CBM_3Cellulose binding domain
|SMART accession number:||SM01067|
|Interpro abstract (IPR001956):|
This domain is involved in cellulose binding [(PUBMED:1490597)] and is found associated with a wide range of bacterial glycosyl hydrolases. The structure for this domain is known [(PUBMED:8918451)]; it forms a beta sandwich.
|GO process:||carbohydrate metabolic process (GO:0005975)|
|GO function:||cellulose binding (GO:0030248)|
Click on the following links for more information.
- Evolution (species in which this domain is found)
Taxonomic distribution of proteins containing CBM_3 domain.
This tree includes only several representative species. The complete taxonomic breakdown of all proteins with CBM_3 domain is also avaliable.
Click on the protein counts, or double click on taxonomic names to display all proteins containing CBM_3 domain in the selected taxonomic class.
- Cellular role (predicted cellular role)
Cellular role: metabolism
Binding / catalysis: Cellulose binding
- Literature (relevant references for this domain)
Primary literature is listed below; Automatically-derived, secondary literature is also avaliable.
- Tormo J et al.
- Crystal structure of a bacterial family-III cellulose-binding domain: ageneral mechanism for attachment to cellulose.
- EMBO J. 1996; 15: 5739-51
- Display abstract
The crystal structure of a family-III cellulose-binding domain (CBD) fromthe cellulosomal scaffoldin subunit of Clostridium thermocellum has beendetermined at 1.75 A resolution. The protein forms a nine-stranded betasandwich with a jelly roll topology and binds a calcium ion. conserved,surface-exposed residues map into two defined surfaces located on oppositesides of the molecule. One of these faces is dominated by a planar linearstrip of aromatic and polar residues which are proposed to interact withcrystalline cellulose. The other conserved residues are contained in ashallow groove, the function of which is currently unknown, and which hasnot been observed previously in other families of CBDs. On the basis ofmodeling studies combined with comparisons of recently determined NMRstructures for other CBDs, a general model for the binding of CBDs tocellulose is presented. Although the proposed binding of the CBD tocellulose is essentially a surface interaction, specific types andcombinations of amino acids appear to interact selectively with glucosemoieties positioned on three adjacent chains of the cellulose surface. Themajor interaction is characterized by the planar strip of aromaticresidues, which align along one of the chains. In addition, polar aminoacid residues are proposed to anchor the CBD molecule to two otheradjacent chains of crystalline cellulose.
- Poole DM, Morag E, Lamed R, Bayer EA, Hazlewood GP, Gilbert HJ
- Identification of the cellulose-binding domain of the cellulosome subunitS1 from Clostridium thermocellum YS.
- FEMS Microbiol Lett. 1992; 78: 181-6
- Display abstract
The 3' region of a gene designated cipB, which shows strong homology withcipA that encodes the cellulosome SL subunit of Clostridium thermocellumATCC 27405, was isolated from a gene library of C. thermocellum strain YS.The truncated S1 protein encoded by the cipB derivative bound tightly tocellulose. The cellulose-binding domain in this polypeptide consisted of aC-terminal proximal 167 residue sequence which showed complete identitywith residues 337-503 of mature SL from C. thermocellum strain ATCC 27405.The cellulose-binding domain interacted with both crystalline andamorphous cellulose, but not with xylan.
- Structure (3D structures containing this domain)
3D Structures of CBM_3 domains in PDB
PDB code Main view Title 1g43 CRYSTAL STRUCTURE OF A FAMILY IIIA CBD FROM CLOSTRIDIUM CELLULOLYTICUM 1g87 THE CRYSTAL STRUCTURE OF ENDOGLUCANASE 9G FROM CLOSTRIDIUM CELLULOLYTICUM 1ga2 THE CRYSTAL STRUCTURE OF ENDOGLUCANASE 9G FROM CLOSTRIDIUM CELLULOLYTICUM COMPLEXED WITH CELLOBIOSE 1js4 ENDO/EXOCELLULASE:CELLOBIOSE FROM THERMOMONOSPORA 1k72 The X-ray Crystal Structure Of Cel9G Complexed With cellotriose 1kfg The X-ray Crystal Structure of Cel9G from Clostridium cellulolyticum complexed with a Thio-Oligosaccharide Inhibitor 1nbc BACTERIAL TYPE 3A CELLULOSE-BINDING DOMAIN 1tf4 ENDO/EXOCELLULASE FROM THERMOMONOSPORA 2l8a Structure of a novel CBM3 lacking the calcium-binding site 2wnx 3b' carbohydrate-binding module from the Cel9V glycoside hydrolase from Clostridium thermocellum 2wo4 3b' carbohydrate-binding module from the Cel9V glycoside hydrolase from Clostridium thermocellum, in-house data 2wob 3b' carbohydrate-binding module from the Cel9V glycoside hydrolase from Clostridium thermocellum. Orthorhombic structure 2xbt Structure of a scaffoldin carbohydrate-binding module family 3b from the cellulosome of Bacteroides cellulosolvens: Structural diversity and implications for carbohydrate binding 2xfg Reassembly and co-crystallization of a family 9 processive endoglucanase from separately expressed GH9 and CBM3c modules 2ylk Carbohydrate-binding module CBM3b from the cellulosomal cellobiohydrolase 9A from Clostridium thermocellum 3tf4 ENDO/EXOCELLULASE:CELLOTRIOSE FROM THERMOMONOSPORA 3zqw Structure of CBM3b of major scaffoldin subunit ScaA from Acetivibrio cellulolyticus 3zqx Carbohydrate-binding module CBM3b from the cellulosomal cellobiohydrolase 9A from Clostridium thermocellum 3zu8 STRUCTURE OF CBM3B OF MAJOR SCAFFOLDIN SUBUNIT SCAA FROM ACETIVIBRIO CELLULOLYTICUS DETERMINED ON THE NIKEL ABSORPTION EDGE 3zuc Structure of CBM3b of major scaffoldin subunit ScaA from Acetivibrio cellulolyticus determined from the crystals grown in the presence of Nickel 4b96 Family 3b carbohydrate-binding module from the biomass sensoring system of Clostridium clariflavum 4b97 Biomass sensing modules from putative Rsgi-like proteins of Clostridium thermocellum resemble family 3 carbohydrate-binding module of cellulosome 4b9c Biomass sensoring modules from putative Rsgi-like proteins of Clostridium thermocellum resemble family 3 carbohydrate-binding module of cellulosome 4b9f High resolution structure for family 3a carbohydrate binding module from the cipA scaffolding of clostridium thermocellum 4b9p Biomass sensoring module from putative Rsgi2 protein of Clostridium thermocellum resemble family 3 carbohydrate-binding module of cellulosome 4c8x Crystal structure of carbohydrate-binding module CBM3b mutant (Y56S) from the cellulosomal cellobiohydrolase 9A from Clostridium thermocellum 4jo5 CBM3a-L domain with flanking linkers from scaffoldin cipA of cellulosome of Clostridium thermocellum 4tf4 ENDO/EXOCELLULASE:CELLOPENTAOSE FROM THERMOMONOSPORA
- Links (links to other resources describing this domain)
PFAM CBM_3 INTERPRO IPR001956