CAZypedia needs your help!
We have many unassigned pages in need of Authors and Responsible Curators. See a page that's out-of-date and just needs a touch-up? - You are also welcome to become a CAZypedian. Here's how.
Scientists at all career stages, including students, are welcome to contribute.
Learn more about CAZypedia's misson here and in this article.
Totally new to the CAZy classification? Read this first.

Difference between revisions of "Carbohydrate Binding Module Family 8"

From CAZypedia
Jump to navigation Jump to search
Line 18: Line 18:
  
 
== Ligand specificities ==
 
== Ligand specificities ==
DdCBM8, from the slime mold ''Dictyostelium discoideum''  CelA enzyme (270-6) binds insoluble forms of cellulose and glucomannan, there is no evidence for binding to oligosaccharides <cite>Liberato2022</cite>. It appears to be broadly specific with both [[Carbohydrate-binding_modules#Types|type A]] and [[Carbohydrate-binding_modules#Types|type B]] CBM characteristics. The CelB protein (270-11) does not have cellulase activity but does show cellulose binding <cite>Ramalingam1992</cite>.
+
DdCBM8, from the slime mold ''Dictyostelium discoideum''  CelA enzyme (270-6) binds insoluble forms of cellulose and glucomannan, there is no evidence for binding to oligosaccharides <cite>Liberato2022</cite>. It appears to be broadly specific with both [[Carbohydrate-binding_modules#Types|type A]] and [[Carbohydrate-binding_modules#Types|type B]] CBM characteristics.  
  
  
Line 39: Line 39:
 
== Functionalities ==  
 
== Functionalities ==  
  
CelA and CelB are predicted to be important for amoebae release from spores as transcriptomic experiments show that their mRNA levels are low in dormant spores, they rise during germination and then rapidly disappear after germination <cite>Ramalingam1992</cite>. Cellulase activities from differently sized cellulases is also shown to increase during spore germination <cite>Blume1991</cite>
+
CelA and CelB from ''Dictyostelium discoideum'' are predicted to be important for amoebae release from spores as transcriptomic experiments show that their mRNA levels are low in dormant spores, they rise during germination and then rapidly disappear after germination <cite>Ramalingam1992</cite>. Cellulase activities from differently sized cellulases are also shown to increase during spore germination <cite>Blume1991</cite>
 +
 
  
  
DdCBM8 from the endo-β-1,4-glucanase (CelA) of Dictyostelium discoideum
 
  
  
Line 52: Line 52:
 
== Family Firsts ==
 
== Family Firsts ==
 
;First Identified
 
;First Identified
:Insert archetype here, possibly including ''very brief'' synopsis.
+
:It is a little unclear where the first identification of binding to cellulose was determined from the literature. A mention of the possibility was found in <cite>Blume1991</cite>, another mention was found in <cite>Tomme1998</cite>
 
;First Structural Characterization
 
;First Structural Characterization
 
:The first crystal structures are from DdCBM8, from the slime mold ''Dictyostelium discoideum'' <cite>Liberato2022</cite>, see [{{PDBlink}}7T7Y 7T7Y]  and [{{PDBlink}}7T7Z 7T7Z].
 
:The first crystal structures are from DdCBM8, from the slime mold ''Dictyostelium discoideum'' <cite>Liberato2022</cite>, see [{{PDBlink}}7T7Y 7T7Y]  and [{{PDBlink}}7T7Z 7T7Z].
Line 58: Line 58:
 
== References ==
 
== References ==
 
<biblio>
 
<biblio>
 
+
#Tomme1998 pmid=9792516
 
#Blume1991 pmid=1869562  
 
#Blume1991 pmid=1869562  
 
#Ramalingam1992 pmid=1447151
 
#Ramalingam1992 pmid=1447151
 
#Liberato2022 pmid=35378128
 
#Liberato2022 pmid=35378128
 +
  
  

Revision as of 04:35, 30 April 2024

Under construction icon-blue-48px.png

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.


CAZy DB link
http://www.cazy.org/CBM08.html

Ligand specificities

DdCBM8, from the slime mold Dictyostelium discoideum CelA enzyme (270-6) binds insoluble forms of cellulose and glucomannan, there is no evidence for binding to oligosaccharides [1]. It appears to be broadly specific with both type A and type B CBM characteristics.


Structural Features

DdCBM8 is found C-terminal to the GH9 endo-(1,4)-beta-D-glucanase (cellulase) catalytic module of the CelA enzyme (270–6) and connected via a Thr-Glu-Thr-Pro type repeat linker [2].




Content in this section should include, in paragraph form, a description of:

  • Fold: Structural fold (beta trefoil, beta sandwich, etc.)
  • Type: Include here Type A, B, or C and properties
  • Features of ligand binding: Describe CBM binding pocket location (Side or apex) important residues for binding (W, Y, F, subsites), interact with reducing end, non-reducing end, planar surface or within polysaccharide chains. Include examples pdb codes. Metal ion dependent. Etc.

Functionalities

CelA and CelB from Dictyostelium discoideum are predicted to be important for amoebae release from spores as transcriptomic experiments show that their mRNA levels are low in dormant spores, they rise during germination and then rapidly disappear after germination [2]. Cellulase activities from differently sized cellulases are also shown to increase during spore germination [3]



Content in this section should include, in paragraph form, a description of:

  • Functional role of CBM: Describe common functional roles such as targeting, disruptive, anchoring, proximity/position on substrate.
  • Most Common Associated Modules: 1. Glycoside Hydrolase Activity; 2. Additional Associated Modules (other CBM, FNIII, cohesin, dockerins, expansins, etc.)
  • Novel Applications: Include here if CBM has been used to modify another enzyme, or if a CBM was used to label plant/mammalian tissues? Etc.

Family Firsts

First Identified
It is a little unclear where the first identification of binding to cellulose was determined from the literature. A mention of the possibility was found in [3], another mention was found in [4]
First Structural Characterization
The first crystal structures are from DdCBM8, from the slime mold Dictyostelium discoideum [1], see 7T7Y and 7T7Z.

References

  1. Liberato MV, Campos BM, Tomazetto G, Crouch LI, Garcia W, Zeri ACM, Bolam DN, and Squina FM. (2022). Unique properties of a Dictyostelium discoideum carbohydrate-binding module expand our understanding of CBM-ligand interactions. J Biol Chem. 2022;298(5):101891. DOI:10.1016/j.jbc.2022.101891 | PubMed ID:35378128 [Liberato2022]
  2. Ramalingam R, Blume JE, and Ennis HL. (1992). The Dictyostelium discoideum spore germination-specific cellulase is organized into functional domains. J Bacteriol. 1992;174(23):7834-7. DOI:10.1128/jb.174.23.7834-7837.1992 | PubMed ID:1447151 [Ramalingam1992]
  3. Blume JE and Ennis HL. (1991). A Dictyostelium discoideum cellulase is a member of a spore germination-specific gene family. J Biol Chem. 1991;266(23):15432-7. | Google Books | Open Library PubMed ID:1869562 [Blume1991]
  4. Tomme P, Boraston A, McLean B, Kormos J, Creagh AL, Sturch K, Gilkes NR, Haynes CA, Warren RA, and Kilburn DG. (1998). Characterization and affinity applications of cellulose-binding domains. J Chromatogr B Biomed Sci Appl. 1998;715(1):283-96. DOI:10.1016/s0378-4347(98)00053-x | PubMed ID:9792516 [Tomme1998]

All Medline abstracts: PubMed