SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 (235) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 23,677 90,107 12
Proteins 23,353 89,047 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) biological regulation 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.06574 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.9726 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.02663 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.8875 Least Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.00000000000001079 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.0000000000001541 Moderately Informative Direct
Biological Process (BP) carbohydrate metabolic process 0.00000000001024 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.0000000002812 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.000000001344 Moderately Informative Direct
Biological Process (BP) response to biotic stimulus 0.00000002861 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.00001962 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0002639 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.000737 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.001096 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.1106 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.001117 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.6317 Moderately Informative Inherited
Biological Process (BP) cell communication 0.862 Moderately Informative Inherited
Biological Process (BP) growth 0 Informative Direct
Biological Process (BP) response to extracellular stimulus 0.0000000009244 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.000000001841 Informative Direct
Biological Process (BP) regulation of growth 0.000000003602 Informative Direct
Biological Process (BP) polysaccharide metabolic process 0.00000001119 Informative Direct
Biological Process (BP) carboxylic acid catabolic process 0.000002764 Informative Direct
Biological Process (BP) carbohydrate catabolic process 0.000007941 Informative Direct
Biological Process (BP) interspecies interaction between organisms 0.0001091 Informative Direct
Biological Process (BP) secondary metabolic process 0.000404 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0004567 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0004698 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.001113 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.001103 Informative Inherited
Biological Process (BP) chromosome organization 0.1815 Informative Inherited
Biological Process (BP) multi-organism cellular process 0.000000000000003734 Highly Informative Direct
Biological Process (BP) response to nutrient levels 0.0000000001115 Highly Informative Direct
Biological Process (BP) cellular response to extracellular stimulus 0.0000000004888 Highly Informative Direct
Biological Process (BP) cell wall macromolecule metabolic process 0.0000000008143 Highly Informative Direct
Biological Process (BP) polysaccharide catabolic process 0.00000001657 Highly Informative Direct
Biological Process (BP) response to drug 0.0000002384 Highly Informative Direct
Biological Process (BP) secondary metabolite biosynthetic process 0.000004658 Highly Informative Direct
Biological Process (BP) positive regulation of cell adhesion 0.0001722 Highly Informative Direct
Biological Process (BP) positive regulation of growth 0.008568 Highly Informative Inherited
Biological Process (BP) negative regulation of growth 0.009475 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.06046 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.001835 Highly Informative Inherited
Biological Process (BP) regulation of carbohydrate biosynthetic process 0.04141 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription from RNA polymerase II promoter 0.6927 Highly Informative Inherited
Molecular Function (MF) binding 0.002481 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) transcription factor activity, sequence-specific DNA binding 0 Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) double-stranded DNA binding 0.000001322 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.000006029 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.00003033 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.000002913 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 1 Moderately Informative Inherited
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.002442 Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.0005647 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
Biological processVirulence0.00006883Moderately InformativeDirect
Biological processGluconeogenesis0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationRepressor0.0000003106Moderately 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 ]