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Difference between revisions of "Carbohydrate Binding Module Family 92"
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== Ligand specificities == | == Ligand specificities == | ||
| − | + | The first characterized member in the CBM92 family is the Cgk16A-CBM92 from a marine bacterium ''Wenyingzhuangia aestuarii'' OF219 <cite>Mei2022</cite>. The CBM92 bound specifically to the red algal polysaccharide carrageenan. It was incapable of binding to other polysaccharide components in red algae including agarose, porphyran, and funoran <cite>Mei2022</cite>. Meanwhile, the CBM92 displayed no affinity to several anionic polysaccharides, namely pectin, chondroitin sulfates, dermatan sulfate, and sulfated fucans <cite>Mei2022</cite>. The Cgk16A-CBM92 showed no significant difference in the affinity to κ- and ι-carrageenan. | |
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== Structural Features == | == Structural Features == | ||
| − | + | No three-dimensional structure has been solved in this CBM family at present. Several conserved residues (e.g., Phe-70, Arg-72, and Phe-75) were discovered through the multiple sequence alignments of Cgk16A-CBM92 and its close homologs <cite>Mei2022</cite>, which might be critical for the ligand binding of this CBM. | |
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== Functionalities == | == Functionalities == | ||
| − | '' | + | [[File:Figure 1.png|thumb|300px|right|'''Figure 1. Domain architecture of the κ-carrageenase Cgk16A. '''The enzyme consists of a signal peptide (1-20 amino acids), a GH16 domain (21-347 amino acids), a CBM92 domain (viz., Cgk16A-CBM92; 378-490 amino acids) and a C-terminal Sorting domain (516-581 amino acids).''' ]] |
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| − | + | In the natural context, Cgk16A-CBM92 is a component of the κ-carrageenase Cgk16A <cite>Shen2018</cite> (Fig. 1). It thus might maintain the enzyme near its substrate to improve the enzymatic activity via the proximity effect. To evaluate the feasibility of Cgk16A-CBM92 as a tool in the ''in situ'' investigation of carrageenan, a fluorescent probe was constructed by fusing Cgk16A-CBM92 with a green fluorescent protein. The ''in situ'' visualization of carrageenan in red alga ''Kappaphycus alvarezii'' was realized by utilizing the fluorescent probe <cite>Mei2022</cite>. | |
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| + | Members of the CBM92 family are present in different glycoside hydrolase (GH) family sequences, e.g., [[GH16]]_17, [[GH5]]_54, [[GH19]], and [[GH95]]. According to the [http://www.cazy.org/CBM92.html CAZy database], these GH families comprise enzymes with various substrate specificities, including κ-carrageenase ([[GH16]]_17), chitinase ([[GH19]]), fucosidase ([[GH95]]), and galactosidase ([[GH95]]). It indicated that functional diversity might be present within the CBM92 family. | ||
== Family Firsts == | == Family Firsts == | ||
| − | ;First Identified | + | ;First Identified: The first characterized CBM92 member <cite>Mei2022</cite> is a component of the κ-carrageenase Cgk16A <cite>Shen2018</cite>, which was discovered from a marine bacterium ''Wenyingzhuangia aestuarii'' OF219. |
| − | : | + | ;First Structural Characterization: No three-dimensional structure has been solved in this CBM family at present. |
| − | ;First Structural Characterization | ||
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== References == | == References == | ||
<biblio> | <biblio> | ||
| − | # | + | #Mei2022 pmid=35830544 |
| − | # | + | #Shen2018 pmid=29355636 |
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</biblio> | </biblio> | ||
<!-- Do not delete this Category tag --> | <!-- Do not delete this Category tag --> | ||
[[Category:Carbohydrate Binding Module Families|CBM092]] | [[Category:Carbohydrate Binding Module Families|CBM092]] | ||
Latest revision as of 07:21, 17 April 2023
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.
| CAZy DB link | |
| http://www.cazy.org/CBM92.html |
Ligand specificities
The first characterized member in the CBM92 family is the Cgk16A-CBM92 from a marine bacterium Wenyingzhuangia aestuarii OF219 [1]. The CBM92 bound specifically to the red algal polysaccharide carrageenan. It was incapable of binding to other polysaccharide components in red algae including agarose, porphyran, and funoran [1]. Meanwhile, the CBM92 displayed no affinity to several anionic polysaccharides, namely pectin, chondroitin sulfates, dermatan sulfate, and sulfated fucans [1]. The Cgk16A-CBM92 showed no significant difference in the affinity to κ- and ι-carrageenan.
Structural Features
No three-dimensional structure has been solved in this CBM family at present. Several conserved residues (e.g., Phe-70, Arg-72, and Phe-75) were discovered through the multiple sequence alignments of Cgk16A-CBM92 and its close homologs [1], which might be critical for the ligand binding of this CBM.
Functionalities
In the natural context, Cgk16A-CBM92 is a component of the κ-carrageenase Cgk16A [2] (Fig. 1). It thus might maintain the enzyme near its substrate to improve the enzymatic activity via the proximity effect. To evaluate the feasibility of Cgk16A-CBM92 as a tool in the in situ investigation of carrageenan, a fluorescent probe was constructed by fusing Cgk16A-CBM92 with a green fluorescent protein. The in situ visualization of carrageenan in red alga Kappaphycus alvarezii was realized by utilizing the fluorescent probe [1].
Members of the CBM92 family are present in different glycoside hydrolase (GH) family sequences, e.g., GH16_17, GH5_54, GH19, and GH95. According to the CAZy database, these GH families comprise enzymes with various substrate specificities, including κ-carrageenase (GH16_17), chitinase (GH19), fucosidase (GH95), and galactosidase (GH95). It indicated that functional diversity might be present within the CBM92 family.
Family Firsts
- First Identified
- The first characterized CBM92 member [1] is a component of the κ-carrageenase Cgk16A [2], which was discovered from a marine bacterium Wenyingzhuangia aestuarii OF219.
- First Structural Characterization
- No three-dimensional structure has been solved in this CBM family at present.
References
- Mei X, Chang Y, Shen J, Zhang Y, Han J, and Xue C. (2022). Characterization of a Novel Carrageenan-Specific Carbohydrate-Binding Module: a Promising Tool for the In Situ Investigation of Carrageenan. J Agric Food Chem. 2022;70(29):9066-9072. DOI:10.1021/acs.jafc.2c03139 |
- Shen J, Chang Y, Chen F, and Dong S. (2018). Expression and characterization of a κ-carrageenase from marine bacterium Wenyingzhuangia aestuarii OF219: A biotechnological tool for the depolymerization of κ-carrageenan. Int J Biol Macromol. 2018;112:93-100. DOI:10.1016/j.ijbiomac.2018.01.075 |