SUPERFAMILY 1.75 HMM library and genome assignments server


Carbohydrate binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   WW domain-like [ 51044] (3)
Superfamily:   Carbohydrate binding domain [ 51055]
Families:   Carbohydrate binding domain [ 51056] (3)


Superfamily statistics
Genomes (536) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 1,634 4,474 9
Proteins 1,341 3,836 9


Functional annotation
General category Metabolism
Detailed category Polysaccharide metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) nitrogen compound metabolic process 4.269e-08 Least Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0 Moderately Informative Direct
Biological Process (BP) macromolecule catabolic process 0 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 4.755e-14 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0 Informative Direct
Biological Process (BP) aminoglycan catabolic process 0 Highly Informative Direct
Biological Process (BP) amino sugar metabolic process 0 Highly Informative Direct
Molecular Function (MF) hydrolase activity 4.246e-12 Least Informative Direct
Molecular Function (MF) hydrolase activity, acting on glycosyl bonds 2.024e-12 Informative Direct
Molecular Function (MF) hydrolase activity, hydrolyzing O-glycosyl compounds 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Glycosidases, i.e. enzymes hydrolyzing O- and S-gl0Moderately InformativeDirect
Enzyme Commission (EC)Chitinase7.64e-08Highly InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Glycosylases2.019e-11Moderately InformativeDirect
Enzyme Commission (EC)Chitinase6.845e-08Highly InformativeDirect
Enzyme Commission (EC)Cellulase0.0003915Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCarbohydrate metabolism0Moderately InformativeDirect
Biological processPolysaccharide degradation0InformativeDirect
DomainSignal5.246e-11Least InformativeDirect
Post-translational modificationHydrolase2.025e-11Least InformativeDirect
Post-translational modificationGlycosidase9.694e-12InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR003610 SSF51055 Protein matches
Abstract

The carbohydrate-binding domain (CBD) is a short domain found in many different glycosyl hydrolase enzymes, such as the C-terminal cellulose-binding domain of endoglucanase Z [PubMed9405041]. The domain has a core structure consisting of a 3-stranded meander beta-sheet, which contains six aromatic groups that may be important for binding.

The overall topology of the CBD is structurally similar to the C-terminal chitin-binding domains (ChBD) of chitinase A1 and chitinase B, however the binding mechanism for the ChBD may be different from that of the CBD [PubMed10788483].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 3 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Carbohydrate binding domain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 3 hidden Markov models representing the Carbohydrate binding domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]