SUPERFAMILY 1.75 HMM library and genome assignments server


Galactose oxidase, central domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   7-bladed beta-propeller [ 50964] (14)
Superfamily:   Galactose oxidase, central domain [ 50965]
Families:   Galactose oxidase, central domain [ 50966]


Superfamily statistics
Genomes (691) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 6,207 11,992 6
Proteins 5,844 11,651 6


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)
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.2988 Least Informative Inherited
Biological Process (BP) developmental process 0.8865 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.6014 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.8368 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.8057 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.9493 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular protein modification process 0.4595 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.02274 Moderately Informative Inherited
Biological Process (BP) system process 0.001608 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.3728 Moderately Informative Inherited
Biological Process (BP) organ development 0.2528 Moderately Informative Inherited
Biological Process (BP) immune system process 0.07518 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.6017 Moderately Informative Inherited
Biological Process (BP) cell activation 2.094e-05 Informative Direct
Biological Process (BP) cell-cell signaling 9.218e-05 Informative Direct
Biological Process (BP) transmission of nerve impulse 3.05e-07 Informative Direct
Biological Process (BP) growth 6.49e-06 Informative Direct
Biological Process (BP) hematopoietic or lymphoid organ development 4.87e-05 Informative Direct
Biological Process (BP) DNA metabolic process 0.008144 Informative Inherited
Biological Process (BP) DNA recombination 6.627e-08 Highly Informative Direct
Biological Process (BP) cell growth 7.311e-12 Highly Informative Direct
Biological Process (BP) protein ubiquitination 4.066e-05 Highly Informative Direct
Biological Process (BP) T cell differentiation 9.99e-10 Highly Informative Direct
Biological Process (BP) B cell activation 4.693e-11 Highly Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) anion binding 0.1122 Moderately Informative Inherited
Molecular Function (MF) cation binding 0.05915 Moderately Informative Inherited
Molecular Function (MF) lipid binding 0.0009749 Informative Direct
Molecular Function (MF) transition metal ion binding 0.003772 Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0.02661 Informative Inherited
Molecular Function (MF) phosphatidylinositol binding 2.085e-06 Highly Informative Direct
Cellular Component (CC) protein complex 0.8543 Least Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 2.82e-08 Informative Direct
Cellular Component (CC) cullin-RING ubiquitin ligase complex 2.378e-09 Highly Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acyltransferases3.144e-11Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups2.013e-08Moderately InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processUbl conjugation pathway0InformativeDirect
Biological processDNA recombination0.0001556InformativeDirect
Cellular componentNucleus0.000511Least InformativeDirect
DomainRepeat0Least InformativeDirect
DomainKelch repeat0Highly InformativeDirect
Molecular functionActin-binding0InformativeDirect
Post-translational modificationChromatin regulator4.829e-08InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR011043 SSF50965 Protein matches
Abstract

This entry represents a beta-propeller domain found in galactose oxidase and in Kelch repeat-containing proteins.

The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila [PubMed7593276]. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase [PubMed8126718].

Galactose oxidase is a monomeric enzyme that contains a single copper ion and catalyses the stereospecific oxidation of primary alcohols to their corresponding aldehyde [PubMed11698678]. The protein contains an unusual covalent thioether bond between a tyrosine and a cysteine that forms during its maturation [PubMed12418174]. Galactose oxidase is a three-domain protein: the N-terminal domain forms a jelly-roll sandwich, the central domain forms a seven 4-bladed beta-propeller, and the C-terminal domain has an immunoglobulin-like fold.


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) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 1 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 Galactose oxidase, central 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 1 hidden Markov models representing the Galactose oxidase, central 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) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]