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:

"
lambda repressor-like DNA-binding domains
".

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 4: Cut-like homeobox 1a

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
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.
22 E2R1M2 (/ISS) E2R1M2 (/ISS) F1MT17 (/ISS) F1MT17 (/ISS) G3H295 (/ISS) G3H295 (/ISS) H0XRD4 (/ISS) H0XRD4 (/ISS) H2QV57 (/ISS) H2QV57 (/ISS)
(12 more)
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 O14529 (/IDA) O14529 (/IDA) P39880 (/IDA) P39880 (/IDA) P53564 (/IDA) P53564 (/IDA)
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.
4 P53564 (/IMP) P53564 (/IMP) P70298 (/IMP) P70298 (/IMP)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
4 P53564 (/IDA) P53564 (/IDA) P70298 (/IDA) P70298 (/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.
2 P70298 (/IDA) P70298 (/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 O14529 (/ISA) O14529 (/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.
2 O14529 (/ISM) O14529 (/ISM)
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 O14529 (/NAS) O14529 (/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.
2 P70298 (/IDA) P70298 (/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 P53564 (/IDA) P53564 (/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.
2 P53564 (/IDA) P53564 (/IDA)
Protein binding, bridging GO:0030674
The binding activity of a molecule that brings together two or more protein molecules, or a protein and another macromolecule or complex, through a selective, non-covalent, often stoichiometric interaction, permitting those molecules to function in a coordinated way.
2 P53565 (/IPI) P53565 (/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.
2 P70298 (/ISO) P70298 (/ISO)
Sequence-specific double-stranded DNA binding GO:1990837
Interacting selectively and non-covalently with double-stranded 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.
2 P53564 (/IDA) P53564 (/IDA)
Transcription regulatory region sequence-specific DNA binding GO:0000976
Interacting selectively and non-covalently with a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. The transcribed region might be described as a gene, cistron, or operon.
1 P10180 (/IDA)
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
1 P10180 (/TAS)

There are 46 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 dendrite morphogenesis GO:0050775
Any process that activates or increases the frequency, rate or extent of dendrite morphogenesis.
22 E2R1M2 (/ISS) E2R1M2 (/ISS) F1MT17 (/ISS) F1MT17 (/ISS) G3H295 (/ISS) G3H295 (/ISS) H0XRD4 (/ISS) H0XRD4 (/ISS) H2QV57 (/ISS) H2QV57 (/ISS)
(12 more)
Short-term memory GO:0007614
The memory process that deals with the storage, retrieval and modification of information received a short time (up to about 30 minutes) ago. This type of memory is typically dependent on direct, transient effects of second messenger activation.
18 E2R1M2 (/ISS) E2R1M2 (/ISS) F1MT17 (/ISS) F1MT17 (/ISS) G3H295 (/ISS) G3H295 (/ISS) H0XRD4 (/ISS) H0XRD4 (/ISS) I2CUC6 (/ISS) I2CUC6 (/ISS)
(8 more)
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.
18 E2R1M2 (/ISS) E2R1M2 (/ISS) F1MT17 (/ISS) F1MT17 (/ISS) G3H295 (/ISS) G3H295 (/ISS) H0XRD4 (/ISS) H0XRD4 (/ISS) I2CUC6 (/ISS) I2CUC6 (/ISS)
(8 more)
Positive regulation of synapse assembly GO:0051965
Any process that activates, maintains or increases the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse.
18 E2R1M2 (/ISS) E2R1M2 (/ISS) F1MT17 (/ISS) F1MT17 (/ISS) G3H295 (/ISS) G3H295 (/ISS) H0XRD4 (/ISS) H0XRD4 (/ISS) I2CUC6 (/ISS) I2CUC6 (/ISS)
(8 more)
Positive regulation of dendritic spine morphogenesis GO:0061003
Any process that increases the rate, frequency, or extent of dendritic spine morphogenesis, the process in which the anatomical structures of a dendritic spine are generated and organized. A dendritic spine is a protrusion from a dendrite and a specialized subcellular compartment involved in synaptic transmission.
18 E2R1M2 (/ISS) E2R1M2 (/ISS) F1MT17 (/ISS) F1MT17 (/ISS) G3H295 (/ISS) G3H295 (/ISS) H0XRD4 (/ISS) H0XRD4 (/ISS) I2CUC6 (/ISS) I2CUC6 (/ISS)
(8 more)
Positive regulation of excitatory postsynaptic potential GO:2000463
Any process that enhances the establishment or increases the extent of the excitatory postsynaptic potential (EPSP) which is a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential.
18 E2R1M2 (/ISS) E2R1M2 (/ISS) F1MT17 (/ISS) F1MT17 (/ISS) G3H295 (/ISS) G3H295 (/ISS) H0XRD4 (/ISS) H0XRD4 (/ISS) I2CUC6 (/ISS) I2CUC6 (/ISS)
(8 more)
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.
6 O14529 (/IDA) O14529 (/IDA) P53564 (/IDA) P53564 (/IDA) P70298 (/IDA) P70298 (/IDA)
Positive regulation of dendrite morphogenesis GO:0050775
Any process that activates or increases the frequency, rate or extent of dendrite morphogenesis.
4 P53564 (/IMP) P53564 (/IMP) P70298 (/IMP) P70298 (/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.
2 P70298 (/ISO) P70298 (/ISO)
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.
2 P39880 (/TAS) P39880 (/TAS)
Retrograde transport, vesicle recycling within Golgi GO:0000301
The retrograde movement of substances within the Golgi, mediated by COP I vesicles. Cis-Golgi vesicles are constantly moving forward through the Golgi stack by cisternal progression, eventually becoming trans-Golgi vesicles. They then selectively transport membrane and luminal proteins from the trans- to the medial-Golgi while leaving others behind in the trans-Golgi cisternae; similarly, they selectively move proteins from the medial- to the cis-Golgi.
2 P53565 (/IMP) P53565 (/IMP)
Kidney development GO:0001822
The process whose specific outcome is the progression of the kidney over time, from its formation to the mature structure. The kidney is an organ that filters the blood and/or excretes the end products of body metabolism in the form of urine.
2 P53564 (/IGI) P53564 (/IGI)
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.
2 P39880 (/TAS) P39880 (/TAS)
Multicellular organism development GO:0007275
The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
2 P39880 (/TAS) P39880 (/TAS)
Short-term memory GO:0007614
The memory process that deals with the storage, retrieval and modification of information received a short time (up to about 30 minutes) ago. This type of memory is typically dependent on direct, transient effects of second messenger activation.
2 P70298 (/IMP) P70298 (/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.
2 P70298 (/IMP) P70298 (/IMP)
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 P53564 (/IMP) P53564 (/IMP)
Inner ear auditory receptor cell differentiation GO:0042491
The process in which a relatively unspecialized inner cell acquires specialized features of an auditory hair cell.
2 P53564 (/IMP) P53564 (/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.
2 P70298 (/IDA) P70298 (/IDA)
Cognition GO:0050890
The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory.
2 O14529 (/IMP) O14529 (/IMP)
Cognition GO:0050890
The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory.
2 P70298 (/ISO) P70298 (/ISO)
Positive regulation of synapse assembly GO:0051965
Any process that activates, maintains or increases the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse.
2 P70298 (/IMP) P70298 (/IMP)
Positive regulation of dendritic spine morphogenesis GO:0061003
Any process that increases the rate, frequency, or extent of dendritic spine morphogenesis, the process in which the anatomical structures of a dendritic spine are generated and organized. A dendritic spine is a protrusion from a dendrite and a specialized subcellular compartment involved in synaptic transmission.
2 P70298 (/IMP) P70298 (/IMP)
Cellular response to organic substance GO:0071310
Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus.
2 P70298 (/IDA) P70298 (/IDA)
Positive regulation of excitatory postsynaptic potential GO:2000463
Any process that enhances the establishment or increases the extent of the excitatory postsynaptic potential (EPSP) which is a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential.
2 P70298 (/IMP) P70298 (/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 P10180 (/IMP)
Regulation of transcription, DNA-templated GO:0006355
Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
1 P10180 (/IMP)
Central nervous system development GO:0007417
The process whose specific outcome is the progression of the central nervous system over time, from its formation to the mature structure. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain and spinal cord. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord.
1 P10180 (/TAS)
Peripheral nervous system development GO:0007422
The process whose specific outcome is the progression of the peripheral nervous system over time, from its formation to the mature structure. The peripheral nervous system is one of the two major divisions of the nervous system. Nerves in the PNS connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands.
1 P10180 (/TAS)
Open tracheal system development GO:0007424
The process whose specific outcome is the progression of an open tracheal system over time, from its formation to the mature structure. An open tracheal system is a respiratory system, a branched network of epithelial tubes that supplies oxygen to target tissues via spiracles. An example of this is found in Drosophila melanogaster.
1 P10180 (/TAS)
Malpighian tubule morphogenesis GO:0007443
The process in which the anatomical structures of the Malpighian tubule are generated and organized. This process takes place entirely during the embryonic phase. A Malpighian tubule is a fine, thin-walled excretory tubule in insects which leads into the posterior part of the gut.
1 P10180 (/TAS)
Antennal development GO:0007469
The process whose specific outcome is the progression of the antenna over time, from its formation to the mature structure. The antenna are the sensory structures on the head that are capable of detecting various environmental stimuli.
1 P10180 (/IEP)
Antennal development GO:0007469
The process whose specific outcome is the progression of the antenna over time, from its formation to the mature structure. The antenna are the sensory structures on the head that are capable of detecting various environmental stimuli.
1 P10180 (/IMP)
Sensory perception of sound GO:0007605
The series of events required for an organism to receive an auditory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Sonic stimuli are detected in the form of vibrations and are processed to form a sound.
1 P10180 (/IMP)
Female gonad development GO:0008585
The process whose specific outcome is the progression of the female gonad over time, from its formation to the mature structure.
1 P10180 (/TAS)
Imaginal disc-derived wing margin morphogenesis GO:0008587
The process in which the anatomical structures of the imaginal disc-derived wing margin are generated and organized. The wing margin is a strip of cells in the third instar disc at the boundary between the presumptive dorsal and ventral surfaces of the wing blade.
1 P10180 (/IMP)
Ovarian follicle cell stalk formation GO:0030713
Development of ovarian follicle cells to create the interfollicular stalks that connect the egg chambers of progressive developmental stages. An example of this process is found in Drosophila melanogaster.
1 P10180 (/TAS)
Spiracle morphogenesis, open tracheal system GO:0035277
The process in which the anatomical structures of a spiracle are generated and organized. Spiracles are the openings in the insect open tracheal system; externally they connect to the epidermis and internally they connect to the tracheal trunk.
1 P10180 (/IMP)
Antennal joint development GO:0048098
The process whose specific outcome is the progression of the antennal joint over time, from its formation to the mature structure. The antennal joint is the joint between antennal segments.
1 P10180 (/IMP)
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 P10180 (/IMP)
Dendrite morphogenesis GO:0048813
The process in which the anatomical structures of a dendrite are generated and organized.
1 P10180 (/IGI)
Dendrite morphogenesis GO:0048813
The process in which the anatomical structures of a dendrite are generated and organized.
1 P10180 (/IMP)
Dendrite morphogenesis GO:0048813
The process in which the anatomical structures of a dendrite are generated and organized.
1 P10180 (/TAS)
Formation of a compartment boundary GO:0060288
Formation of a lineage restriction boundary within a developing tissue which does not correspond to some morphological barrier.
1 P10180 (/IMP)
Malpighian tubule bud morphogenesis GO:0061332
The morphogenetic process in which a bud forms from the embryonic hindgut tube to form the Malpighian tubule. A bud is a protrusion that forms from the tube by localized changes in cell shape and position.
1 P10180 (/IGI)
Dendrite guidance GO:0070983
The process in which the migration of a dendrite is directed to a specific target site in response to a combination of attractive and repulsive cues.
1 P10180 (/IMP)

There are 9 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.
9 O14529 (/IDA) O14529 (/IDA) P10180 (/IDA) P39880 (/IDA) P39880 (/IDA) P53564 (/IDA) P53564 (/IDA) P70298 (/IDA) P70298 (/IDA)
Golgi membrane GO:0000139
The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
2 P53565 (/IDA) P53565 (/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.
2 P70298 (/ISO) P70298 (/ISO)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
2 P39880 (/IDA) P39880 (/IDA)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
2 P53564 (/IDA) P53564 (/IDA)
Golgi apparatus GO:0005794
A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
2 P39880 (/IDA) P39880 (/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.
2 P39880 (/TAS) P39880 (/TAS)
Neuron projection GO:0043005
A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
2 P53564 (/IDA) P53564 (/IDA)
Extracellular exosome GO:0070062
A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
2 O14529 (/HDA) O14529 (/HDA)
CATH-Gene3D is a Global Biodata Core Resource Learn more...