SUPERFAMILY 1.75 HMM library and genome assignments server


Zn2/Cys6 DNA-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Zn2/Cys6 DNA-binding domain [ 57700]
Superfamily:   Zn2/Cys6 DNA-binding domain [ 57701]
Families:   Zn2/Cys6 DNA-binding domain [ 57702] (6)


Superfamily statistics
Genomes (234) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 23,627 37,897 12
Proteins 23,305 37,468 12


Functional annotation
General category Regulation
Detailed category DNA-binding

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) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 1.66e-07 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 1.683e-05 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 4.216e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.9624 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.0337 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.009093 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.002593 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1213 Least Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 1.979e-13 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 3.687e-13 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 1.755e-12 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 7.923e-12 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 1.217e-11 Moderately Informative Direct
Biological Process (BP) gene expression 6.765e-11 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 8.315e-11 Moderately Informative Direct
Biological Process (BP) multi-organism process 4.3e-09 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 7.841e-08 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 2.369e-07 Moderately Informative Direct
Biological Process (BP) carbohydrate metabolic process 2.486e-06 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.000134 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 0.004818 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.04189 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.4776 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.8017 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.6527 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.636 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.8183 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) growth 0 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) regulation of growth 6.072e-12 Informative Direct
Biological Process (BP) response to nutrient levels 4.93e-11 Informative Direct
Biological Process (BP) carboxylic acid catabolic process 4.34e-10 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 2.074e-09 Informative Direct
Biological Process (BP) polysaccharide metabolic process 4.453e-08 Informative Direct
Biological Process (BP) cell wall organization or biogenesis 9.845e-07 Informative Direct
Biological Process (BP) carbohydrate catabolic process 6.013e-06 Informative Direct
Biological Process (BP) secondary metabolic process 8.985e-06 Informative Direct
Biological Process (BP) positive regulation of gene expression 3.638e-05 Informative Direct
Biological Process (BP) cellular ketone metabolic process 0.0001692 Informative Direct
Biological Process (BP) cellular carbohydrate metabolic process 0.0003735 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.001338 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.008922 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.001879 Informative Inherited
Biological Process (BP) lipid catabolic process 0.01939 Informative Inherited
Biological Process (BP) chromosome organization 0.05783 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.7888 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) multi-organism cellular process 0 Highly Informative Direct
Biological Process (BP) response to drug 2.686e-11 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 7.202e-11 Highly Informative Direct
Biological Process (BP) polysaccharide catabolic process 2.799e-10 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 2.952e-09 Highly Informative Direct
Biological Process (BP) secondary metabolite biosynthetic process 2.285e-08 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 1.049e-07 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 1.451e-06 Highly Informative Direct
Biological Process (BP) positive regulation of growth 2.266e-05 Highly Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 8.76e-05 Highly Informative Direct
Biological Process (BP) pathogenesis 9.057e-05 Highly Informative Direct
Biological Process (BP) cellular carbohydrate catabolic process 0.0002784 Highly Informative Direct
Biological Process (BP) cell wall polysaccharide metabolic process 0.0008385 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.01645 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.03724 Highly Informative Inherited
Biological Process (BP) regulation of cellular amine metabolic process 0.001477 Highly Informative Inherited
Molecular Function (MF) binding 0.0007469 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 1.022e-05 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0004377 Least 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
Biological processGluconeogenesis0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor2.85e-10Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001138 SSF57701 Protein matches
Abstract

The N-terminal region of a number of fungal transcriptional regulatory proteins contains a Cys-rich motif that is involved in zinc-dependent binding of DNA. The region forms a binuclear Zn cluster, in which two Zn atoms are bound by six Cys residues [PubMed2107541, PubMed1557122]. A wide range of proteins are known to contain this domain. These include the proteins involved in arginine, proline, pyrimidine, quinate, maltose and galactose metabolism; amide and GABA catabolism; leucine biosynthesis and others.


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) · 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 7 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 Zn2/Cys6 DNA-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 7 hidden Markov models representing the Zn2/Cys6 DNA-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) · UniProtKB KeyWords (KW) · Internal database links ]