CATH Superfamily 3.40.50.12390
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: waiting to be named.
FunFam 3: 5'-3' exoribonuclease
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 |
---|---|---|
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).
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7 | P40848 (/IPI) Q9DBR1 (/IPI) Q9FQ04 (/IPI) Q9FQ04 (/IPI) Q9FQ04 (/IPI) Q9H0D6 (/IPI) Q9U299 (/IPI) |
5'-3' exonuclease activity GO:0008409
Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 5' end.
|
7 | Q5R4L5 (/ISS) Q5ZIP4 (/ISS) Q60SG7 (/ISS) Q9DBR1 (/ISS) Q9U299 (/ISS) Q9VM71 (/ISS) Q9VM71 (/ISS) |
5'-3' exoribonuclease activity GO:0004534
Catalysis of the sequential cleavage of mononucleotides from a free 5' terminus of an RNA molecule.
|
4 | P40848 (/IDA) Q9FQ02 (/IDA) Q9FQ03 (/IDA) Q9U299 (/IDA) |
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.
|
3 | Q9FQ04 (/IDA) Q9FQ04 (/IDA) Q9FQ04 (/IDA) |
5'-3' exoribonuclease activity GO:0004534
Catalysis of the sequential cleavage of mononucleotides from a free 5' terminus of an RNA molecule.
|
3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Transcription termination site sequence-specific DNA binding GO:0001147
Interacting selectively and non-covalently with a sequence of DNA that promotes termination by RNA polymerase. The transcribed region might be described as a gene, cistron, or operon.
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2 | Q5R4L5 (/ISS) Q9DBR1 (/ISS) |
3'-5'-exoribonuclease activity GO:0000175
Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule.
|
1 | Q9H0D6 (/EXP) |
3'-5'-exoribonuclease activity GO:0000175
Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule.
|
1 | Q9DBR1 (/ISO) |
Transcription termination site sequence-specific DNA binding GO:0001147
Interacting selectively and non-covalently with a sequence of DNA that promotes termination by RNA polymerase. The transcribed region might be described as a gene, cistron, or operon.
|
1 | Q9H0D6 (/IDA) |
Transcription termination site sequence-specific DNA binding GO:0001147
Interacting selectively and non-covalently with a sequence of DNA that promotes termination by RNA polymerase. The transcribed region might be described as a gene, cistron, or operon.
|
1 | Q9DBR1 (/ISO) |
RNA binding GO:0003723
Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
|
1 | Q9H0D6 (/HDA) |
Nuclease activity GO:0004518
Catalysis of the hydrolysis of ester linkages within nucleic acids.
|
1 | Q9H0D6 (/TAS) |
Exonuclease activity GO:0004527
Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end.
|
1 | Q38AY4 (/ISM) |
5'-3' exoribonuclease activity GO:0004534
Catalysis of the sequential cleavage of mononucleotides from a free 5' terminus of an RNA molecule.
|
1 | Q9DBR1 (/NAS) |
5'-3' exoribonuclease activity GO:0004534
Catalysis of the sequential cleavage of mononucleotides from a free 5' terminus of an RNA molecule.
|
1 | Q9H0D6 (/TAS) |
5'-3' exonuclease activity GO:0008409
Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 5' end.
|
1 | Q9H0D6 (/IDA) |
5'-3' exonuclease activity GO:0008409
Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 5' end.
|
1 | Q9DBR1 (/ISO) |
Telomeric DNA binding GO:0042162
Interacting selectively and non-covalently with a telomere, a specific structure at the end of a linear chromosome required for the integrity and maintenance of the end.
|
1 | Q38AY4 (/IDA) |
There are 38 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 |
---|---|---|
DNA catabolic process, exonucleolytic GO:0000738
The chemical reactions and pathways resulting in the breakdown of DNA, involving the hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides.
|
7 | Q5R4L5 (/ISS) Q5ZIP4 (/ISS) Q60SG7 (/ISS) Q9DBR1 (/ISS) Q9U299 (/ISS) Q9VM71 (/ISS) Q9VM71 (/ISS) |
MiRNA catabolic process GO:0010587
The chemical reactions and pathways resulting in the breakdown of miRNA, microRNA, a class of single-stranded RNA molecules of about 21-23 nucleotides in length, which regulates gene expression.
|
6 | F4K1L3 (/IMP) Q9FQ02 (/IMP) Q9FQ03 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Nuclear-transcribed mRNA catabolic process, exonucleolytic GO:0000291
The chemical reactions and pathways resulting in the breakdown of the transcript body of a nuclear-transcribed mRNA that occurs when the ends are not protected by the 5'-cap or the 3'-poly(A) tail.
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3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
MRNA catabolic process GO:0006402
The chemical reactions and pathways resulting in the breakdown of mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes.
|
3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Unidimensional cell growth GO:0009826
The process in which a cell irreversibly increases in size in one
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3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Phloem or xylem histogenesis GO:0010087
The process whose specific outcome is the progression of phloem and/or xylem over time, from formation to the mature structure. An example of this process is found in Arabidopsis thaliana.
|
3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Heat acclimation GO:0010286
Any process that increases heat tolerance of an organism in response to high temperatures.
|
3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Deadenylation-independent decapping of nuclear-transcribed mRNA GO:0031087
Cleavage of the 5'-cap of a nuclear-transcribed mRNA that is independent of poly(A) tail shortening.
|
3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Regulation of gene expression, epigenetic GO:0040029
Any process that modulates the frequency, rate or extent of gene expression; the process is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence.
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3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Cell division GO:0051301
The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
|
3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
Cellular heat acclimation GO:0070370
Any process that increases heat tolerance of a cell in response to high temperatures.
|
3 | Q9FQ04 (/IEP) Q9FQ04 (/IEP) Q9FQ04 (/IEP) |
Cellular heat acclimation GO:0070370
Any process that increases heat tolerance of a cell in response to high temperatures.
|
3 | Q9FQ04 (/IMP) Q9FQ04 (/IMP) Q9FQ04 (/IMP) |
RRNA 5'-end processing GO:0000967
Any process involved in forming the mature 5' end of an rRNA molecule.
|
2 | Q9FQ02 (/IMP) Q9FQ03 (/IMP) |
Spermatogenesis GO:0007283
The process of formation of spermatozoa, including spermatocytogenesis and spermiogenesis.
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2 | Q9DBR1 (/IEP) Q9H0D6 (/IEP) |
Negative regulation of posttranscriptional gene silencing GO:0060149
Any process that decreases the frequency, rate or extent of the inactivation of gene expression by a posttranscriptional mechanism.
|
2 | Q9FQ02 (/IMP) Q9FQ03 (/IMP) |
Nuclear polyadenylation-dependent rRNA catabolic process GO:0071035
The chemical reactions and pathways occurring in the nucleus and resulting in the breakdown of a ribosomal RNA (rRNA) molecule, including RNA fragments released as part of processing the primary transcript into multiple mature rRNA species, initiated by the enzymatic addition of a sequence of adenylyl residues (polyadenylation) at the 3' end the target rRNA.
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2 | Q9FQ02 (/IMP) Q9FQ03 (/IMP) |
Cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) GO:0000448
Endonucleolytic cleavage within ITS2 between the 5.8S rRNA and the LSU-rRNA of an rRNA molecule originally produced as a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript.
|
1 | P40848 (/IC) |
DNA catabolic process, exonucleolytic GO:0000738
The chemical reactions and pathways resulting in the breakdown of DNA, involving the hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides.
|
1 | Q9H0D6 (/IDA) |
DNA catabolic process, exonucleolytic GO:0000738
The chemical reactions and pathways resulting in the breakdown of DNA, involving the hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides.
|
1 | Q9DBR1 (/ISO) |
DNA repair GO:0006281
The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
|
1 | Q9DBR1 (/NAS) |
DNA recombination GO:0006310
Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
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1 | Q9DBR1 (/NAS) |
RRNA processing GO:0006364
Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
|
1 | Q9H0D6 (/TAS) |
RNA processing GO:0006396
Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
|
1 | Q9H0D6 (/TAS) |
RNA catabolic process GO:0006401
The chemical reactions and pathways resulting in the breakdown of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.
|
1 | Q9H0D6 (/TAS) |
Microtubule-based process GO:0007017
Any cellular process that depends upon or alters the microtubule cytoskeleton, that part of the cytoskeleton comprising microtubules and their associated proteins.
|
1 | Q9DBR1 (/TAS) |
MiRNA catabolic process GO:0010587
The chemical reactions and pathways resulting in the breakdown of miRNA, microRNA, a class of single-stranded RNA molecules of about 21-23 nucleotides in length, which regulates gene expression.
|
1 | Q9U299 (/IDA) |
MiRNA catabolic process GO:0010587
The chemical reactions and pathways resulting in the breakdown of miRNA, microRNA, a class of single-stranded RNA molecules of about 21-23 nucleotides in length, which regulates gene expression.
|
1 | Q9U299 (/IGI) |
RNA metabolic process GO:0016070
The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.
|
1 | Q9DBR1 (/IGI) |
RNA metabolic process GO:0016070
The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.
|
1 | Q9H0D6 (/ISS) |
Hippocampus development GO:0021766
The progression of the hippocampus over time from its initial formation until its mature state.
|
1 | D4A914 (/IEP) |
Neuron differentiation GO:0030182
The process in which a relatively unspecialized cell acquires specialized features of a neuron.
|
1 | D4A914 (/IEP) |
Termination of RNA polymerase II transcription, poly(A)-coupled GO:0030846
The process in which transcription of polyadenylated RNA polymerase II transcripts is terminated; cleavage and polyadenylylation of the mRNA 3' end is coupled to transcription termination.
|
1 | P40848 (/ISO) |
Nuclear-transcribed mRNA catabolic process, exonucleolytic, 5'-3' GO:0034428
The chemical reactions and pathways resulting in the breakdown of the mRNA transcript body that occurs when the 5' end is not protected by a 5'-cap; degradation proceeds in the 5' to 3' direction.
|
1 | P40848 (/IDA) |
Regulation of vulval development GO:0040028
Any process that modulates the frequency, rate or extent of development of the vulva. Vulval development is the process whose specific outcome is the progression of the egg-laying organ of female and hermaphrodite nematodes over time, from its formation to the mature structure. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult.
|
1 | Q9U299 (/IGI) |
Regulation of development, heterochronic GO:0040034
Any process that modulates the consistent predetermined time point at which an integrated living unit or organism progresses from an initial condition to a later condition and the rate at which this time point is reached.
|
1 | Q9U299 (/IGI) |
Retina development in camera-type eye GO:0060041
The process whose specific outcome is the progression of the retina over time, from its formation to the mature structure. The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates.
|
1 | D4A914 (/IEP) |
Negative regulation of gene silencing by miRNA GO:0060965
Any process that decreases the rate, frequency, or extent of gene silencing by miRNA.
|
1 | Q9U299 (/IMP) |
Nuclear mRNA surveillance GO:0071028
The set of processes involved in identifying and degrading defective or aberrant mRNAs within the nucleus.
|
1 | P40848 (/ISO) |
There are 16 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.
|
10 | D4A914 (/IDA) F4K1L3 (/IDA) P40848 (/IDA) Q38AY4 (/IDA) Q9FQ02 (/IDA) Q9FQ03 (/IDA) Q9H0D6 (/IDA) Q9U299 (/IDA) Q9VM71 (/IDA) Q9VM71 (/IDA) |
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.
|
5 | Q5R4L5 (/ISS) Q5ZIP4 (/ISS) Q60SG7 (/ISS) Q9DBR1 (/ISS) Q9U299 (/ISS) |
P-body GO:0000932
A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. Protein and RNA localized to these foci are involved in mRNA degradation, nonsense-mediated mRNA decay (NMD), translational repression, and RNA-mediated gene silencing.
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3 | Q9FQ04 (/IDA) Q9FQ04 (/IDA) Q9FQ04 (/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.
|
3 | Q9FQ04 (/IDA) Q9FQ04 (/IDA) Q9FQ04 (/IDA) |
Polysome GO:0005844
A multiribosomal structure representing a linear array of ribosomes held together by messenger RNA. They represent the active complexes in cellular protein synthesis and are able to incorporate amino acids into polypeptides both in vivo and in vitro.
|
3 | Q9FQ04 (/IDA) Q9FQ04 (/IDA) Q9FQ04 (/IDA) |
Cytoplasmic stress granule GO:0010494
A dense aggregation in the cytosol composed of proteins and RNAs that appear when the cell is under stress.
|
3 | Q9FQ04 (/IDA) Q9FQ04 (/IDA) Q9FQ04 (/IDA) |
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 | Q38AY4 (/IDA) Q9H0D6 (/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 | P40848 (/HDA) |
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 | Q9DBR1 (/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.
|
1 | Q9H0D6 (/TAS) |
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
|
1 | Q9H0D6 (/TAS) |
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.
|
1 | Q9DBR1 (/ISO) |
Membrane GO:0016020
A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
|
1 | Q9H0D6 (/HDA) |
Aggresome GO:0016235
An inclusion body formed by dynein-dependent retrograde transport of an aggregated protein on microtubules.
|
1 | Q9H0D6 (/IDA) |
Aggresome GO:0016235
An inclusion body formed by dynein-dependent retrograde transport of an aggregated protein on microtubules.
|
1 | Q9DBR1 (/ISO) |
Las1 complex GO:0090730
A four subunit complex, that comprises all the necessary RNA processing enzymes (endonuclease, polynucleotide kinase, and exonuclease) to mediate 'cistronic rRNA transcript ITS2 (internal transcribed spacer) cleavage' (GO:0000448).
|
1 | P40848 (/ISO) |