The name of this superfamily has been modified since the most recent official CATH+ release (v4_2_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 124632: Arginine-glutamic acid dipeptide (RE) repeats

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 12 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
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
9 M9NDL9 (/IDA) M9NE54 (/IDA) M9PES2 (/IDA) M9PHT1 (/IDA) Q7KUA8 (/IDA) Q86BH2 (/IDA) Q8IQA6 (/IDA) Q9NHX6 (/IDA) Q9VSK5 (/IDA)
Transcription corepressor activity GO:0003714
Interacting selectively and non-covalently with a repressing transcription factor and also with the basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
9 M9NDL9 (/IDA) M9NE54 (/IDA) M9PES2 (/IDA) M9PHT1 (/IDA) Q7KUA8 (/IDA) Q86BH2 (/IDA) Q8IQA6 (/IDA) Q9NHX6 (/IDA) Q9VSK5 (/IDA)
Transcription corepressor activity GO:0003714
Interacting selectively and non-covalently with a repressing transcription factor and also with the basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
9 M9NDL9 (/IGI) M9NE54 (/IGI) M9PES2 (/IGI) M9PHT1 (/IGI) Q7KUA8 (/IGI) Q86BH2 (/IGI) Q8IQA6 (/IGI) Q9NHX6 (/IGI) Q9VSK5 (/IGI)
Histone deacetylase activity GO:0004407
Catalysis of the reaction: histone N6-acetyl-L-lysine + H2O = histone L-lysine + acetate. This reaction represents the removal of an acetyl group from a histone, a class of proteins complexed to DNA in chromatin and chromosomes.
9 M9NDL9 (/IDA) M9NE54 (/IDA) M9PES2 (/IDA) M9PHT1 (/IDA) Q7KUA8 (/IDA) Q86BH2 (/IDA) Q8IQA6 (/IDA) Q9NHX6 (/IDA) Q9VSK5 (/IDA)
Repressing transcription factor binding GO:0070491
Interacting selectively and non-covalently with a transcription repressor, any protein whose activity is required to prevent or downregulate transcription.
9 M9NDL9 (/IPI) M9NE54 (/IPI) M9PES2 (/IPI) M9PHT1 (/IPI) Q7KUA8 (/IPI) Q86BH2 (/IPI) Q8IQA6 (/IPI) Q9NHX6 (/IPI) Q9VSK5 (/IPI)
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).
4 Q09228 (/IPI) Q80TZ9 (/IPI) Q8IQA6 (/IPI) Q9P2R6 (/IPI)
RNA polymerase II transcription factor binding GO:0001085
Interacting selectively and non-covalently with an RNA polymerase II transcription factor, any protein required to initiate or regulate transcription by RNA polymerase II.
1 Q09228 (/IPI)
RNA polymerase II transcription coactivator activity GO:0001105
Interacting selectively and non-covalently with an RNA polymerase II (RNAP II) regulatory transcription factor and also with the RNAP II basal transcription machinery in order to increase the frequency, rate or extent of transcription. Cofactors generally do not bind DNA, but rather mediate protein-protein interactions between activating transcription factors and the basal RNAP II transcription machinery.
1 Q80TZ9 (/IDA)
RNA polymerase II transcription corepressor activity GO:0001106
Interacting selectively and non-covalently with an RNA polymerase II repressing transcription factor and also with the RNA polymerase II basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind DNA, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
1 Q80TZ9 (/IMP)
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 Q09228 (/IDA)
Poly-glutamine tract binding GO:0008267
Interacting selectively and non-covalently with a polyglutamine tract, i.e. a series of consecutive glutamine residues, in a protein.
1 Q9P2R6 (/TAS)
Enzyme binding GO:0019899
Interacting selectively and non-covalently with any enzyme.
1 Q09228 (/IPI)

There are 47 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
Negative regulation of smoothened signaling pathway GO:0045879
Any process that stops, prevents, or reduces the frequency, rate or extent of smoothened signaling.
11 E7F226 (/IMP) F1QQN6 (/IMP) M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP)
(1 more)
Eye development GO:0001654
The process whose specific outcome is the progression of the eye over time, from its formation to the mature structure. The eye is the organ of sight.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Inter-male aggressive behavior GO:0002121
Aggressive behavior based on competition between males of the same species over access to resources such as females, dominance, status, etc. and characterized by noise, threats, and is often less injurious.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Segment specification GO:0007379
The process in which segments assume individual identities; exemplified in insects by the actions of the products of the homeotic genes.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Imaginal disc-derived leg morphogenesis GO:0007480
The process in which the anatomical structures of a leg derived from an imaginal disc are generated and organized. A leg is a limb on which an animal walks and stands. An example of this is found in Drosophila melanogaster.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Larval somatic muscle development GO:0007526
The process whose specific outcome is the progression of the larval somatic muscle over time, from its formation to the mature structure.
9 M9NDL9 (/IEP) M9NE54 (/IEP) M9PES2 (/IEP) M9PHT1 (/IEP) Q7KUA8 (/IEP) Q86BH2 (/IEP) Q8IQA6 (/IEP) Q9NHX6 (/IEP) Q9VSK5 (/IEP)
Larval somatic muscle development GO:0007526
The process whose specific outcome is the progression of the larval somatic muscle over time, from its formation to the mature structure.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Imaginal disc-derived wing vein morphogenesis GO:0008586
The process in which anatomical structures of the veins on an imaginal disc-derived wing are generated and organized.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Embryonic pattern specification GO:0009880
The process that results in the patterns of cell differentiation that will arise in an embryo.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/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.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Segmentation GO:0035282
The regionalization process that divides an organism or part of an organism into a series of semi-repetitive parts, or segments, often arranged along a longitudinal axis.
9 M9NDL9 (/IMP) M9NE54 (/IMP) M9PES2 (/IMP) M9PHT1 (/IMP) Q7KUA8 (/IMP) Q86BH2 (/IMP) Q8IQA6 (/IMP) Q9NHX6 (/IMP) Q9VSK5 (/IMP)
Negative regulation of epidermal growth factor receptor signaling pathway GO:0042059
Any process that stops, prevents, or reduces the frequency, rate or extent of epidermal growth factor receptor signaling pathway activity.
9 M9NDL9 (/IGI) M9NE54 (/IGI) M9PES2 (/IGI) M9PHT1 (/IGI) Q7KUA8 (/IGI) Q86BH2 (/IGI) Q8IQA6 (/IGI) Q9NHX6 (/IGI) Q9VSK5 (/IGI)
Negative regulation of smoothened signaling pathway GO:0045879
Any process that stops, prevents, or reduces the frequency, rate or extent of smoothened signaling.
9 M9NDL9 (/IPI) M9NE54 (/IPI) M9PES2 (/IPI) M9PHT1 (/IPI) Q7KUA8 (/IPI) Q86BH2 (/IPI) Q8IQA6 (/IPI) Q9NHX6 (/IPI) Q9VSK5 (/IPI)
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.
9 M9NDL9 (/IDA) M9NE54 (/IDA) M9PES2 (/IDA) M9PHT1 (/IDA) Q7KUA8 (/IDA) Q86BH2 (/IDA) Q8IQA6 (/IDA) Q9NHX6 (/IDA) Q9VSK5 (/IDA)
Regulation of histone deacetylation GO:0031063
Any process that modulates the frequency, rate or extent of the removal of acetyl groups from histones.
2 E7F226 (/IMP) F1QQN6 (/IMP)
Regulation of fibroblast growth factor receptor signaling pathway GO:0040036
Any process that modulates the frequency, rate or extent of fibroblast growth factor receptor signaling pathway activity.
2 E7F226 (/IGI) F1QQN6 (/IGI)
Regulation of fibroblast growth factor receptor signaling pathway GO:0040036
Any process that modulates the frequency, rate or extent of fibroblast growth factor receptor signaling pathway activity.
2 E7F226 (/IMP) F1QQN6 (/IMP)
Inner ear development GO:0048839
The process whose specific outcome is the progression of the inner ear over time, from its formation to the mature structure.
2 E7F226 (/IMP) F1QQN6 (/IMP)
Cartilage development GO:0051216
The process whose specific outcome is the progression of a cartilage element over time, from its formation to the mature structure. Cartilage elements are skeletal elements that consist of connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate.
2 E7F226 (/IMP) F1QQN6 (/IMP)
Pharyngeal system development GO:0060037
The process whose specific outcome is the progression of the pharyngeal system over time, from its formation to the mature structure. The pharyngeal system is a transient embryonic complex that is specific to vertebrates. It comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming: the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear.
2 E7F226 (/IGI) F1QQN6 (/IGI)
Pharyngeal system development GO:0060037
The process whose specific outcome is the progression of the pharyngeal system over time, from its formation to the mature structure. The pharyngeal system is a transient embryonic complex that is specific to vertebrates. It comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming: the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear.
2 E7F226 (/IMP) F1QQN6 (/IMP)
Cartilage morphogenesis GO:0060536
The process in which the anatomical structures of cartilage are generated and organized.
2 E7F226 (/IMP) F1QQN6 (/IMP)
Cell fate specification GO:0001708
The process involved in the specification of cell identity. Once specification has taken place, a cell will be committed to differentiate down a specific pathway if left in its normal environment.
1 Q09228 (/IMP)
Nematode larval development GO:0002119
The process whose specific outcome is the progression of the nematode larva over time, from its formation to the mature structure. Nematode larval development begins with the newly hatched first-stage larva (L1) and ends with the end of the last larval stage (for example the fourth larval stage (L4) in C. elegans). Each stage of nematode larval development is characterized by proliferation of specific cell lineages and an increase in body size without alteration of the basic body plan. Nematode larval stages are separated by molts in which each stage-specific exoskeleton, or cuticle, is shed and replaced anew.
1 Q09228 (/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 Q80TZ9 (/IPI)
Regulation of transcription from RNA polymerase II promoter GO:0006357
Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter.
1 Q09228 (/IMP)
NLS-bearing protein import into nucleus GO:0006607
The directed movement of a protein bearing a nuclear localization signal (NLS) from the cytoplasm into the nucleus, across the nuclear membrane.
1 Q9P2R6 (/TAS)
Cell adhesion GO:0007155
The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
1 Q09228 (/IMP)
Establishment or maintenance of cell polarity GO:0007163
Any cellular process that results in the specification, formation or maintenance of anisotropic intracellular organization or cell growth patterns.
1 Q09228 (/IMP)
Mesoderm development GO:0007498
The process whose specific outcome is the progression of the mesoderm over time, from its formation to the mature structure. The mesoderm is the middle germ layer that develops into muscle, bone, cartilage, blood and connective tissue.
1 Q09228 (/IMP)
Epidermis development GO:0008544
The process whose specific outcome is the progression of the epidermis over time, from its formation to the mature structure. The epidermis is the outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species.
1 Q09228 (/IMP)
Regulation of asymmetric cell division GO:0009786
Any process that modulates the frequency, rate or extent of asymmetric cell division.
1 Q09228 (/IMP)
Embryo development ending in birth or egg hatching GO:0009792
The process whose specific outcome is the progression of an embryo over time, from zygote formation until the end of the embryonic life stage. The end of the embryonic life stage is organism-specific and may be somewhat arbitrary; for mammals it is usually considered to be birth, for insects the hatching of the first instar larva from the eggshell.
1 Q09228 (/IMP)
Body morphogenesis GO:0010171
The process in which the anatomical structures of the soma are generated and organized.
1 Q09228 (/IMP)
Wnt signaling pathway GO:0016055
The series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell and ending with a change in cell state.
1 Q09228 (/IMP)
Oviposition GO:0018991
The deposition of eggs (either fertilized or not) upon a surface or into a medium such as water.
1 Q09228 (/IMP)
Cerebellum development GO:0021549
The process whose specific outcome is the progression of the cerebellum over time, from its formation to the mature structure. The cerebellum is the portion of the brain in the back of the head between the cerebrum and the pons. In mice, the cerebellum controls balance for walking and standing, modulates the force and range of movement and is involved in the learning of motor skills.
1 Q80TZ9 (/IMP)
Cerebellar Purkinje cell layer maturation GO:0021691
A developmental process, independent of morphogenetic (shape) change, that is required for the cerebellar Purkinje cell layer to attain its fully functional state. The Purkinje cell layer lies just underneath the molecular layer of the cerebellar cortex. It contains the neuronal cell bodies of the Purkinje cells that are arranged side by side in a single layer. Candelabrum interneurons are vertically oriented between the Purkinje cells. Purkinje neurons are inhibitory and provide the output of the cerebellar cortex through axons that project into the white matter. Extensive dendritic trees from the Purkinje cells extend upward in a single plane into the molecular layer where they synapse with parallel fibers of granule cells.
1 Q80TZ9 (/IMP)
Cerebellar granule cell precursor proliferation GO:0021930
The multiplication or reproduction of neuroblasts that will give rise to granule cells. A granule cell is a glutamatergic interneuron found in the cerebellar cortex.
1 Q80TZ9 (/IMP)
Radial glia guided migration of Purkinje cell GO:0021942
The migration of postmitotic a Purkinje cell along radial glial cells from the ventricular zone to the Purkinje cell layer.
1 Q80TZ9 (/IMP)
Regulation of cell migration GO:0030334
Any process that modulates the frequency, rate or extent of cell migration.
1 Q09228 (/IMP)
Hemidesmosome assembly GO:0031581
Assembly of hemidesmosomes, integrin-containing protein complexes that bind to laminin in the basal lamina. Hemidesmosomes form the contact between the basal surface of epithelial cells and the underlying basal lamina.
1 Q09228 (/IGI)
Nematode male tail tip morphogenesis GO:0045138
The process in which the anatomical structure of the adult male tail tip is generated and organized. In some species of rhabitid nematodes, the male tail tip undergoes a morphological change such that the most posterior hypodermal cells in the tail (hyp8-11 in C. elegans) fuse and retract anteriorly, changing the shape of the tail from a pointed, tapered cone, or spike, to a rounded, blunt dome.
1 Q09228 (/IMP)
Branching morphogenesis of a nerve GO:0048755
The process in which the anatomical structures of branches in a nerve are generated and organized. This term refers to an anatomical structure (nerve) not a cell (neuron).
1 Q80TZ9 (/IMP)
Dendrite morphogenesis GO:0048813
The process in which the anatomical structures of a dendrite are generated and organized. A dendrite is a freely branching protoplasmic process of a nerve cell.
1 Q80TZ9 (/IMP)
Transdifferentiation GO:0060290
The conversion of a differentiated cell of one fate into a differentiated cell of another fate without first undergoing cell division or reversion to a more primitive or stem cell-like fate.
1 Q09228 (/IGI)
Transdifferentiation GO:0060290
The conversion of a differentiated cell of one fate into a differentiated cell of another fate without first undergoing cell division or reversion to a more primitive or stem cell-like fate.
1 Q09228 (/IMP)

There are 6 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.
11 M9NDL9 (/IDA) M9NE54 (/IDA) M9PES2 (/IDA) M9PHT1 (/IDA) Q09228 (/IDA) Q7KUA8 (/IDA) Q80TZ9 (/IDA) Q86BH2 (/IDA) Q8IQA6 (/IDA) Q9NHX6 (/IDA)
(1 more)
Polytene chromosome interband GO:0005705
A stretch of less tightly packed chromatin along the polytene chromosome, found between bands.
9 M9NDL9 (/IDA) M9NE54 (/IDA) M9PES2 (/IDA) M9PHT1 (/IDA) Q7KUA8 (/IDA) Q86BH2 (/IDA) Q8IQA6 (/IDA) Q9NHX6 (/IDA) Q9VSK5 (/IDA)
Histone deacetylase complex GO:0000118
A protein complex that possesses histone deacetylase activity.
1 Q80TZ9 (/IPI)
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 Q9P2R6 (/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 Q9P2R6 (/TAS)
NuRD complex GO:0016581
An approximately 2 MDa multi-subunit complex that exhibits ATP-dependent chromatin remodeling activity in addition to histone deacetylase (HDAC) activity, and has been shown to establish transcriptional repression of a number of target genes in vertebrates, invertebrates and fungi. Amongst its subunits, the NuRD complex contains histone deacetylases, histone binding proteins and Mi-2-like proteins.
1 Q09228 (/ISS)