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
".
FunFam 29: Homeobox protein Hox-D4
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 18 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.
|
20 |
P09016 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
P09017 (/ISA)
(10 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.
|
20 |
P09016 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
P09017 (/ISM)
(10 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.
|
20 |
P09016 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
P09017 (/NAS)
(10 more) |
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.
|
18 |
P09016 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
(8 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).
|
18 |
P07548 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
P09017 (/IPI)
(8 more) |
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.
|
17 |
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
(7 more) |
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 | P10628 (/ISO) Q08624 (/ISO) |
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
|
2 | P07548 (/IDA) P10284 (/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.
|
1 | P07548 (/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.
|
1 | P09016 (/IMP) |
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 | P10628 (/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.
|
1 | Q08624 (/ISO) |
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 | P07548 (/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.
|
1 | P09016 (/IMP) |
DNA binding GO:0003677
Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
|
1 | P06798 (/TAS) |
Activating transcription factor binding GO:0033613
Interacting selectively and non-covalently with an activating transcription factor, any protein whose activity is required to initiate or upregulate transcription.
|
1 | P07548 (/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.
|
1 | P07548 (/IDA) |
HMG box domain binding GO:0071837
Interacting selectively and non-covalently with an HMG box domain, a protein domain that consists of three helices in an irregular array. HMG-box domains are found in one or more copies in HMG-box proteins, which form a large, diverse family involved in the regulation of DNA-dependent processes such as transcription, replication, and strand repair, all of which require the bending and unwinding of chromatin.
|
1 | Q08624 (/IPI) |
There are 40 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 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.
|
20 |
P07548 (/IDA)
P09016 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
P09017 (/IDA)
(10 more) |
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.
|
3 | P06798 (/IGI) P10284 (/IGI) P10628 (/IGI) |
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.
|
3 | P06798 (/IMP) P10628 (/IMP) Q08624 (/IMP) |
Positive regulation of transcription by RNA polymerase II GO:0045944
Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
|
3 | P10284 (/ISO) P10628 (/ISO) Q08624 (/ISO) |
Embryonic skeletal system morphogenesis GO:0048704
The process in which the anatomical structures of the skeleton are generated and organized during the embryonic phase.
|
3 | P06798 (/IGI) P10284 (/IGI) P10628 (/IGI) |
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 | P07548 (/IDA) P10284 (/IDA) |
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 | P06798 (/IMP) P10628 (/IMP) |
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).
|
1 | Q08624 (/IMP) |
Angiogenesis GO:0001525
Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels.
|
1 | O57374 (/IMP) |
Vasculogenesis GO:0001570
The differentiation of endothelial cells from progenitor cells during blood vessel development, and the de novo formation of blood vessels and tubes.
|
1 | O57374 (/IMP) |
Morphogenesis of an epithelial sheet GO:0002011
The process in which the anatomical structures of an epithelial sheet are generated and organized. An epithelial sheet is a flat surface consisting of closely packed epithelial cells.
|
1 | P10284 (/IGI) |
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).
|
1 | P06798 (/IDA) |
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).
|
1 | P09016 (/NAS) |
Specification of segmental identity, head GO:0007380
The specification of the characteristic structures of the head segments following establishment of segment boundaries. Identity is considered to be the aggregate of characteristics by which a structure is recognized.
|
1 | P07548 (/IMP) |
Cell population proliferation GO:0008283
The multiplication or reproduction of cells, resulting in the expansion of a cell population.
|
1 | P10284 (/IMP) |
Anatomical structure morphogenesis GO:0009653
The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form.
|
1 | Q00056 (/TAS) |
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.
|
1 | P07548 (/IMP) |
Hemopoiesis GO:0030097
The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates.
|
1 | P10284 (/IMP) |
Posterior head segmentation GO:0035289
Partitioning the posterior region of the insect head anlage into gnathal (mandibular, maxillary and labial) segments. Unlike the anterior head (procephalic) segments, formation of the posterior head (gnathal) segments occurs by a similar mechanism to trunk segmentation, where a cascade of gap genes, pair-rule genes and segment-polarity genes subdivide the embryo into progressively smaller domains.
|
1 | P07548 (/IMP) |
Somatic stem cell division GO:0048103
The self-renewing division of a somatic stem cell, a stem cell that can give rise to cell types of the body other than those of the germ-line.
|
1 | P10284 (/IDA) |
Spleen development GO:0048536
The process whose specific outcome is the progression of the spleen over time, from its formation to the mature structure. The spleen is a large vascular lymphatic organ composed of white and red pulp, involved both in hemopoietic and immune system functions.
|
1 | P10284 (/IMP) |
Bone marrow development GO:0048539
The process whose specific outcome is the progression of the bone marrow over time, from its formation to the mature structure.
|
1 | P10284 (/IMP) |
Embryonic organ morphogenesis GO:0048562
Morphogenesis, during the embryonic phase, of a tissue or tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions.
|
1 | Q08624 (/IMP) |
Skeletal system morphogenesis GO:0048705
The process in which the anatomical structures of the skeleton are generated and organized.
|
1 | P10284 (/IGI) |
Skeletal system morphogenesis GO:0048705
The process in which the anatomical structures of the skeleton are generated and organized.
|
1 | P10284 (/IMP) |
Stem cell differentiation GO:0048863
The process in which a relatively unspecialized cell acquires specialized features of a stem cell. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells.
|
1 | P10628 (/IDA) |
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.
|
1 | Q08624 (/IMP) |
Primitive hemopoiesis GO:0060215
A first transient wave of blood cell production that, in vertebrates, gives rise to erythrocytes (red blood cells) and myeloid cells.
|
1 | O57374 (/IMP) |
Definitive hemopoiesis GO:0060216
A second wave of blood cell production that, in vertebrates, generates long-term hemopoietic stem cells that continously provide erythroid, myeloid and lymphoid lineages throughout adulthood.
|
1 | P10284 (/IGI) |
Definitive hemopoiesis GO:0060216
A second wave of blood cell production that, in vertebrates, generates long-term hemopoietic stem cells that continously provide erythroid, myeloid and lymphoid lineages throughout adulthood.
|
1 | O57374 (/IMP) |
Hematopoietic stem cell differentiation GO:0060218
The process in which a relatively unspecialized cell acquires specialized features of a hematopoietic stem cell. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells.
|
1 | P17483 (/IDA) |
Hematopoietic stem cell differentiation GO:0060218
The process in which a relatively unspecialized cell acquires specialized features of a hematopoietic stem cell. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells.
|
1 | P10284 (/ISO) |
Head development GO:0060322
The biological process whose specific outcome is the progression of a head from an initial condition to its mature state. The head is the anterior-most division of the body.
|
1 | P07548 (/IMP) |
Head morphogenesis GO:0060323
The process in which the anatomical structures of the head are generated and organized. The head is the anterior-most division of the body.
|
1 | P07548 (/IMP) |
Positive regulation of apoptotic process involved in morphogenesis GO:1902339
Any process that activates or increases the frequency, rate or extent of apoptotic process involved in morphogenesis.
|
1 | P07548 (/IGI) |
Positive regulation of apoptotic process involved in morphogenesis GO:1902339
Any process that activates or increases the frequency, rate or extent of apoptotic process involved in morphogenesis.
|
1 | P07548 (/IMP) |
Positive regulation of male germ-line stem cell asymmetric division GO:1904840
Any process that activates or increases the frequency, rate or extent of male germ-line stem cell asymmetric division.
|
1 | Q08624 (/ISO) |
Embryonic brain development GO:1990403
The process occurring during the embryonic phase whose specific outcome is the progression of the brain over time, from its formation to the mature structure.
|
1 | P07548 (/IMP) |
Positive regulation of stem cell differentiation GO:2000738
Any process that activates or increases the frequency, rate or extent of stem cell differentiation.
|
1 | P17483 (/IDA) |
Positive regulation of stem cell differentiation GO:2000738
Any process that activates or increases the frequency, rate or extent of stem cell differentiation.
|
1 | P10284 (/ISO) |
There are 11 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.
|
37 |
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
A0A024RB51 (/IDA)
(27 more) |
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
|
4 | P06798 (/TAS) P10284 (/TAS) P10628 (/TAS) Q08624 (/TAS) |
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.
|
3 | P10284 (/ISO) P10628 (/ISO) Q08624 (/ISO) |
Nuclear body GO:0016604
Extra-nucleolar nuclear domains usually visualized by confocal microscopy and fluorescent antibodies to specific proteins.
|
2 | H0YHX3 (/IDA) Q00056 (/IDA) |
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
|
1 | P09016 (/IDA) |
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
|
1 | P10628 (/ISO) |
Centrosome GO:0005813
A structure comprised of a core structure (in most organisms, a pair of centrioles) and peripheral material from which a microtubule-based structure, such as a spindle apparatus, is organized. Centrosomes occur close to the nucleus during interphase in many eukaryotic cells, though in animal cells it changes continually during the cell-division cycle.
|
1 | P17483 (/IDA) |
Centrosome GO:0005813
A structure comprised of a core structure (in most organisms, a pair of centrioles) and peripheral material from which a microtubule-based structure, such as a spindle apparatus, is organized. Centrosomes occur close to the nucleus during interphase in many eukaryotic cells, though in animal cells it changes continually during the cell-division cycle.
|
1 | P10284 (/ISO) |
Nuclear body GO:0016604
Extra-nucleolar nuclear domains usually visualized by confocal microscopy and fluorescent antibodies to specific proteins.
|
1 | P06798 (/ISO) |
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.
|
1 | P09016 (/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.
|
1 | P10628 (/ISO) |