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.

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: Mtr4 exosome RNA helicase

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 8 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).
5 P42285 (/IPI) P47047 (/IPI) P47047 (/IPI) Q873J5 (/IPI) Q873J5 (/IPI)
RNA helicase activity GO:0003724
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction drives the unwinding of an RNA helix.
2 Q9ZVW2 (/ISS) Q9ZVW2 (/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 P47047 (/HDA) P47047 (/HDA)
Poly(A) binding GO:0008143
Interacting selectively and non-covalently with a sequence of adenylyl residues in an RNA molecule, such as the poly(A) tail, a sequence of adenylyl residues at the 3' end of eukaryotic mRNA.
2 P47047 (/IDA) P47047 (/IDA)
3'-5' RNA helicase activity GO:0034458
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction drives the unwinding of an RNA helix in the direction 3' to 5'.
2 P47047 (/IDA) P47047 (/IDA)
3'-5' RNA helicase activity GO:0034458
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction drives the unwinding of an RNA helix in the direction 3' to 5'.
2 P47047 (/IMP) P47047 (/IMP)
RNA binding GO:0003723
Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
1 P42285 (/HDA)
RNA helicase activity GO:0003724
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction drives the unwinding of an RNA helix.
1 O14232 (/EXP)

There are 32 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
Exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) GO:0000467
Exonucleolytic digestion of a pre-rRNA molecule to generate the mature 3'-end of a 5.8S rRNA molecule derived from an originally tricistronic pre-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.
2 P47047 (/IMP) P47047 (/IMP)
RRNA processing GO:0006364
Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
2 P42285 (/IMP) Q9XIF2 (/IMP)
RRNA processing GO:0006364
Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
2 O14232 (/ISO) Q9CZU3 (/ISO)
MRNA processing GO:0006397
Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.
2 Q9ZVW2 (/IMP) Q9ZVW2 (/IMP)
Specification of floral organ identity GO:0010093
The process in which the identity of a floral organ primordium is specified. Identity is considered to be the aggregate of characteristics by which a structure is recognized.
2 Q9ZVW2 (/IMP) Q9ZVW2 (/IMP)
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.
2 Q9ZVW2 (/TAS) Q9ZVW2 (/TAS)
RRNA catabolic process GO:0016075
The chemical reactions and pathways resulting in the breakdown of rRNA, ribosomal RNA, a structural constituent of ribosomes.
2 P47047 (/IMP) P47047 (/IMP)
Poly(A)+ mRNA export from nucleus GO:0016973
The directed movement of poly(A)+ mRNA out of the nucleus into the cytoplasm.
2 P47047 (/IMP) P47047 (/IMP)
Fin regeneration GO:0031101
The regrowth of fin tissue following its loss or destruction.
2 F1QD61 (/IMP) Q6P7X6 (/IMP)
U4 snRNA 3'-end processing GO:0034475
Any process involved in forming the mature 3' end of a U4 snRNA molecule.
2 P47047 (/IMP) P47047 (/IMP)
U5 snRNA 3'-end processing GO:0034476
Any process involved in forming the mature 3' end of a U5 snRNA molecule.
2 P47047 (/IMP) P47047 (/IMP)
NcRNA polyadenylation GO:0043629
The enzymatic addition of a sequence of adenylyl residues at the 3' end of a non-coding RNA (ncRNA) molecule. In eukaryotes, substrates include nuclear non-coding RNAs such as precursors and a variety of incorrectly processed forms of snRNAs, snoRNAs, rRNAs, and tRNAs, as well as discarded RNA fragments which have been removed from ncRNA primary transcripts. Polyadenylation of precursors is often linked to termination of transcription, but polyadenylation of RNAs targeted for degradation may also occur post-transcriptionally. This polyadenylation is important both for 3'-end processing to produce mature ncRNA species and also for targeting incorrectly processed or discarded RNA molecules for degradation.
2 P47047 (/IDA) P47047 (/IDA)
Positive regulation of cell division GO:0051781
Any process that activates or increases the frequency, rate or extent of cell division.
2 F1QD61 (/IMP) Q6P7X6 (/IMP)
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 Q9ZVW2 (/IMP) Q9ZVW2 (/IMP)
Nuclear mRNA surveillance of mRNA 3'-end processing GO:0071031
The set of processes involved in identifying and degrading mRNAs with incorrectly formed 3'-ends within the nucleus.
2 P47047 (/IMP) P47047 (/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.
2 P47047 (/IMP) P47047 (/IMP)
Nuclear polyadenylation-dependent tRNA catabolic process GO:0071038
The chemical reactions and pathways occurring in the nucleus and resulting in the breakdown of an aberrant or incorrectly modified transfer RNA (tRNA) molecule, initiated by the enzymatic addition of a sequence of adenylyl residues (polyadenylation) at the 3' end the target tRNA.
2 P47047 (/IDA) P47047 (/IDA)
Nuclear polyadenylation-dependent tRNA catabolic process GO:0071038
The chemical reactions and pathways occurring in the nucleus and resulting in the breakdown of an aberrant or incorrectly modified transfer RNA (tRNA) molecule, initiated by the enzymatic addition of a sequence of adenylyl residues (polyadenylation) at the 3' end the target tRNA.
2 P47047 (/IGI) P47047 (/IGI)
Nuclear polyadenylation-dependent mRNA catabolic process GO:0071042
The chemical reactions and pathways occurring in the nucleus and resulting in the breakdown of a messenger RNA (mRNA) molecule, initiated by the enzymatic addition of a sequence of adenylyl residues (polyadenylation) at the 3' end the target mRNA.
2 P47047 (/IMP) P47047 (/IMP)
Nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription GO:0071049
The process involved in retention of mRNAs that have incorrectly formed 3'-ends within the nucleus at the site of transcription.
2 P47047 (/IGI) P47047 (/IGI)
Polyadenylation-dependent snoRNA 3'-end processing GO:0071051
Any process involved in forming the mature 3' end of a snoRNA molecule linked to prior polyadenylation of the 3'-end of the precursor snoRNA.
2 P47047 (/IMP) P47047 (/IMP)
MRNA splicing, via spliceosome GO:0000398
The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
1 P42285 (/IC)
MRNA splicing, via spliceosome GO:0000398
The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
1 P42285 (/TAS)
Maturation of 5.8S rRNA GO:0000460
Any process involved in the maturation of a precursor 5.8S ribosomal RNA (rRNA) molecule into a mature 5.8S rRNA molecule.
1 P42285 (/IMP)
Maturation of 5.8S rRNA GO:0000460
Any process involved in the maturation of a precursor 5.8S ribosomal RNA (rRNA) molecule into a mature 5.8S rRNA molecule.
1 Q9CZU3 (/ISO)
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 Q9CZU3 (/ISS)
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 P42285 (/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 O14232 (/IDA)
TRNA catabolic process GO:0016078
The chemical reactions and pathways resulting in the breakdown of tRNA, transfer RNA, a class of relatively small RNA molecules responsible for mediating the insertion of amino acids into the sequence of nascent polypeptide chains during protein synthesis.
1 O14232 (/ISO)
RRNA 3'-end processing GO:0031125
Any process involved in forming the mature 3' end of an rRNA molecule.
1 Q9XIF2 (/IMP)
NcRNA polyadenylation involved in polyadenylation-dependent ncRNA catabolic process GO:0043630
The enzymatic addition of a sequence of adenylyl residues (polyadenylation) at the 3' end of a non-coding RNA, occurring as part of the process of polyadenylation-dependent non-coding RNA catabolism.
1 O14232 (/ISO)
Nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription GO:0071049
The process involved in retention of mRNAs that have incorrectly formed 3'-ends within the nucleus at the site of transcription.
1 O14232 (/ISO)

There are 15 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.
4 P42285 (/IDA) P47047 (/IDA) P47047 (/IDA) Q9XIF2 (/IDA)
TRAMP complex GO:0031499
A multiprotein complex having distributive polyadenylation activity of a variety of RNA substrates including hypomodified and incorrectly folded tRNAs, pre-snRNAs, pre-snoRNAs, incorrectly spliced or processed pre-mRNAs, cryptic unstable transcripts (CUTs), pre-rRNAs and rRNA fragments released as part of rRNA processing. In S. cerevisiae, the complex consists of either Pap2 (also known as Trf4) or Trf5, Air1 or Air2, and Mtr4, and is involved in RNA 3'-end processing and in RNA surveillance and quality control.
4 O14232 (/IDA) P42285 (/IDA) P47047 (/IDA) P47047 (/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.
3 Q9CZU3 (/ISS) Q9ZVW2 (/ISS) Q9ZVW2 (/ISS)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
3 Q9XIF2 (/IDA) Q9ZVW2 (/IDA) Q9ZVW2 (/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 P47047 (/IDA) P47047 (/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 Q9ZVW2 (/IDA) Q9ZVW2 (/IDA)
Nuclear speck GO:0016607
A discrete extra-nucleolar subnuclear domain, 20-50 in number, in which splicing factors are seen to be localized by immunofluorescence microscopy.
2 Q9ZVW2 (/IDA) Q9ZVW2 (/IDA)
TRAMP complex GO:0031499
A multiprotein complex having distributive polyadenylation activity of a variety of RNA substrates including hypomodified and incorrectly folded tRNAs, pre-snRNAs, pre-snoRNAs, incorrectly spliced or processed pre-mRNAs, cryptic unstable transcripts (CUTs), pre-rRNAs and rRNA fragments released as part of rRNA processing. In S. cerevisiae, the complex consists of either Pap2 (also known as Trf4) or Trf5, Air1 or Air2, and Mtr4, and is involved in RNA 3'-end processing and in RNA surveillance and quality control.
2 P47047 (/IPI) P47047 (/IPI)
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 O14232 (/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 Q9CZU3 (/ISO)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
1 P42285 (/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 O14232 (/ISO)
TRAMP complex GO:0031499
A multiprotein complex having distributive polyadenylation activity of a variety of RNA substrates including hypomodified and incorrectly folded tRNAs, pre-snRNAs, pre-snoRNAs, incorrectly spliced or processed pre-mRNAs, cryptic unstable transcripts (CUTs), pre-rRNAs and rRNA fragments released as part of rRNA processing. In S. cerevisiae, the complex consists of either Pap2 (also known as Trf4) or Trf5, Air1 or Air2, and Mtr4, and is involved in RNA 3'-end processing and in RNA surveillance and quality control.
1 Q9CZU3 (/ISO)
Catalytic step 2 spliceosome GO:0071013
A spliceosomal complex that contains three snRNPs, including U5, bound to a splicing intermediate in which the first catalytic cleavage of the 5' splice site has occurred. The precise subunit composition differs significantly from that of the catalytic step 1, or activated, spliceosome, and includes many proteins in addition to those found in the associated snRNPs.
1 P42285 (/IDA)
Catalytic step 2 spliceosome GO:0071013
A spliceosomal complex that contains three snRNPs, including U5, bound to a splicing intermediate in which the first catalytic cleavage of the 5' splice site has occurred. The precise subunit composition differs significantly from that of the catalytic step 1, or activated, spliceosome, and includes many proteins in addition to those found in the associated snRNPs.
1 Q9CZU3 (/ISO)
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