SUPERFAMILY 1.75 HMM library and genome assignments server


Soluble quinoprotein glucose dehydrogenase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   6-bladed beta-propeller [ 50938] (11)
Superfamily:   Soluble quinoprotein glucose dehydrogenase [ 50952]
Families:   Soluble quinoprotein glucose dehydrogenase [ 50953]


Superfamily statistics
Genomes (1,460) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,756 12,903 1
Proteins 3,588 12,760 1


Functional annotation
General category Metabolism
Detailed category Other enzymes

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) cellular aromatic compound metabolic process 0.2861 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.4633 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.1088 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.2709 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1931 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.4611 Least Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.003338 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.003354 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.003273 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.001448 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.01013 Moderately Informative Inherited
Biological Process (BP) gene expression 0.01624 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.01059 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-dependent 5.065e-05 Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 6.285e-06 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.4507 Least Informative Inherited
Cellular Component (CC) protein complex 0.04898 Least Informative Inherited
Cellular Component (CC) nuclear part 0.07584 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.05846 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.0002824 Informative Direct

Document: GO annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)root system0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentSecreted5.156e-09Moderately InformativeDirect
Cellular componentCell junction1.328e-07Moderately InformativeDirect
Cellular componentSynapse1.239e-09InformativeDirect
Cellular componentSynaptosome3.119e-14Highly InformativeDirect
DomainSignal0.0002811Least InformativeDirect
DomainRepeat0.0005205Least InformativeDirect
DomainWD repeat4.461e-07InformativeDirect
DomainEGF-like domain5.907e-07InformativeDirect
Post-translational modificationGlycoprotein1.079e-08Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR011041 SSF50952 Protein matches
Abstract

Quinoproteins form a class of dehydrogenases distinct from the NAD(P)- and flavin-dependent enzymes, using one of four different quinone cofactors for the oxidation of a variety of compounds. Soluble glucose dehydrogenase (s-GDH) from the bacterium Acinetobacter calcoaceticus is a quinoprotein that requires the cofactor pyrroloquinoline quinone (PQQ) to catalyse the oxidation of glucose to gluconolactone [PubMed10518528]. s-GDH has six 4-stranded beta-sheets in a beta-propeller 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) · Arabidopsis Plant Ontology (AP) · 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 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 Soluble quinoprotein glucose dehydrogenase 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 Soluble quinoprotein glucose dehydrogenase 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) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]