The name of this superfamily has been modified since the most recent official CATH+ release (v4_3_0). At the point of the last release, this superfamily was named:

"
Classic Zinc Finger
".

Functional Families

Overview of the Structural Clusters (SC) and Functional Families within this CATH Superfamily. Clusters with a representative structure are represented by a filled circle.
« Back to all FunFams

FunFam 283: Putative transcriptional repressor ctcf

Please note: GO annotations are assigned to the full protein sequence rather than individual protein domains. Since a given protein can contain multiple domains, it is possible that some of the annotations below come from additional domains that occur in the same protein, but have been classified elsewhere in CATH.

There are 22 GO terms relating to "molecular function"

The search results have been sorted with the annotations that are found most frequently at the top of the list. The results can be filtered by typing text into the search box at the top of the table.
GO Term Annotations Evidence
Protein binding GO:0005515
Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
7 P49711 (/IPI) P49711 (/IPI) P49711 (/IPI) P49711 (/IPI) P49711 (/IPI) Q08705 (/IPI) Q61164 (/IPI)
Sequence-specific DNA binding GO:0043565
Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
6 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) Q61164 (/IDA)
RNA polymerase II proximal promoter sequence-specific DNA binding GO:0000978
Interacting selectively and non-covalently with a specific upstream regulatory DNA sequence (transcription factor recognition sequence or binding site) located in the proximal promoter of a gene transcribed by RNA polymerase II. The proximal promoter is in cis with and relatively close to the core promoter.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
DNA-binding transcription factor activity, RNA polymerase II-specific GO:0000981
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a RNA polymerase II-transcribed gene to modulate transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units.
5 P49711 (/ISA) P49711 (/ISA) P49711 (/ISA) P49711 (/ISA) P49711 (/ISA)
DNA-binding transcription factor activity, RNA polymerase II-specific GO:0000981
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a RNA polymerase II-transcribed gene to modulate transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units.
5 P49711 (/NAS) P49711 (/NAS) P49711 (/NAS) P49711 (/NAS) P49711 (/NAS)
DNA-binding transcription repressor activity, RNA polymerase II-specific GO:0001227
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a RNA polymerase II-transcribed gene to repress or decrease transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
DNA-binding transcription factor activity GO:0003700
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Transcription corepressor activity GO:0003714
A protein or a member of a complex that interacts specifically and non-covalently with a DNA-bound DNA-binding transcription factor to repress the transcription of specific genes. Corepressors often act by altering chromatin structure and modifications. For example, one class of transcription coregulators modifies chromatin structure through covalent modification of histones. A second ATP-dependent class modifies the conformation of chromatin. A third class occludes DNA-binding transcription factor protein-protein interaction domains. A fourth class of corepressors prevents interactions of DNA bound DNA-binding transcription factor with coactivators.
5 P49711 (/TAS) P49711 (/TAS) P49711 (/TAS) P49711 (/TAS) P49711 (/TAS)
Zinc ion binding GO:0008270
Interacting selectively and non-covalently with zinc (Zn) ions.
5 P49711 (/TAS) P49711 (/TAS) P49711 (/TAS) P49711 (/TAS) P49711 (/TAS)
Chromatin insulator sequence binding GO:0043035
Interacting selectively and non-covalently and stoichiometrically with a chromatin insulator sequence, a DNA sequence that prevents enhancer-mediated activation or repression of transcription.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Transcription regulatory region DNA binding GO:0044212
Interacting selectively and non-covalently with a DNA region that regulates the transcription of a region of DNA, which may be a gene, cistron, or operon. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Chromatin binding GO:0003682
Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
4 A0A2R8Q542 (/IDA) A0A2R8QUZ1 (/IDA) Q61164 (/IDA) Q6JAA4 (/IDA)
RNA polymerase II proximal promoter sequence-specific DNA binding GO:0000978
Interacting selectively and non-covalently with a specific upstream regulatory DNA sequence (transcription factor recognition sequence or binding site) located in the proximal promoter of a gene transcribed by RNA polymerase II. The proximal promoter is in cis with and relatively close to the core promoter.
1 Q61164 (/ISO)
DNA-binding transcription repressor activity, RNA polymerase II-specific GO:0001227
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a RNA polymerase II-transcribed gene to repress or decrease transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units.
1 Q61164 (/ISO)
DNA-binding transcription activator activity, RNA polymerase II-specific GO:0001228
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a RNA polymerase II-transcribed gene to activate or increase transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units.
1 Q61164 (/IDA)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
1 Q61164 (/IDA)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
1 Q9R1D1 (/TAS)
DNA-binding transcription factor activity GO:0003700
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.
1 Q61164 (/ISO)
DNA-binding transcription factor activity GO:0003700
A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.
1 Q9R1D1 (/TAS)
Chromatin insulator sequence binding GO:0043035
Interacting selectively and non-covalently and stoichiometrically with a chromatin insulator sequence, a DNA sequence that prevents enhancer-mediated activation or repression of transcription.
1 Q61164 (/ISO)
Sequence-specific DNA binding GO:0043565
Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
1 Q61164 (/ISO)
Transcription regulatory region DNA binding GO:0044212
Interacting selectively and non-covalently with a DNA region that regulates the transcription of a region of DNA, which may be a gene, cistron, or operon. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.
1 Q61164 (/ISO)

There are 37 GO terms relating to "biological process"

The search results have been sorted with the annotations that are found most frequently at the top of the list. The results can be filtered by typing text into the search box at the top of the table.
GO Term Annotations Evidence
Positive regulation of gene expression GO:0010628
Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
6 P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) Q61164 (/IMP)
Negative regulation of transcription by RNA polymerase II GO:0000122
Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Negative regulation of cell population proliferation GO:0008285
Any process that stops, prevents or reduces the rate or extent of cell proliferation.
5 P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP)
Nucleosome positioning GO:0016584
Ordering of successions of nucleosomes into regular arrays so that nucleosomes are positioned at defined distances from one another.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Regulation of gene expression, epigenetic GO:0040029
Any process that modulates the frequency, rate or extent of gene expression; the process is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence.
5 P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP)
Regulation of molecular function, epigenetic GO:0040030
Any heritable epigenetic process that modulates the frequency, rate or extent of protein function by self-perpetuating conformational conversions of normal proteins in healthy cells. This is distinct from, though mechanistically analogous to, disease states associated with prion propagation and amyloidogenesis. A single protein, if it carries a glutamine/asparagine-rich ('prion') domain, can sometimes stably exist in at least two distinct physical states, each associated with a different phenotype; propagation of one of these traits is achieved by a self-perpetuating change in the protein from one form to the other, mediated by conformational changes in the glutamine/asparagine-rich domain. Prion domains are both modular and transferable to other proteins, on which they can confer a heritable epigenetic alteration of function; existing bioinformatics data indicate that they are rare in non-eukarya, but common in eukarya.
5 P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP)
Negative regulation of transcription, DNA-templated GO:0045892
Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Positive regulation of transcription, DNA-templated GO:0045893
Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Positive regulation of transcription, DNA-templated GO:0045893
Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
5 P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP)
Regulation of centromeric sister chromatid cohesion GO:0070602
Any process that modulates the frequency, rate or extent of sister chromatid cohesion in the centromeric region of a chromosome.
5 P49711 (/NAS) P49711 (/NAS) P49711 (/NAS) P49711 (/NAS) P49711 (/NAS)
Protein localization to chromosome, centromeric region GO:0071459
Any process in which a protein is transported to, or maintained at, the centromeric region of a chromosome.
5 P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP) P49711 (/IMP)
Regulation of transcription by RNA polymerase II GO:0006357
Any process that modulates the frequency, rate or extent of transcription mediated by RNA polymerase II.
3 A0A2R8Q542 (/IMP) A0A2R8QUZ1 (/IMP) Q6JAA4 (/IMP)
Regulation of gene expression GO:0010468
Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
3 A0A2R8Q542 (/IDA) A0A2R8QUZ1 (/IDA) Q6JAA4 (/IDA)
Negative regulation of cell population proliferation GO:0008285
Any process that stops, prevents or reduces the rate or extent of cell proliferation.
2 Q61164 (/ISS) Q9R1D1 (/ISS)
Protein localization to chromosome, centromeric region GO:0071459
Any process in which a protein is transported to, or maintained at, the centromeric region of a chromosome.
2 Q61164 (/ISS) Q9R1D1 (/ISS)
Negative regulation of transcription by RNA polymerase II GO:0000122
Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II.
1 Q61164 (/IMP)
Negative regulation of transcription by RNA polymerase II GO:0000122
Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II.
1 Q61164 (/ISO)
DNA methylation GO:0006306
The covalent transfer of a methyl group to either N-6 of adenine or C-5 or N-4 of cytosine.
1 Q61164 (/IDA)
DNA methylation GO:0006306
The covalent transfer of a methyl group to either N-6 of adenine or C-5 or N-4 of cytosine.
1 Q61164 (/IMP)
Regulation of gene expression by genetic imprinting GO:0006349
Heritable alterations in the activity of a gene that depend on whether it passed through the paternal or the maternal germline, but that are not encoded by DNA itself.
1 Q61164 (/IDA)
Regulation of gene expression by genetic imprinting GO:0006349
Heritable alterations in the activity of a gene that depend on whether it passed through the paternal or the maternal germline, but that are not encoded by DNA itself.
1 Q61164 (/IMP)
Regulation of transcription, DNA-templated GO:0006355
Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
1 Q61164 (/IDA)
Negative regulation of cell population proliferation GO:0008285
Any process that stops, prevents or reduces the rate or extent of cell proliferation.
1 Q61164 (/ISO)
Dosage compensation by inactivation of X chromosome GO:0009048
Compensating for the two-fold variation in X-chromosome:autosome ratios between sexes by a global inactivation of all, or most of, the genes on one of the X-chromosomes in the XX sex.
1 Q61164 (/TAS)
Maintenance of DNA methylation GO:0010216
Any process involved in maintaining the methylation state of a nucleotide sequence.
1 Q61164 (/IMP)
Positive regulation of gene expression GO:0010628
Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
1 Q61164 (/ISO)
Negative regulation of gene expression GO:0010629
Any process that decreases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
1 Q61164 (/IMP)
Nucleosome positioning GO:0016584
Ordering of successions of nucleosomes into regular arrays so that nucleosomes are positioned at defined distances from one another.
1 Q61164 (/ISO)
Regulation of histone methylation GO:0031060
Any process that modulates the frequency, rate or extent of the covalent addition of methyl groups to histones.
1 Q61164 (/IMP)
Regulation of histone acetylation GO:0035065
Any process that modulates the frequency, rate or extent of the addition of an acetyl group to a histone protein.
1 Q61164 (/IMP)
Regulation of gene expression, epigenetic GO:0040029
Any process that modulates the frequency, rate or extent of gene expression; the process is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence.
1 Q61164 (/ISO)
Regulation of molecular function, epigenetic GO:0040030
Any heritable epigenetic process that modulates the frequency, rate or extent of protein function by self-perpetuating conformational conversions of normal proteins in healthy cells. This is distinct from, though mechanistically analogous to, disease states associated with prion propagation and amyloidogenesis. A single protein, if it carries a glutamine/asparagine-rich ('prion') domain, can sometimes stably exist in at least two distinct physical states, each associated with a different phenotype; propagation of one of these traits is achieved by a self-perpetuating change in the protein from one form to the other, mediated by conformational changes in the glutamine/asparagine-rich domain. Prion domains are both modular and transferable to other proteins, on which they can confer a heritable epigenetic alteration of function; existing bioinformatics data indicate that they are rare in non-eukarya, but common in eukarya.
1 Q61164 (/ISO)
Negative regulation of transcription, DNA-templated GO:0045892
Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
1 Q61164 (/ISO)
Positive regulation of transcription, DNA-templated GO:0045893
Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
1 Q61164 (/ISO)
Protein localization to chromosome, centromeric region GO:0071459
Any process in which a protein is transported to, or maintained at, the centromeric region of a chromosome.
1 Q61164 (/ISO)
Positive regulation of pri-miRNA transcription by RNA polymerase II GO:1902895
Any process that activates or increases the frequency, rate or extent of pri-miRNA transcription mediated by RNA polymerase II.
1 Q9R1D1 (/IMP)
Positive regulation of pri-miRNA transcription by RNA polymerase II GO:1902895
Any process that activates or increases the frequency, rate or extent of pri-miRNA transcription mediated by RNA polymerase II.
1 Q61164 (/ISO)

There are 12 GO terms relating to "cellular component"

The search results have been sorted with the annotations that are found most frequently at the top of the list. The results can be filtered by typing text into the search box at the top of the table.
GO Term Annotations Evidence
Nucleus GO:0005634
A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
6 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) Q61164 (/IDA)
Chromosome, centromeric region GO:0000775
The region of a chromosome that includes the centromeric DNA and associated proteins. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Condensed chromosome GO:0000793
A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Nucleolus GO:0005730
A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
5 P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA) P49711 (/IDA)
Chromosome, centromeric region GO:0000775
The region of a chromosome that includes the centromeric DNA and associated proteins. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome.
2 Q61164 (/ISS) Q9R1D1 (/ISS)
Chromosome, centromeric region GO:0000775
The region of a chromosome that includes the centromeric DNA and associated proteins. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome.
1 Q61164 (/ISO)
Condensed chromosome GO:0000793
A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure.
1 Q61164 (/ISO)
Nucleus GO:0005634
A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
1 Q61164 (/ISO)
Nucleus GO:0005634
A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
1 Q9R1D1 (/ISS)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
1 Q61164 (/ISO)
Nucleolus GO:0005730
A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
1 Q61164 (/ISO)
CATH-Gene3D is a Global Biodata Core Resource Learn more...