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Difference between revisions of "Carbohydrate Binding Module Family 83"
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== Ligand specificities == | == Ligand specificities == | ||
| − | + | Only one member of this family has been characterized to date, the fifth CBM found in the cell-wall anchored Amy13K from ''Eubacterium rectale''. It was found to bind beta-cyclodextrin and glycogen with similar affinity, with slightly weaker affinity for maltoheptaose as determined by isothermal titration calorimetry. The module was also found to bind to corn starch granules, both from a wild-type source and from a high amylose source (HiMaize 260) with approximately equal affinity but did not demonstrate binding to potato starch or a chemically crosslinked starch (Fibersym) as determined via depletion assays. Little if any binding to amylopectin and pullulan was found when tested via affinity electrophoresis. | |
| − | + | <cite>Cockburn2018</cite>. | |
| − | |||
== Structural Features == | == Structural Features == | ||
| − | + | There is currently no structures solved for this family, however, secondary structure analysis and alignments suggest they are likely to be beta-sandwich type folds similar to the [[CBM41]] family. | |
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| − | |||
| − | |||
== Functionalities == | == Functionalities == | ||
| − | + | This family has been found to be exclusively associated with [[GH13]] family amylases from a quite narrow taxonomic range within ''Roseburia'' and ''Eubacterium rectale''. Removal of the only CBM83 from the ''E. rectale'' Amy13K enzyme had little effect on its activity towards amylopectin and potato starch, but resulted in a 2-fold decrease in the activity towards corn starch granules, suggesting an important role in activity towards this substrate <cite>Cockburn2018</cite> | |
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== Family Firsts == | == Family Firsts == | ||
| − | ;First Identified | + | ;First Identified |
| − | + | In ''Roseburia inulinivorans'' as a predicted CBM <cite>Ramsay2006</cite> | |
| − | ;First | + | |
| − | + | ;First Characterized | |
| + | From ''E. rectale'' Amy13K, establishing the family <cite>Cockburn2018</cite> | ||
| + | |||
== References == | == References == | ||
<biblio> | <biblio> | ||
| − | # | + | #Cockburn2018 pmid=29139580 |
| − | # | + | #Ramsay2006 pmid=17074899 |
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| − | |||
| − | |||
| − | |||
| − | |||
</biblio> | </biblio> | ||
[[Category:Carbohydrate Binding Module Families|CBM083]] <!-- ATTENTION: Make sure to replace "nnn" with a three digit family number, e.g. "032" or "105" etc., for proper sorting of the page by family number. --> | [[Category:Carbohydrate Binding Module Families|CBM083]] <!-- ATTENTION: Make sure to replace "nnn" with a three digit family number, e.g. "032" or "105" etc., for proper sorting of the page by family number. --> | ||
Revision as of 13:09, 8 May 2019
This page is currently under construction. This means that the Responsible Curator has deemed that the page's content is not quite up to CAZypedia's standards for full public consumption. All information should be considered to be under revision and may be subject to major changes.
- Author: ^^^Darrell Cockburn^^^
- Responsible Curator: ^^^Nicole Koropatkin^^^
| CAZy DB link | |
| http://www.cazy.org/CBM83.html |
Ligand specificities
Only one member of this family has been characterized to date, the fifth CBM found in the cell-wall anchored Amy13K from Eubacterium rectale. It was found to bind beta-cyclodextrin and glycogen with similar affinity, with slightly weaker affinity for maltoheptaose as determined by isothermal titration calorimetry. The module was also found to bind to corn starch granules, both from a wild-type source and from a high amylose source (HiMaize 260) with approximately equal affinity but did not demonstrate binding to potato starch or a chemically crosslinked starch (Fibersym) as determined via depletion assays. Little if any binding to amylopectin and pullulan was found when tested via affinity electrophoresis. [1].
Structural Features
There is currently no structures solved for this family, however, secondary structure analysis and alignments suggest they are likely to be beta-sandwich type folds similar to the CBM41 family.
Functionalities
This family has been found to be exclusively associated with GH13 family amylases from a quite narrow taxonomic range within Roseburia and Eubacterium rectale. Removal of the only CBM83 from the E. rectale Amy13K enzyme had little effect on its activity towards amylopectin and potato starch, but resulted in a 2-fold decrease in the activity towards corn starch granules, suggesting an important role in activity towards this substrate [1]
Family Firsts
- First Identified
In Roseburia inulinivorans as a predicted CBM [2]
- First Characterized
From E. rectale Amy13K, establishing the family [1]
References
- Cockburn DW, Suh C, Medina KP, Duvall RM, Wawrzak Z, Henrissat B, and Koropatkin NM. (2018). Novel carbohydrate binding modules in the surface anchored α-amylase of Eubacterium rectale provide a molecular rationale for the range of starches used by this organism in the human gut. Mol Microbiol. 2018;107(2):249-264. DOI:10.1111/mmi.13881 |
- Ramsay AG, Scott KP, Martin JC, Rincon MT, and Flint HJ. (2006). Cell-associated alpha-amylases of butyrate-producing Firmicute bacteria from the human colon. Microbiology (Reading). 2006;152(Pt 11):3281-3290. DOI:10.1099/mic.0.29233-0 |