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Difference between revisions of "Carbohydrate Binding Module Family 83"
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| − | * [[Author]]: | + | * [[Author]]: [[User:Darrell Cockburn|Darrell Cockburn]] |
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== Ligand specificities == | == Ligand specificities == | ||
| − | + | [[File:Amy13K_CBM83_highlight.jpg|thumb|600px|right|'''Figure 1. Domain architecture of ''E. rectale'' Amy13K''' The CBM and GH families are indicated. The 'S' is the signal sequence and the 'anchor' is a cell wall anchoring motif. The CBM83 domain is bolded. The 'unknown' domain has no known function, however, its deletion eliminates all activity of the enzyme <cite>Cockburn2018</cite>]] | |
| + | The founding member and first to be characterized of this family is the fifth CBM found in the cell-wall anchored [[GH13]] enzyme Amy13K from ''Eubacterium rectale'' (Fig1). 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>. | <cite>Cockburn2018</cite>. | ||
== Structural Features == | == Structural Features == | ||
| − | + | Secondary structure analysis and alignments suggest they are likely to be beta-sandwich type folds similar to the [[CBM41]] family <cite>Cockburn2018</cite>. | |
== 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> | + | This family has been found to be exclusively associated with [[GH13]] family amylases from a quite narrow taxonomic range within ''Roseburia'' and ''Eubacterium rectale'' <cite>Cockburn2018</cite>. 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> |
== Family Firsts == | == Family Firsts == | ||
| − | ;First Identified | + | ;First Identified: In ''Roseburia inulinivorans'' as a predicted CBM <cite>Ramsay2006</cite> |
| − | In ''Roseburia inulinivorans'' as a predicted CBM <cite>Ramsay2006 | ||
| − | |||
| − | |||
| − | |||
| + | ;First Characterized: From ''E. rectale'' Amy13K, establishing the family <cite>Cockburn2018</cite> | ||
== References == | == References == | ||
Latest revision as of 13:20, 18 December 2021
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| CAZy DB link | |
| https://www.cazy.org/CBM83.html |
Ligand specificities
The founding member and first to be characterized of this family is the fifth CBM found in the cell-wall anchored GH13 enzyme Amy13K from Eubacterium rectale (Fig1). 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
Secondary structure analysis and alignments suggest they are likely to be beta-sandwich type folds similar to the CBM41 family [1].
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 [1]. 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 |