prominent 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-&alpha;1,3-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>, demonstrating that BT0997 cleaved the D-Gal-&alpha;1,2-Rhap linkage.  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>.
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Members of GH138 exhibit α-D-galacturonidase activity. This is based on data from the characterisation of the founding member of the family BT0997 encoded by the prominent 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-&alpha;1,3-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>, demonstrating that BT0997 cleaved the D-Gal-&alpha;1,2-Rhap linkage.  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
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The kinetic mechanism for this family has not been reported.
  
 
== Catalytic Residues ==
 
== Catalytic Residues ==
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== Three-dimensional structures ==
 
== Three-dimensional structures ==
No 3D structure for a member of this family has been currently reported
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No 3D structure for a member of this family has been currently reported.
  
 
== Family Firsts ==
 
== Family Firsts ==

Revision as of 01:59, 14 February 2018

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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.

Glycoside Hydrolase Family GH138
Clan none
Mechanism unknown
Active site residues unknown
CAZy DB link
http://www.cazy.org/GH138.html


Substrate specificities

Members of GH138 exhibit α-D-galacturonidase activity. This is based on data from the characterisation of the founding member of the family BT0997 encoded by the prominent 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], demonstrating that BT0997 cleaved the D-Gal-α1,2-Rhap linkage. 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

  1. 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. 544, 65-70. DOI:10.1038/nature21725 | PubMed ID:28329766 | HubMed [Ndeh2017]
  2. Lombard V, Golaconda Ramulu H, Drula E, Coutinho PM, and Henrissat B. (2014) The carbohydrate-active enzymes database (CAZy) in 2013. Nucleic Acids Res. 42, D490-5. DOI:10.1093/nar/gkt1178 | PubMed ID:24270786 | HubMed [Lombard2014]
  3. 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. 37, D233-8. DOI:10.1093/nar/gkn663 | PubMed ID:18838391 | HubMed [Cantarel2009]
  4. 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. 464, 59-65. DOI:10.1038/nature08821 | PubMed ID:20203603 | HubMed [Qin2010]
All Medline abstracts: PubMed | HubMed