SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.


Carbohydrate-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Common fold of diphtheria toxin/transcription factors/cytochrome f [ 49379] (10)
Superfamily:   Carbohydrate-binding domain [ 49384] (3)
Families:   Cellulose-binding domain family II [ 49385] (2)
  Cellulose-binding domain family III [ 49390] (8)
  Bacterial chitobiase, n-terminal domain [ 49398]


Superfamily statistics
Genomes (623) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,456 7,460 26
Proteins 2,139 6,720 26


Functional annotation
General category Metabolism
Detailed category Carbohydrate 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)
Molecular Function (MF) binding 0.1064 Least Informative Inherited
Molecular Function (MF) hydrolase activity 0.02873 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on glycosyl bonds 0.0000001225 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)Cellulase0Highly InformativeDirect
Enzyme Commission (EC)Cellulose 1,4-beta-cellobiosidase (non-reducing en0.0003288Highly 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)Glycosylases0Moderately InformativeDirect
Enzyme Commission (EC)Cellulase0Highly 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
Biological processCellulose degradation0.0000000000001354Highly InformativeDirect
Cellular componentSecreted0.0000000001057Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationGlycosidase0InformativeDirect
Post-translational modificationDisulfide bond0.000001226Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR008965 SSF49384 Protein matches
Abstract

This carbohydrate-binding domain is found in a number of proteins, for example the N-terminal domain of the chitobiase/beta-hexosaminidase family of glycoside hydrolases, the carbohydrate-binding domain of bacterial cellulases and xylanases, and the cellulose-binding domain of bacterial proteins such as scafoldin, cellobiose and cohesin. The carbohydrate-binding domain consists of a beta-sandwich formed of 9 strands in 2 sheets with a Greek-key topology and is a sub-class of the immunoglobin-like fold [PubMed8918451].


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 16 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 16 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 ]