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:

"
Histone RNA hairpin-binding protein RNA-binding domain
".

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 1: Histone RNA hairpin-binding protein-like

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 13 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
MRNA binding GO:0003729
Interacting selectively and non-covalently with messenger RNA (mRNA), an intermediate molecule between DNA and protein. mRNA includes UTR and coding sequences, but does not contain introns.
7 P97440 (/IDA) P97440 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q57ZC0 (/IDA) Q57ZC0 (/IDA)
Protein binding GO:0005515
Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
4 Q14493 (/IPI) Q14493 (/IPI) Q14493 (/IPI) Q9VAN6 (/IPI)
RNA binding GO:0003723
Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
3 Q14493 (/HDA) Q14493 (/HDA) Q14493 (/HDA)
Identical protein binding GO:0042802
Interacting selectively and non-covalently with an identical protein or proteins.
3 Q14493 (/IPI) Q14493 (/IPI) Q14493 (/IPI)
Histone pre-mRNA stem-loop binding GO:0071207
Interacting selectively and non-covalently with a conserved stem-loop structure found in histone pre-mRNAs.
3 Q14493 (/ISS) Q14493 (/ISS) Q14493 (/ISS)
Histone pre-mRNA DCP binding GO:0071208
Interacting selectively and non-covalently with the downstream cleavage product (DCP) generated by histone pre-mRNA 3'-end processing.
3 Q14493 (/ISS) Q14493 (/ISS) Q14493 (/ISS)
MRNA binding GO:0003729
Interacting selectively and non-covalently with messenger RNA (mRNA), an intermediate molecule between DNA and protein. mRNA includes UTR and coding sequences, but does not contain introns.
2 P97440 (/ISO) P97440 (/ISO)
Identical protein binding GO:0042802
Interacting selectively and non-covalently with an identical protein or proteins.
2 P97440 (/ISO) P97440 (/ISO)
Histone pre-mRNA stem-loop binding GO:0071207
Interacting selectively and non-covalently with a conserved stem-loop structure found in histone pre-mRNAs.
2 P97440 (/IDA) P97440 (/IDA)
MRNA 3'-UTR binding GO:0003730
Interacting selectively and non-covalently with the 3' untranslated region of an mRNA molecule.
1 Q09599 (/IDA)
RNA stem-loop binding GO:0035613
Interacting selectively and non-covalently with a stem-loop in an RNA molecule. An RNA stem-loop is a secondary RNA structure consisting of a double-stranded RNA (dsRNA) stem and a terminal loop.
1 Q9VAN6 (/IDA)
RNA stem-loop binding GO:0035613
Interacting selectively and non-covalently with a stem-loop in an RNA molecule. An RNA stem-loop is a secondary RNA structure consisting of a double-stranded RNA (dsRNA) stem and a terminal loop.
1 Q9VAN6 (/IMP)
Sequence-specific mRNA binding GO:1990825
Interacting selectively and non-covalently with messenger RNA (mRNA) of a specific nucleotide composition or a specific sequence motif.
1 Q9VAN6 (/IMP)

There are 22 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
Neural retina development GO:0003407
The progression of the neural retina over time from its initial formation to the mature structure. The neural retina is the part of the retina that contains neurons and photoreceptor cells.
3 A0A0R4IVR7 (/IMP) A0A0R4IZV7 (/IMP) Q7SXI8 (/IMP)
Termination of RNA polymerase II transcription GO:0006369
The process in which the synthesis of an RNA molecule by RNA polymerase II using a DNA template is completed.
3 Q14493 (/TAS) Q14493 (/TAS) Q14493 (/TAS)
MRNA 3'-end processing by stem-loop binding and cleavage GO:0006398
Any mRNA 3'-end processing that involves the binding to and cleavage of a stem-loop structure. For example, histone mRNAs contain a highly conserved stem-loop sequence at the 3' end of the mRNA with a 6 base pairs (bp) stem and a 4-nt loop. The mRNA is cleaved between these two elements, after the fourth or fifth nucleotide, which is typically an adenosine.
3 P97440 (/IDA) P97440 (/IDA) Q9VAN6 (/IDA)
MRNA 3'-end processing by stem-loop binding and cleavage GO:0006398
Any mRNA 3'-end processing that involves the binding to and cleavage of a stem-loop structure. For example, histone mRNAs contain a highly conserved stem-loop sequence at the 3' end of the mRNA with a 6 base pairs (bp) stem and a 4-nt loop. The mRNA is cleaved between these two elements, after the fourth or fifth nucleotide, which is typically an adenosine.
3 Q14493 (/ISS) Q14493 (/ISS) Q14493 (/ISS)
MRNA export from nucleus GO:0006406
The directed movement of mRNA from the nucleus to the cytoplasm.
3 Q14493 (/TAS) Q14493 (/TAS) Q14493 (/TAS)
Histone mRNA metabolic process GO:0008334
The chemical reactions and pathways involving an mRNA encoding a histone.
3 Q14493 (/TAS) Q14493 (/TAS) Q14493 (/TAS)
Retinal ganglion cell axon guidance GO:0031290
The process in which the migration of an axon growth cone of a retinal ganglion cell (RGC) is directed to its target in the brain in response to a combination of attractive and repulsive cues.
3 A0A0R4IVR7 (/IMP) A0A0R4IZV7 (/IMP) Q7SXI8 (/IMP)
Nuclear DNA replication GO:0033260
The DNA-dependent DNA replication that occurs in the nucleus of eukaryotic organisms as part of the cell cycle.
3 Q14493 (/IMP) Q14493 (/IMP) Q14493 (/IMP)
Cell cycle phase transition GO:0044770
The cell cycle process by which a cell commits to entering the next cell cycle phase.
3 Q14493 (/IMP) Q14493 (/IMP) Q14493 (/IMP)
Photoreceptor cell differentiation GO:0046530
The specialization of organization of a photoreceptor, a cell that responds to incident electromagnetic radiation, particularly visible light. An example of this process is found in Drosophila melanogaster.
3 A0A0R4IVR7 (/IMP) A0A0R4IZV7 (/IMP) Q7SXI8 (/IMP)
MRNA transport GO:0051028
The directed movement of mRNA, messenger ribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
3 Q14493 (/IDA) Q14493 (/IDA) Q14493 (/IDA)
Mitotic chromosome condensation GO:0007076
The cell cycle process in which chromatin structure is compacted prior to and during mitosis in eukaryotic cells.
2 Q09599 (/IMP) Q9VAN6 (/IMP)
Posttranscriptional regulation of gene expression GO:0010608
Any process that modulates the frequency, rate or extent of gene expression after the production of an RNA transcript.
2 Q57ZC0 (/IDA) Q57ZC0 (/IDA)
Nuclear DNA replication GO:0033260
The DNA-dependent DNA replication that occurs in the nucleus of eukaryotic organisms as part of the cell cycle.
2 P97440 (/ISO) P97440 (/ISO)
Nuclear DNA replication GO:0033260
The DNA-dependent DNA replication that occurs in the nucleus of eukaryotic organisms as part of the cell cycle.
2 P97440 (/ISS) P97440 (/ISS)
Cell cycle phase transition GO:0044770
The cell cycle process by which a cell commits to entering the next cell cycle phase.
2 P97440 (/ISO) P97440 (/ISO)
Cell cycle phase transition GO:0044770
The cell cycle process by which a cell commits to entering the next cell cycle phase.
2 P97440 (/ISS) P97440 (/ISS)
MRNA transport GO:0051028
The directed movement of mRNA, messenger ribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
2 P97440 (/ISO) P97440 (/ISO)
MRNA transport GO:0051028
The directed movement of mRNA, messenger ribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
2 P97440 (/ISS) P97440 (/ISS)
MRNA 3'-end processing by stem-loop binding and cleavage GO:0006398
Any mRNA 3'-end processing that involves the binding to and cleavage of a stem-loop structure. For example, histone mRNAs contain a highly conserved stem-loop sequence at the 3' end of the mRNA with a 6 base pairs (bp) stem and a 4-nt loop. The mRNA is cleaved between these two elements, after the fourth or fifth nucleotide, which is typically an adenosine.
1 Q9VAN6 (/IMP)
Apoptotic process GO:0006915
A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
1 Q09599 (/IMP)
Embryo development ending in birth or egg hatching GO:0009792
The process whose specific outcome is the progression of an embryo over time, from zygote formation until the end of the embryonic life stage. The end of the embryonic life stage is organism-specific and may be somewhat arbitrary; for mammals it is usually considered to be birth, for insects the hatching of the first instar larva from the eggshell.
1 Q09599 (/IMP)

There are 18 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.
17 E7EUV9 (/IDA) E7EUV9 (/IDA) E7EUV9 (/IDA) F8W8D3 (/IDA) F8W8D3 (/IDA) H0YAE8 (/IDA) P97440 (/IDA) P97440 (/IDA) Q14493 (/IDA) Q14493 (/IDA)
(7 more)
Nucleolus GO:0005730
A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
12 E7EUV9 (/IDA) E7EUV9 (/IDA) E7EUV9 (/IDA) F8W8D3 (/IDA) F8W8D3 (/IDA) H0YAE8 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q53XR2 (/IDA)
(2 more)
Cytosol GO:0005829
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
12 E7EUV9 (/IDA) E7EUV9 (/IDA) E7EUV9 (/IDA) F8W8D3 (/IDA) F8W8D3 (/IDA) H0YAE8 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q53XR2 (/IDA)
(2 more)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
8 P97440 (/IDA) P97440 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q14493 (/IDA) Q57ZC0 (/IDA) Q57ZC0 (/IDA) Q9VAN6 (/IDA)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
3 Q14493 (/TAS) Q14493 (/TAS) Q14493 (/TAS)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
3 P97440 (/ISO) P97440 (/ISO) Q4Q9Q6 (/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.
3 Q14493 (/TAS) Q14493 (/TAS) Q14493 (/TAS)
Histone pre-mRNA 3'end processing complex GO:0071204
A ribonucleoprotein that binds to specific sites in, and is required for cleavage of, the 3'-end of histone pre-mRNAs. The complex contains the U7 snRNP and additional proteins, including the stem-loop binding protein (SLBP) and the exonuclease 3'hExo/Eri-1.
3 Q14493 (/ISS) Q14493 (/ISS) Q14493 (/ISS)
Ribonucleoprotein complex GO:1990904
A macromolecular complex containing both protein and RNA molecules.
3 Q14493 (/TAS) Q14493 (/TAS) Q14493 (/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.
2 P97440 (/ISO) P97440 (/ISO)
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 P97440 (/ISS) P97440 (/ISS)
Nucleolus GO:0005730
A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
2 P97440 (/ISO) P97440 (/ISO)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
2 P97440 (/ISS) P97440 (/ISS)
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 P97440 (/ISO) P97440 (/ISO)
Histone pre-mRNA 3'end processing complex GO:0071204
A ribonucleoprotein that binds to specific sites in, and is required for cleavage of, the 3'-end of histone pre-mRNAs. The complex contains the U7 snRNP and additional proteins, including the stem-loop binding protein (SLBP) and the exonuclease 3'hExo/Eri-1.
2 P97440 (/IDA) P97440 (/IDA)
Ribonucleoprotein complex GO:1990904
A macromolecular complex containing both protein and RNA molecules.
2 P97440 (/IDA) P97440 (/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 Q09599 (/TAS)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
1 Q09599 (/TAS)
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