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Difference between revisions of "Glycoside Hydrolase Family 138"
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| − | + | * [[Author]]: [[User:Didier Ndeh|Didier Ndeh]] | |
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== Substrate specificities == | == Substrate specificities == | ||
| − | Glycoside hydrolases of family 138 | + | [[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 | + | The kinetic mechanism for this family has not been reported. |
== Catalytic Residues == | == Catalytic Residues == | ||
| Line 38: | Line 37: | ||
== Three-dimensional structures == | == Three-dimensional structures == | ||
| − | No 3D structure for a member of this family has been currently reported | + | No 3D structure for a member of this family has been currently reported. |
== Family Firsts == | == Family Firsts == | ||
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;First general acid/base residue identification:Currently unknown. | ;First general acid/base residue identification:Currently unknown. | ||
;First 3-D structure:Currently unknown. | ;First 3-D structure:Currently unknown. | ||
| + | |||
== References == | == References == | ||
<biblio> | <biblio> | ||
Latest revision as of 13:14, 18 December 2021
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| Glycoside Hydrolase Family GH138 | |
| Clan | none |
| Mechanism | unknown |
| Active site residues | unknown |
| CAZy DB link | |
| https://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 |