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:

"
Homeodomain-like
".

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.
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FunFam 376: Chromodomain-helicase-DNA-binding protein 1

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 16 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
Nucleosome-dependent ATPase activity GO:0070615
Catalysis of the reaction: ATP + H2O = ADP + phosphate. This reaction requires the presence of one or more nucleosomes.
3 O14139 (/IDA) P32657 (/IDA) P32657 (/IDA)
RDNA binding GO:0000182
Interacting selectively and non-covalently with DNA sequences encoding ribosomal RNA.
2 P32657 (/IDA) P32657 (/IDA)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
2 P32657 (/IDA) P32657 (/IDA)
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).
2 O14139 (/IPI) Q9US25 (/IPI)
DNA-dependent ATPase activity GO:0008094
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction requires the presence of single- or double-stranded DNA, and it drives another reaction.
2 P32657 (/IDA) P32657 (/IDA)
Chromatin DNA binding GO:0031490
Interacting selectively and non-covalently with DNA that is assembled into chromatin.
2 P32657 (/IDA) P32657 (/IDA)
Methylated histone binding GO:0035064
Interacting selectively and non-covalently with a histone in which a residue has been modified by methylation. Histones are any of a group of water-soluble proteins found in association with the DNA of eukaroytic chromosomes.
2 P32657 (/IDA) P32657 (/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.
2 P32657 (/IDA) P32657 (/IDA)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
1 Q9US25 (/IC)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
1 O14139 (/NAS)
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.
1 Q7KU24 (/IDA)
Helicase activity GO:0004386
Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the unwinding of a DNA or RNA helix.
1 Q7KU24 (/ISS)
ATP binding GO:0005524
Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
1 O14139 (/IC)
DNA-dependent ATPase activity GO:0008094
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction requires the presence of single- or double-stranded DNA, and it drives another reaction.
1 O14139 (/ISM)
Single-stranded DNA helicase activity GO:0017116
Catalysis of the reaction: ATP + H2O = ADP + phosphate, in the presence of single-stranded DNA; drives the unwinding of a DNA helix.
1 Q9US25 (/IDA)
Double-stranded DNA helicase activity GO:0036121
Catalysis of the reaction: ATP + H2O = ADP + phosphate, in the presence of double-stranded DNA; drives the unwinding of a DNA helix.
1 Q9US25 (/IDA)

There are 30 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
Termination of RNA polymerase II transcription GO:0006369
The process in which the synthesis of an RNA molecule by RNA polymerase II using a DNA template is completed.
3 P32657 (/IMP) P32657 (/IMP) Q9US25 (/IMP)
Nucleosome organization GO:0034728
A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of one or more nucleosomes.
3 O14139 (/IMP) P32657 (/IMP) P32657 (/IMP)
Regulation of transcriptional start site selection at RNA polymerase II promoter GO:0001178
Any process that modulates the rate, frequency or extent of a process involved in the selection of the specific location within the template strand of an RNA polymerase II promoter for hybridization of the cognate ribonucleotides and formation of first phosphodiester bond within the nascent transcript.
2 P32657 (/IGI) P32657 (/IGI)
Termination of RNA polymerase I transcription GO:0006363
The process in which the synthesis of an RNA molecule by RNA polymerase I using a DNA template is completed. RNAP I termination requires binding of a terminator protein so specific sequences downstream of the transcription unit.
2 P32657 (/IGI) P32657 (/IGI)
Transcription elongation from RNA polymerase II promoter GO:0006368
The extension of an RNA molecule after transcription initiation and promoter clearance at an RNA polymerase II promoter by the addition of ribonucleotides catalyzed by RNA polymerase II.
2 P32657 (/IGI) P32657 (/IGI)
Transcription elongation from RNA polymerase II promoter GO:0006368
The extension of an RNA molecule after transcription initiation and promoter clearance at an RNA polymerase II promoter by the addition of ribonucleotides catalyzed by RNA polymerase II.
2 P32657 (/IPI) P32657 (/IPI)
Termination of RNA polymerase II transcription GO:0006369
The process in which the synthesis of an RNA molecule by RNA polymerase II using a DNA template is completed.
2 P32657 (/IGI) P32657 (/IGI)
Nucleosome positioning GO:0016584
Ordering of successions of nucleosomes into regular arrays so that nucleosomes are positioned at defined distances from one another.
2 P32657 (/IDA) P32657 (/IDA)
Chromatin silencing at silent mating-type cassette GO:0030466
Repression of transcription at silent mating-type loci by alteration of the structure of chromatin.
2 O14139 (/IMP) Q9US25 (/IMP)
Nucleosome mobilization GO:0042766
The movement of nucleosomes along a DNA fragment.
2 P32657 (/IDA) P32657 (/IDA)
ATP-dependent chromatin remodeling GO:0043044
Dynamic structural changes to eukaryotic chromatin that require energy from the hydrolysis of ATP, ranging from local changes necessary for transcriptional regulation to global changes necessary for chromosome segregation, mediated by ATP-dependent chromatin-remodelling factors.
2 P32657 (/IDA) P32657 (/IDA)
ATP-dependent chromatin remodeling GO:0043044
Dynamic structural changes to eukaryotic chromatin that require energy from the hydrolysis of ATP, ranging from local changes necessary for transcriptional regulation to global changes necessary for chromosome segregation, mediated by ATP-dependent chromatin-remodelling factors.
2 Q7KU24 (/IMP) Q9US25 (/IMP)
Histone exchange GO:0043486
The replacement, within chromatin, of resident histones or histone subunits with alternative, sometimes variant, histones or subunits.
2 Q7KU24 (/IMP) Q9US25 (/IMP)
Regulation of nucleosome density GO:0060303
Any process that modulates the number of nucleosomes in a given region of a chromosome.
2 P32657 (/IGI) P32657 (/IGI)
Regulation of nucleosome density GO:0060303
Any process that modulates the number of nucleosomes in a given region of a chromosome.
2 O14139 (/IMP) Q9US25 (/IMP)
Negative regulation of histone H3-K14 acetylation GO:0071441
Any process that stops, prevents, or reduces the frequency, rate or extent of the addition of an acetyl group to histone H3 at position 14 of the histone.
2 P32657 (/IMP) P32657 (/IMP)
Histone H2B conserved C-terminal lysine ubiquitination GO:0071894
A histone ubiquitination process in which a ubiquitin monomer is added to a conserved lysine residue in the C-terminus of histone H2B. The conserved lysine residue is K119 in fission yeast, K123 in budding yeast, or K120 in mammals.
2 P32657 (/IMP) P32657 (/IMP)
Negative regulation of histone exchange GO:1900050
Any process that stops, prevents or reduces the frequency, rate or extent of histone exchange.
2 P32657 (/IMP) P32657 (/IMP)
Regulation of chromatin organization GO:1902275
Any process that modulates the frequency, rate or extent of chromatin organization.
2 P32657 (/IMP) P32657 (/IMP)
Negative regulation of DNA-dependent DNA replication GO:2000104
Any process that stops, prevents, or reduces the frequency, rate or extent of DNA-dependent DNA replication.
2 P32657 (/IGI) P32657 (/IGI)
Negative regulation of histone H3-K9 acetylation GO:2000616
Any process that stops, prevents or reduces the frequency, rate or extent of histone H3-K9 acetylation.
2 P32657 (/IMP) P32657 (/IMP)
Chromatin remodeling GO:0006338
Dynamic structural changes to eukaryotic chromatin occurring throughout the cell division cycle. These changes range from the local changes necessary for transcriptional regulation to global changes necessary for chromosome segregation.
1 O14139 (/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.
1 Q9US25 (/IMP)
Imaginal disc-derived wing morphogenesis GO:0007476
The process in which the anatomical structures of the imaginal disc-derived wing are generated and organized. The wing is an appendage modified for flying.
1 Q7KU24 (/IMP)
Chromatin silencing at centromere GO:0030702
Repression of transcription of centromeric DNA by altering the structure of chromatin.
1 Q9US25 (/IMP)
Fertilization, exchange of chromosomal proteins GO:0035042
Replacement of sperm-specific chromosomal proteins with somatic histones, to allow the paternal genome to acquire a nucleosomal chromatin organization compatible with nuclear activity.
1 Q7KU24 (/IMP)
Negative regulation of histone acetylation GO:0035067
Any process that stops, prevents, or reduces the frequency, rate or extent of the addition of an acetyl group to a histone protein.
1 Q9US25 (/IMP)
Positive regulation of transcription by RNA polymerase II GO:0045944
Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
1 Q9US25 (/IEP)
Chromatin-mediated maintenance of transcription GO:0048096
Maintenance of transcription by remodelling of chromatin into an 'open configuration'. Once established, this regulation is mitotically stable and is maintained over many cell divisions. It is also heritable.
1 Q9US25 (/TAS)
Oogenesis GO:0048477
The complete process of formation and maturation of an ovum or female gamete from a primordial female germ cell. Examples of this process are found in Mus musculus and Drosophila melanogaster.
1 Q7KU24 (/IMP)

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
Nuclear chromatin GO:0000790
The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus.
3 P32657 (/IDA) P32657 (/IDA) Q9US25 (/IDA)
SAGA complex GO:0000124
A SAGA-type histone acetyltransferase complex that contains Spt8 (in budding yeast) or a homolog thereof; additional polypeptides include Spt group, consisting of Spt7, Spt3, and Spt20/Ada5, which interact with the TATA-binding protein (TBP); the Ada group, consisting of Ada1, Ada2, Ada3, Ada4/Gcn5, and Ada5/Spt20, which is functionally linked to the nucleosomal HAT activity; Tra1, an ATM/PI-3 kinase-related protein that targets DNA-bound activators for recruitment to promoters; the TBP-associated factor (TAF) proteins, consisting of Taf5, Taf6, Taf9, Taf10, and Taf12, which mediate nucleosomal HAT activity and are thought to help recruit the basal transcription machinery; the ubiquitin specifc protease Ubp-8.
2 P32657 (/IDA) P32657 (/IDA)
Mitochondrion GO:0005739
A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
2 P32657 (/HDA) P32657 (/HDA)
Nucleolar chromatin GO:0030874
The portion of nuclear chromatin associated with the nucleolus; includes the DNA encoding the ribosomal RNA.
2 P32657 (/IDA) P32657 (/IDA)
SLIK (SAGA-like) complex GO:0046695
A SAGA-type histone acetyltransferase complex that contains Rtg2 and a smaller form of Spt7 than the fungal SAGA complex, and lacks Spt8. The complex is involved in the yeast retrograde response pathway, which is important for gene expression changes during mitochondrial dysfunction.
2 P32657 (/IDA) P32657 (/IDA)
Condensed nuclear chromosome, centromeric region GO:0000780
The region of a condensed nuclear chromosome that includes the centromere and associated proteins, including the kinetochore. 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 Q9US25 (/IDA)
Nuclear chromatin GO:0000790
The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus.
1 O14139 (/NAS)
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 O14139 (/HDA)
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 Q9US25 (/IDA)
Polytene chromosome puff GO:0005703
A swelling at a site along the length of a polytene chromosome, thought to be the site of active transcription.
1 Q7KU24 (/IDA)
Polytene chromosome interband GO:0005705
A stretch of less tightly packed chromatin along the polytene chromosome, found between bands.
1 Q7KU24 (/IDA)
Mating-type region heterochromatin GO:0031934
Heterochromatic regions of the chromosome found at silenced mating-type loci.
1 O14139 (/IDA)
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