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 55: Homeobox protein Hox-A5

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 14 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 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.
14 P09067 (/ISA) P09067 (/ISA) P09067 (/ISA) P09067 (/ISA) P09067 (/ISA) P09067 (/ISA) P09067 (/ISA) P09067 (/ISA) P09067 (/ISA) P09067 (/ISA)
(4 more)
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.
14 P09067 (/ISM) P09067 (/ISM) P09067 (/ISM) P09067 (/ISM) P09067 (/ISM) P09067 (/ISM) P09067 (/ISM) P09067 (/ISM) P09067 (/ISM) P09067 (/ISM)
(4 more)
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.
14 P09067 (/NAS) P09067 (/NAS) P09067 (/NAS) P09067 (/NAS) P09067 (/NAS) P09067 (/NAS) P09067 (/NAS) P09067 (/NAS) P09067 (/NAS) P09067 (/NAS)
(4 more)
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).
13 P09021 (/IPI) P09021 (/IPI) P09067 (/IPI) P09067 (/IPI) P09067 (/IPI) P09067 (/IPI) P09067 (/IPI) P09067 (/IPI) P09067 (/IPI) P09067 (/IPI)
(3 more)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
5 P09021 (/IDA) P09021 (/IDA) P09079 (/IDA) P09079 (/IDA) P20719 (/IDA)
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.
3 P09079 (/IDA) P09079 (/IDA) P20719 (/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.
3 P09079 (/IDA) P09079 (/IDA) P20719 (/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.
3 Q00444 (/TAS) Q00444 (/TAS) Q00444 (/TAS)
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.
2 P09021 (/ISO) P09021 (/ISO)
RNA polymerase II distal enhancer sequence-specific DNA binding GO:0000980
Interacting selectively and non-covalently with a RNA polymerase II (Pol II) distal enhancer. In mammalian cells, enhancers are distal sequences that increase the utilization of some promoters, and can function in either orientation and in any location (upstream or downstream) relative to the core promoter.
2 P09079 (/IDA) P09079 (/IDA)
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.
2 P09021 (/ISO) P09021 (/ISO)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
2 P09021 (/ISO) P09021 (/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.
2 P09021 (/ISO) P09021 (/ISO)
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 P20719 (/IDA)

There are 50 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
Anterior/posterior pattern specification GO:0009952
The regionalization process in which specific areas of cell differentiation are determined along the anterior-posterior axis. The anterior-posterior axis is defined by a line that runs from the head or mouth of an organism to the tail or opposite end of the organism.
31 P09021 (/IGI) P09021 (/IGI) P09079 (/IGI) P09079 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI)
(21 more)
Embryonic skeletal system development GO:0048706
The process, occurring during the embryonic phase, whose specific outcome is the progression of the skeleton over time, from its formation to the mature structure.
31 P09021 (/IGI) P09021 (/IGI) P09079 (/IGI) P09079 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI) P32043 (/IGI)
(21 more)
Anatomical structure morphogenesis GO:0009653
The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form.
10 P09067 (/TAS) P09067 (/TAS) P09067 (/TAS) P09067 (/TAS) P09067 (/TAS) P09067 (/TAS) P09067 (/TAS) P09067 (/TAS) P09067 (/TAS) P09067 (/TAS)
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.
5 P09021 (/IDA) P09021 (/IDA) P09079 (/IDA) P09079 (/IDA) P20719 (/IDA)
Anterior/posterior pattern specification GO:0009952
The regionalization process in which specific areas of cell differentiation are determined along the anterior-posterior axis. The anterior-posterior axis is defined by a line that runs from the head or mouth of an organism to the tail or opposite end of the organism.
4 P09021 (/IMP) P09021 (/IMP) P09079 (/IMP) P09079 (/IMP)
Embryonic skeletal system morphogenesis GO:0048704
The process in which the anatomical structures of the skeleton are generated and organized during the embryonic phase.
4 P09021 (/IMP) P09021 (/IMP) P09079 (/IMP) P09079 (/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 Q00444 (/TAS) Q00444 (/TAS) Q00444 (/TAS)
Skeletal system development GO:0001501
The process whose specific outcome is the progression of the skeleton over time, from its formation to the mature structure. The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton).
2 P09021 (/IMP) P09021 (/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.
2 P09013 (/IMP) P09014 (/IMP)
Morphogenesis of an epithelium GO:0002009
The process in which the anatomical structures of epithelia are generated and organized. An epithelium consists of closely packed cells arranged in one or more layers, that covers the outer surfaces of the body or lines any internal cavity or tube.
2 P09021 (/IMP) P09021 (/IMP)
Respiratory system process GO:0003016
A process carried out by the organs or tissues of the respiratory system. The respiratory system is an organ system responsible for respiratory gaseous exchange.
2 P09021 (/IMP) P09021 (/IMP)
Regulation of transcription, DNA-templated GO:0006355
Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
2 P09079 (/IDA) P09079 (/IDA)
Pattern specification process GO:0007389
Any developmental process that results in the creation of defined areas or spaces within an organism to which cells respond and eventually are instructed to differentiate.
2 P09021 (/IMP) P09021 (/IMP)
Brain development GO:0007420
The process whose specific outcome is the progression of the brain over time, from its formation to the mature structure. Brain development begins with patterning events in the neural tube and ends with the mature structure that is the center of thought and emotion. The brain is responsible for the coordination and control of bodily activities and the interpretation of information from the senses (sight, hearing, smell, etc.).
2 P09013 (/IMP) P09014 (/IMP)
Respiratory gaseous exchange by respiratory system GO:0007585
The process of gaseous exchange between an organism and its environment. In plants, microorganisms, and many small animals, air or water makes direct contact with the organism's cells or tissue fluids, and the processes of diffusion supply the organism with dioxygen (O2) and remove carbon dioxide (CO2). In larger animals the efficiency of gaseous exchange is improved by specialized respiratory organs, such as lungs and gills, which are ventilated by breathing mechanisms.
2 P09021 (/IMP) P09021 (/IMP)
Positive regulation of receptor biosynthetic process GO:0010870
Any process that increases the frequency or rate of receptor biosynthesis. Receptor biosynthesis is the collection of chemical reactions and pathways resulting in the formation of a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
2 P09021 (/ISO) P09021 (/ISO)
Cell migration GO:0016477
The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms.
2 P09021 (/IMP) P09021 (/IMP)
Negative regulation of angiogenesis GO:0016525
Any process that stops, prevents, or reduces the frequency, rate or extent of angiogenesis.
2 P09021 (/ISO) P09021 (/ISO)
Lung development GO:0030324
The process whose specific outcome is the progression of the lung over time, from its formation to the mature structure. In all air-breathing vertebrates the lungs are developed from the ventral wall of the oesophagus as a pouch which divides into two sacs. In amphibians and many reptiles the lungs retain very nearly this primitive sac-like character, but in the higher forms the connection with the esophagus becomes elongated into the windpipe and the inner walls of the sacs become more and more divided, until, in the mammals, the air spaces become minutely divided into tubes ending in small air cells, in the walls of which the blood circulates in a fine network of capillaries. In mammals the lungs are more or less divided into lobes, and each lung occupies a separate cavity in the thorax.
2 P09021 (/IMP) P09021 (/IMP)
Thyroid gland development GO:0030878
The process whose specific outcome is the progression of the thyroid gland over time, from its formation to the mature structure. The thyroid gland is an endoderm-derived gland that produces thyroid hormone.
2 P09021 (/IMP) P09021 (/IMP)
Regulation of mammary gland epithelial cell proliferation GO:0033599
Any process that modulates the frequency, rate or extent of mammary gland epithelial cell proliferation.
2 P09021 (/IMP) P09021 (/IMP)
Multicellular organism growth GO:0035264
The increase in size or mass of an entire multicellular organism, as opposed to cell growth.
2 P09021 (/IMP) P09021 (/IMP)
Positive regulation of apoptotic process GO:0043065
Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
2 P09021 (/ISO) P09021 (/ISO)
Endothelial cell differentiation GO:0045446
The process in which a mesodermal, bone marrow or neural crest cell acquires specialized features of an endothelial cell, a thin flattened cell. A layer of such cells lines the inside surfaces of body cavities, blood vessels, and lymph vessels, making up the endothelium.
2 P09079 (/IDA) P09079 (/IDA)
Positive regulation of myeloid cell differentiation GO:0045639
Any process that activates or increases the frequency, rate or extent of myeloid cell differentiation.
2 P09021 (/ISO) P09021 (/ISO)
Negative regulation of erythrocyte differentiation GO:0045647
Any process that stops, prevents, or reduces the frequency, rate or extent of erythrocyte differentiation.
2 P09021 (/ISO) P09021 (/ISO)
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.
2 P09021 (/ISO) P09021 (/ISO)
Lung alveolus development GO:0048286
The process whose specific outcome is the progression of the alveolus over time, from its formation to the mature structure. The alveolus is a sac for holding air in the lungs; formed by the terminal dilation of air passageways.
2 P09021 (/IMP) P09021 (/IMP)
Embryonic skeletal system morphogenesis GO:0048704
The process in which the anatomical structures of the skeleton are generated and organized during the embryonic phase.
2 P09079 (/IGI) P09079 (/IGI)
Bronchiole development GO:0060435
The biological process whose specific outcome is the progression of a bronchiole from an initial condition to its mature state. This process begins with the formation of the bronchiole and ends with the mature structure. A bronchiole is the first airway branch that no longer contains cartilage; it is a branch of the bronchi.
2 P09021 (/IMP) P09021 (/IMP)
Trachea morphogenesis GO:0060439
The process in which a trachea is generated and organized. The trachea is the portion of the airway that attaches to the bronchi as it branches.
2 P09021 (/IMP) P09021 (/IMP)
Epithelial tube branching involved in lung morphogenesis GO:0060441
The process in which a highly ordered sequence of patterning events generates the branched epithelial tubes of the lung, consisting of reiterated combinations of bud outgrowth, elongation, and dichotomous subdivision of terminal units.
2 P09021 (/IMP) P09021 (/IMP)
Lung goblet cell differentiation GO:0060480
The process in which a relatively unspecialized cell acquires specialized features of a lung goblet cell. A goblet cell is a cell of the epithelial lining that produces and secretes mucins.
2 P09021 (/IMP) P09021 (/IMP)
Lobar bronchus epithelium development GO:0060481
The biological process whose specific outcome is the progression of a lobar bronchus epithelium from an initial condition to its mature state. This process begins with the formation of the lobar bronchus epithelium and ends with the mature structure. The lobar bronchus epithelium is the tissue made up of epithelial cells that lines the inside of the lobar bronchus.
2 P09021 (/IMP) P09021 (/IMP)
Lung-associated mesenchyme development GO:0060484
The biological process whose specific outcome is the progression of a lung-associated mesenchyme from an initial condition to its mature state. This process begins with the formation of lung-associated mesenchyme and ends with the mature structure. Lung-associated mesenchyme is the tissue made up of loosely connected mesenchymal cells in the lung.
2 P09021 (/IMP) P09021 (/IMP)
Trachea cartilage morphogenesis GO:0060535
The process in which the anatomical structures of cartilage in the trachea are generated and organized.
2 P09021 (/IMP) P09021 (/IMP)
Cartilage morphogenesis GO:0060536
The process in which the anatomical structures of cartilage are generated and organized.
2 P09021 (/IMP) P09021 (/IMP)
Intestinal epithelial cell maturation GO:0060574
The developmental process, independent of morphogenetic (shape) change, that is required for a columna/cuboidal epithelial cell of the intestine to attain its fully functional state. A columnar/cuboidal epithelial cell of the intestine mature as they migrate from the intestinal crypt to the villus.
2 P09021 (/IMP) P09021 (/IMP)
Mesenchymal-epithelial cell signaling GO:0060638
Any process that mediates the transfer of information from a mesenchymal cell to an epithelial cell where it is received and interpreted.
2 P09021 (/IMP) P09021 (/IMP)
Mammary gland epithelial cell differentiation GO:0060644
The process in which a relatively unspecialized epithelial cell becomes a more specialized epithelial cell of the mammary gland.
2 P09021 (/IMP) P09021 (/IMP)
Mammary gland alveolus development GO:0060749
The progression of the mammary gland alveolus over time, from its formation to its mature state. The mammary gland alveolus is a sac-like structure that is found in the mature gland.
2 P09021 (/IMP) P09021 (/IMP)
Cell-cell signaling involved in mammary gland development GO:0060764
Any process that mediates the transfer of information from one cell to another and contributes to the progression of the mammary gland, from its initial state to the mature structure.
2 P09021 (/IMP) P09021 (/IMP)
Pattern specification process GO:0007389
Any developmental process that results in the creation of defined areas or spaces within an organism to which cells respond and eventually are instructed to differentiate.
1 P52949 (/TAS)
Heart development GO:0007507
The process whose specific outcome is the progression of the heart over time, from its formation to the mature structure. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood.
1 P09013 (/IGI)
Cardioblast differentiation GO:0010002
The process in which a relatively unspecialized mesodermal cell acquires the specialized structural and/or functional features of a cardioblast. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating.
1 P09013 (/IMP)
Positive regulation of receptor biosynthetic process GO:0010870
Any process that increases the frequency or rate of receptor biosynthesis. Receptor biosynthesis is the collection of chemical reactions and pathways resulting in the formation of a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
1 P20719 (/IDA)
Negative regulation of angiogenesis GO:0016525
Any process that stops, prevents, or reduces the frequency, rate or extent of angiogenesis.
1 P20719 (/IMP)
Positive regulation of apoptotic process GO:0043065
Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
1 P20719 (/IDA)
Positive regulation of myeloid cell differentiation GO:0045639
Any process that activates or increases the frequency, rate or extent of myeloid cell differentiation.
1 P20719 (/IDA)
Negative regulation of erythrocyte differentiation GO:0045647
Any process that stops, prevents, or reduces the frequency, rate or extent of erythrocyte differentiation.
1 P20719 (/IDA)

There are 10 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
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
27 P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO)
(17 more)
Cell junction GO:0030054
A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix.
27 P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO) P32043 (/ISO)
(17 more)
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.
15 P09021 (/IDA) P09021 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA)
(5 more)
Fibrillar center GO:0001650
A structure found most metazoan nucleoli, but not usually found in lower eukaryotes; surrounded by the dense fibrillar component; the zone of transcription from multiple copies of the pre-rRNA genes is in the border region between these two structures.
10 P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA)
Cytosol GO:0005829
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
10 P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA) P09067 (/IDA)
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.
4 P09021 (/ISO) P09021 (/ISO) P09079 (/ISO) P09079 (/ISO)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
3 Q00444 (/IDA) Q00444 (/IDA) Q00444 (/IDA)
Cell junction GO:0030054
A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix.
3 Q00444 (/IDA) Q00444 (/IDA) Q00444 (/IDA)
Fibrillar center GO:0001650
A structure found most metazoan nucleoli, but not usually found in lower eukaryotes; surrounded by the dense fibrillar component; the zone of transcription from multiple copies of the pre-rRNA genes is in the border region between these two structures.
2 P09079 (/ISO) P09079 (/ISO)
Cytosol GO:0005829
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
2 P09079 (/ISO) P09079 (/ISO)