SUPERFAMILY 1.75 HMM library and genome assignments server

Regulatory protein AraC superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Double-stranded beta-helix [ 51181] (7)
Superfamily:   Regulatory protein AraC [ 51215]
Families:   Regulatory protein AraC [ 51216]

Superfamily statistics
Genomes (1,310) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,880 37,359 4
Proteins 4,879 37,359 4

Functional annotation
General category Information
Detailed category Transcription

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) regulation of metabolic process 0.000003421 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.00008493 Least Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.0000001328 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.00001131 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.2402 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.1623 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0.00000002633 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0.00000001387 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Cellular componentCytoplasm0.000000003414Least InformativeDirect
DomainRepeat0Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR003313 SSF51215 Protein matches
Abstract This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [PubMed9103202].

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

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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 Regulatory protein AraC 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 Regulatory protein AraC 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) · UniProtKB KeyWords (KW) · Internal database links ]