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 0.00000009726 Least Informative Direct
Biological Process (BP) positive regulation of biological process 0.000001713 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000007295 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00003152 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.005344 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.02456 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 0.8765 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1211 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.00144 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.00000000000001414 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.000000000001329 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.000000000001839 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.000000000005738 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.000000000007637 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.00000000001407 Moderately Informative Direct
Biological Process (BP) gene expression 0.0000000002159 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.000001852 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.000002462 Moderately Informative Direct
Biological Process (BP) carbohydrate metabolic process 0.000002895 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.000153 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.0001576 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.123 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.001669 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.4611 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.7814 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.5355 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.7132 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.4747 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.8227 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.001464 Moderately Informative Inherited
Biological Process (BP) growth 0 Informative Direct
Biological Process (BP) transcription, DNA-templated 0 Informative Direct
Biological Process (BP) cellular response to external stimulus 0.00000000000004385 Informative Direct
Biological Process (BP) regulation of growth 0.00000000000292 Informative Direct
Biological Process (BP) response to nutrient levels 0.00000000007727 Informative Direct
Biological Process (BP) carboxylic acid catabolic process 0.000000001345 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.000000002767 Informative Direct
Biological Process (BP) polysaccharide metabolic process 0.00000003681 Informative Direct
Biological Process (BP) secondary metabolic process 0.0000006734 Informative Direct
Biological Process (BP) carbohydrate catabolic process 0.000005891 Informative Direct
Biological Process (BP) cell wall organization or biogenesis 0.0000198 Informative Direct
Biological Process (BP) positive regulation of RNA metabolic process 0.00002746 Informative Direct
Biological Process (BP) cellular ketone metabolic process 0.00003031 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.00004559 Informative Direct
Biological Process (BP) alcohol metabolic process 0.0003238 Informative Direct
Biological Process (BP) cellular carbohydrate metabolic process 0.0003277 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of catabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.00503 Informative Inherited
Biological Process (BP) lipid catabolic process 0.01566 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.7964 Informative Inherited
Biological Process (BP) chromosome organization 0.05817 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.001943 Informative Inherited
Biological Process (BP) multi-organism cellular process 0 Highly Informative Direct
Biological Process (BP) response to drug 0.00000000001596 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 0.00000000002403 Highly Informative Direct
Biological Process (BP) polysaccharide catabolic process 0.0000000002482 Highly Informative Direct
Biological Process (BP) secondary metabolite biosynthetic process 0.000000004332 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 0.00000003102 Highly Informative Direct
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 0.00000005792 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 0.0000001078 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.0000006658 Highly Informative Direct
Biological Process (BP) pathogenesis 0.000004647 Highly Informative Direct
Biological Process (BP) positive regulation of growth 0.00003471 Highly Informative Direct
Biological Process (BP) ketone biosynthetic process 0.00005389 Highly Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 0.00008772 Highly Informative Direct
Biological Process (BP) regulation of alcohol biosynthetic process 0.0007264 Highly Informative Direct
Biological Process (BP) cell wall polysaccharide metabolic process 0.0008399 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-templated 0.02687 Highly Informative Inherited
Biological Process (BP) regulation of cellular amine metabolic process 0.001148 Highly Informative Inherited
Molecular Function (MF) binding 0.00097 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.0000002155 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0.00005197 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0002515 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 modificationRepressor0.000000000285Moderately 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 ]