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:

"
Transcription factor, T-box
".

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 4: T-box, brain 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 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).
18 Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI)
(8 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.
17 O95936 (/ISM) Q16650 (/ISM) Q16650 (/ISM) Q16650 (/ISM) Q16650 (/ISM) Q16650 (/ISM) Q16650 (/ISM) Q16650 (/ISM) Q16650 (/ISM) Q16650 (/ISM)
(7 more)
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.
17 O54839 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS)
(7 more)
Identical protein binding GO:0042802
Interacting selectively and non-covalently with an identical protein or proteins.
16 Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI) Q16650 (/IPI)
(6 more)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
4 P79944 (/IDA) Q64336 (/IDA) Q98TU2 (/IDA) Q9DDU3 (/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.
2 Q98TU2 (/IDA) Q9DDU3 (/IDA)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
2 O54839 (/ISS) O95936 (/ISS)
RNA polymerase II regulatory region sequence-specific DNA binding GO:0000977
Interacting selectively and non-covalently with a specific sequence of DNA that is part of a regulatory region that controls the transcription of a gene or cistron by RNA polymerase II.
1 O54839 (/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 Q64336 (/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.
1 O95936 (/NAS)
RNA polymerase II activating transcription factor binding GO:0001102
Interacting selectively and non-covalently with an RNA polymerase II transcription activating factor, a protein involved in positive regulation of transcription.
1 O54839 (/IPI)
RNA polymerase II activating transcription factor binding GO:0001102
Interacting selectively and non-covalently with an RNA polymerase II transcription activating factor, a protein involved in positive regulation of transcription.
1 O95936 (/ISS)
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 O54839 (/IC)
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 Q64336 (/IC)
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 O54839 (/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.
1 Q64336 (/IDA)
Protein kinase binding GO:0019901
Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
1 D4A6N8 (/IPI)
Protein kinase binding GO:0019901
Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
1 Q64336 (/ISO)
Identical protein binding GO:0042802
Interacting selectively and non-covalently with an identical protein or proteins.
1 Q64336 (/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 O95936 (/IDA)
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 O54839 (/ISO)
Molecular function regulator GO:0098772
A molecular function that modulates the activity of a gene product or complex. Examples include enzyme regulators and channel regulators.
1 O54839 (/TAS)

There are 60 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
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.).
16 Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS) Q16650 (/TAS)
(6 more)
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.
16 Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA)
(6 more)
Endoderm formation GO:0001706
The formation of the endoderm during gastrulation.
3 O54839 (/IMP) Q98TU2 (/IMP) Q9DDU3 (/IMP)
Endodermal cell fate specification GO:0001714
The cell fate determination process that results in a cell becoming capable of differentiating autonomously into an endoderm cell in an environment that is neutral with respect to the developmental pathway; upon specification, the cell fate can be reversed.
3 O54839 (/IMP) Q98TU2 (/IMP) Q9DDU3 (/IMP)
Endoderm formation GO:0001706
The formation of the endoderm during gastrulation.
2 Q98TU2 (/IGI) Q9DDU3 (/IGI)
Endoderm formation GO:0001706
The formation of the endoderm during gastrulation.
2 O95936 (/ISS) P79944 (/ISS)
Mesoderm formation GO:0001707
The process that gives rise to the mesoderm. This process pertains to the initial formation of the structure from unspecified parts.
2 O95936 (/ISS) P79944 (/ISS)
Regulation of transcription, DNA-templated GO:0006355
Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
2 Q98TU2 (/IMP) Q9DDU3 (/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.
2 O54839 (/IMP) Q64336 (/IMP)
Neuron differentiation GO:0030182
The process in which a relatively unspecialized cell acquires specialized features of a neuron.
2 O54839 (/IMP) Q64336 (/IMP)
Cell migration involved in gastrulation GO:0042074
The migration of individual cells within the blastocyst to help establish the multi-layered body plan of the organism (gastrulation). For example, the migration of cells from the surface to the interior of the embryo (ingression).
2 Q98TU2 (/IMP) Q9DDU3 (/IMP)
Positive regulation of transcription, DNA-templated GO:0045893
Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
2 O54839 (/ISS) O95936 (/ISS)
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 O95936 (/IDA) Q64336 (/IDA)
Determination of dorsal identity GO:0048263
Determination of the identity of part of an organism or organ where those parts are of the type that occur in the dorsal region. Identity is considered to be the aggregate of characteristics by which a structure is recognized.
2 Q98TU2 (/IMP) Q9DDU3 (/IMP)
Mesendoderm development GO:0048382
The process whose specific outcome is the progression of the mesendoderm over time, from its formation to the mature structure. In animal embryos, mesendoderm development gives rise to both mesoderm and endoderm tissues.
2 Q98TU2 (/IGI) Q9DDU3 (/IGI)
Invagination involved in gastrulation with mouth forming second GO:0055109
The infolding of the epithelial sheet into the embryo involved in deuterostomic gastrulation.
2 Q98TU2 (/IMP) Q9DDU3 (/IMP)
Epiboly GO:0090504
The expansion of one cell sheet over other cells or yolk.
2 Q98TU2 (/IMP) Q9DDU3 (/IMP)
Epiboly GO:0090504
The expansion of one cell sheet over other cells or yolk.
2 Q98TU2 (/TAS) Q9DDU3 (/TAS)
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 O54839 (/IDA)
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 O95936 (/ISS)
Conditioned taste aversion GO:0001661
A conditioned aversion to a specific chemical compound as a result of that compound being coupled with a noxious stimulus.
1 Q64336 (/IMP)
Mesoderm formation GO:0001707
The process that gives rise to the mesoderm. This process pertains to the initial formation of the structure from unspecified parts.
1 O54839 (/IMP)
Blastocyst development GO:0001824
The process whose specific outcome is the progression of the blastocyst over time, from its formation to the mature structure. The mammalian blastocyst is a hollow ball of cells containing two cell types, the inner cell mass and the trophectoderm.
1 O54839 (/IMP)
Trophectodermal cell differentiation GO:0001829
The process in which a relatively unspecialized cell acquires the specialized features of a trophectoderm cell.
1 O54839 (/IDA)
Trophectodermal cell differentiation GO:0001829
The process in which a relatively unspecialized cell acquires the specialized features of a trophectoderm cell.
1 O54839 (/IGI)
CD8-positive, alpha-beta T cell differentiation involved in immune response GO:0002302
The process in which an antigenically naive CD8-positive, alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell as part of an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells.
1 O54839 (/IDA)
CD8-positive, alpha-beta T cell differentiation involved in immune response GO:0002302
The process in which an antigenically naive CD8-positive, alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell as part of an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells.
1 O95936 (/IMP)
CD8-positive, alpha-beta T cell differentiation involved in immune response GO:0002302
The process in which an antigenically naive CD8-positive, alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell as part of an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells.
1 O54839 (/ISO)
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 O54839 (/IDA)
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.).
1 O95936 (/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.).
1 O54839 (/ISO)
Endoderm development GO:0007492
The process whose specific outcome is the progression of the endoderm over time, from its formation to the mature structure. The endoderm is the innermost germ layer that develops into the gastrointestinal tract, the lungs and associated tissues.
1 O54839 (/IMP)
Anatomical structure morphogenesis GO:0009653
The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form.
1 O54839 (/IMP)
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 O54839 (/IMP)
Specification of animal organ identity GO:0010092
The regionalization process in which the identity of an animal organ primordium is specified. Identity is considered to be the aggregate of characteristics by which a structure is recognized.
1 Q64336 (/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 E8Z504 (/IMP)
Regulation of neuron projection development GO:0010975
Any process that modulates the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites).
1 Q64336 (/IMP)
Stem cell population maintenance GO:0019827
The process by which an organism or tissue maintains a population of stem cells of a single type. This can be achieved by a number of mechanisms: stem cell asymmetric division maintains stem cell numbers; stem cell symmetric division increases them; maintenance of a stem cell niche maintains the conditions for commitment to the stem cell fate for some types of stem cell; stem cells may arise de novo from other cell types.
1 O54839 (/IMP)
Amygdala development GO:0021764
The progression of the amygdala over time from its initial formation until its mature state. The amygdala is an almond-shaped set of neurons in the medial temporal lobe of the brain that play a key role in processing emotions such as fear and pleasure.
1 Q64336 (/IMP)
Olfactory bulb development GO:0021772
The progression of the olfactory bulb over time from its initial formation until its mature state. The olfactory bulb coordinates neuronal signaling involved in the perception of smell. It receives input from the sensory neurons and outputs to the olfactory cortex.
1 O54839 (/IMP)
Cerebral cortex regionalization GO:0021796
The regionalization process that results in the creation of areas within the cerebral cortex that will direct the behavior of cell migration and differentiation as the cortex develops.
1 O54839 (/IMP)
Cerebral cortex neuron differentiation GO:0021895
The process in which a relatively unspecialized cell acquires specialized features of a neuron residing in the cerebral cortex.
1 O54839 (/IDA)
Commitment of neuronal cell to specific neuron type in forebrain GO:0021902
The commitment of neuronal precursor cells to become specialized types of neurons in the forebrain.
1 Q64336 (/IGI)
Cerebral cortex development GO:0021987
The progression of the cerebral cortex over time from its initial formation until its mature state. The cerebral cortex is the outer layered region of the telencephalon.
1 D4A6N8 (/IEP)
Neurogenesis GO:0022008
Generation of cells within the nervous system.
1 O54839 (/IMP)
Cell differentiation GO:0030154
The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
1 O54839 (/IMP)
Hindbrain development GO:0030902
The process whose specific outcome is the progression of the hindbrain over time, from its formation to the mature structure. The hindbrain is the posterior of the three primary divisions of the developing chordate brain, or the corresponding part of the adult brain (in vertebrates, includes the cerebellum, pons, and medulla oblongata and controls the autonomic functions and equilibrium).
1 Q64336 (/IMP)
Interferon-gamma production GO:0032609
The appearance of interferon-gamma due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Interferon-gamma is also known as type II interferon.
1 O54839 (/IDA)
Skeletal muscle cell differentiation GO:0035914
The process in which a relatively unspecialized cell acquires specialized features of a skeletal muscle cell, a somatic cell located in skeletal muscle.
1 O54839 (/IMP)
Negative regulation of DNA-binding transcription factor activity GO:0043433
Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription.
1 O54839 (/IDA)
Negative regulation of DNA-binding transcription factor activity GO:0043433
Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription.
1 O95936 (/ISS)
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 P79944 (/IDA)
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 Q64336 (/IGI)
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 O54839 (/ISO)
Mesendoderm development GO:0048382
The process whose specific outcome is the progression of the mesendoderm over time, from its formation to the mature structure. In animal embryos, mesendoderm development gives rise to both mesoderm and endoderm tissues.
1 O54839 (/IMP)
Cell differentiation involved in embryonic placenta development GO:0060706
The process in which a relatively unspecialized cell acquires specialized features of the embryonic placenta.
1 O54839 (/IMP)
Cell differentiation involved in embryonic placenta development GO:0060706
The process in which a relatively unspecialized cell acquires specialized features of the embryonic placenta.
1 O95936 (/ISS)
Mesodermal to mesenchymal transition involved in gastrulation GO:0060809
The epithelial to mesenchymal transition process in which a mesodermal cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell as part of the process of gastrulation.
1 O54839 (/IMP)
Mesodermal to mesenchymal transition involved in gastrulation GO:0060809
The epithelial to mesenchymal transition process in which a mesodermal cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell as part of the process of gastrulation.
1 O95936 (/ISS)
Regulation of axon guidance GO:1902667
Any process that modulates the frequency, rate or extent of axon guidance.
1 Q64336 (/IMP)

There are 4 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.
21 D4A6N8 (/IDA) O54839 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA) Q16650 (/IDA)
(11 more)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
2 Q98TU2 (/IDA) Q9DDU3 (/IDA)
Nuclear chromatin GO:0000790
The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus.
1 O54839 (/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.
1 Q64336 (/ISO)
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