LiteFold/GO huggingface dataset:
maturation of LSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) (GO:0000473)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, 5.8 S rRNA, 2S rRNA, and Large Subunit (LSU) in that order from 5' to 3' along the primary transcript.
maturation of SSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) (GO:0000474)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, 5.8 S rRNA, 2S rRNA, and Large Subunit (LSU) in that order from 5' to 3' along the primary transcript.
maturation of 2S rRNA (GO:0000475)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor 2S ribosomal RNA (rRNA) molecule into a mature 2S rRNA molecule.
maturation of 4.5S rRNA (GO:0000476)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor 4.5S ribosomal RNA (rRNA) molecule into a mature 4.5S rRNA molecule.
generation of mature 5'-end of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000477)
Namespace: biological_process
Definition: Cleavage within ITS2 to generate the mature 5'-end of an LSU-rRNA derived from 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.
Synonyms: processing at C1
endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000479)
Namespace: biological_process
Definition: Endonucleolytic cleavage of a pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains 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. Primary ribosomal RNA transcripts with three genes, in this order, are produced in the nuclei of many eukaryotic species, including S. cerevisiae.
endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000480)
Namespace: biological_process
Definition: Endonucleolytic cleavage within the 5'-External Transcribed Spacer (ETS) of a tricistronic rRNA transcript that contains 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. Endonucleolytic cleavage within the 5'-ETS of the pre-RNA is conserved as one of the early steps of rRNA processing in all eukaryotes, but the specific position of cleavage is variable.
Synonyms: endonucleolytic cleavage at A-prime; endonucleolytic cleavage at A0
maturation of 5S rRNA (GO:0000481)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor 5S ribosomal RNA (rRNA) molecule into a mature 5S rRNA molecule.
maturation of 5S rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000482)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor 5S ribosomal RNA (rRNA) molecule into a mature 5S rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript.
endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) (GO:0000483)
Namespace: biological_process
Definition: Endonucleolytic cleavage of a pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript. Primary ribosomal RNA transcripts with four genes, in this order, are produced in the nuclei of D. melanogaster as well as in those of other dipteran species.
cleavage between SSU-rRNA and 5.8S rRNA of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) (GO:0000484)
Namespace: biological_process
Definition: Endonucleolytic cleavage between the SSU-rRNA and the 5.8S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript.
cleavage between 2S rRNA and LSU-rRNA of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) (GO:0000485)
Namespace: biological_process
Definition: Endonucleolytic cleavage between the LSU-rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript.
cleavage between 5.8S rRNA and 2S rRNA of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) (GO:0000486)
Namespace: biological_process
Definition: Endonucleolytic cleavage between the 5.8S rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript.
maturation of 5.8S rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) (GO:0000487)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor 5.8S ribosomal RNA (rRNA) molecule into a mature 5.8S rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the 8.8S rRNA, the 2S rRNA, and the Large Subunit (LSU) in that order from 5' to 3' along the primary transcript.
maturation of LSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) (GO:0000488)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript.
maturation of SSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) (GO:0000489)
Namespace: biological_process
Definition: Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript.
small nucleolar ribonucleoprotein complex assembly (GO:0000491)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of proteins and a snoRNA to form a small nucleolar ribonucleoprotein (snoRNP) complex.
Synonyms: snoRNP assembly
box C/D snoRNP assembly (GO:0000492)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of proteins and a box C/D snoRNA to form a box C/D small nucleolar ribonucleoprotein (snoRNP) complex.
Synonyms: box C/D small nucleolar ribonucleoprotein complex assembly
box H/ACA snoRNP assembly (GO:0000493)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of proteins and a box H/ACA snoRNA to form a box H/ACA small nucleolar ribonucleoprotein (snoRNP) complex.
Synonyms: box H/ACA small nucleolar ribonucleoprotein complex assembly
box C/D sno(s)RNA 3'-end processing (GO:0000494)
Namespace: biological_process
Definition: Any process involved in forming the mature 3' end of a box C/D RNA molecule.
Synonyms: box C/D RNA 3' end processing; box C/D snoRNA 3'-end processing; box C/D sRNA 3'-end processing
box H/ACA sno(s)RNA 3'-end processing (GO:0000495)
Namespace: biological_process
Definition: Any process involved in forming the mature 3' end of a box H/ACA RNA molecule.
Synonyms: box H/ACA RNA 3' end processing; box H/ACA snoRNA 3'-end processing; box H/ACA sRNA 3'-end processing
DNA template activity (GO:0000497)
Namespace: molecular_function
Definition: Binding to nucleic acid via hydrogen bonds between the bases of a gene product molecule and the bases of a target DNA molecule.
Synonyms: base pairing with DNA
Comment: Note that with respect to annotation, "base pairing" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with DNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function.
RNA polymerase I upstream activating factor complex (GO:0000500)
Namespace: cellular_component
Definition: A complex required for the transcription of rDNA by RNA polymerase I. In yeast the complex consists of Rrrn5p, Rrn9p, Rrn10p, histones H3 and H4, and Uaf30p.
Synonyms: RNA polymerase I upstream activation factor complex; UAF
proteasome complex (GO:0000502)
Namespace: cellular_component
Definition: A large multisubunit complex which catalyzes protein degradation, found in eukaryotes, archaea and some bacteria. In eukaryotes, this complex consists of the barrel shaped proteasome core complex and one or two associated proteins or complexes that act in regulating entry into or exit from the core.
Synonyms: 26S proteasome; proteasome
obsolete proteasome regulatory particle (sensu Bacteria) (GO:0000504)
Namespace: cellular_component
Definition: OBSOLETE. A multisubunit complex that recognizes and unfolds ubiquitinated proteins, and translocates them to the core complex in an ATP dependent manner. As in, but not restricted to, the taxon Bacteria (Bacteria, ncbi_taxonomy_id:2).
Synonyms: 26S proteasome; proteasome regulatory particle (sensu Bacteria)
Comment: This term was made obsolete because there is no ubiquitin in bacteria and they do not have proteasome regulatory particles. Instead they have proteasome-activating nucleotidase.
H2A-H2B histone complex chaperone activity (GO:0000511)
Namespace: molecular_function
Definition: A histone chaperone that carries a H2A-H2B histone complex.
Synonyms: H2A-H2B histone carrier activity
lncRNA-mediated post-transcriptional gene silencing (GO:0000512)
Namespace: biological_process
Definition: A post-transcriptional gene silencing pathway in which regulatory long noncoding RNAs (lncRNAs) elicit silencing of specific target genes, often miRNAs or mRNAs.
Synonyms: lncRNA-mediated gene silencing
Comment: This term should be applied to lncRNAs and proteins associated with this process and not to the target (miRNAs or mRNAs) of the process.
actin severing activator activity (GO:0000513)
Namespace: molecular_function
Definition: Binds to and increases the activity of a actin severing protein.
3-sulfino-L-alanine: proton, glutamate antiporter activity (GO:0000514)
Namespace: molecular_function
Definition: Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: 3-sulfino-L-alanine (cysteinesulfinate) (out) + H+(in) + L-glutamate(in) = 3-sulfino-L-alanine(in) + H+(out) + L-glutamate(out).
aspartate:glutamate, proton antiporter activity (GO:0000515)
Namespace: molecular_function
Definition: Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: H+(out) + L-aspartate(in) + L-glutamate(out) = H+(in) + L-aspartate(out) + L-glutamate(in).
Synonyms: aspartate:glutamate antiporter activity
embryonic axis specification (GO:0000578)
Namespace: biological_process
Definition: The establishment, maintenance and elaboration of a pattern along a line or a point in an embryo.
Synonyms: embryonic axis determination
mismatch base pair DNA N-glycosylase activity (GO:0000700)
Namespace: molecular_function
Definition: Catalysis of the removal of single bases present in mismatches by the cleavage the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic/apyrimidinic (AP) site.
purine-specific mismatch base pair DNA N-glycosylase activity (GO:0000701)
Namespace: molecular_function
Definition: Catalysis of the removal of purines present in mismatches, especially opposite oxidized purines, by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic (AP) site.
Synonyms: A/G-specific adenine DNA glycosylase activity
oxidized base lesion DNA N-glycosylase activity (GO:0000702)
Namespace: molecular_function
Definition: Catalysis of the removal of oxidized bases by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic/apyrimidinic (AP) site.
oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity (GO:0000703)
Namespace: molecular_function
Definition: Catalysis of the removal oxidized pyrimidine bases by cleaving the N-C1' glycosidic bond between the oxidized pyrimidine and the deoxyribose sugar. The reaction involves formation of a covalent enzyme-pyrimidine base intermediate. Release of the enzyme and free base by a beta-elimination or a beta, gamma-elimination mechanism results in the cleavage of the DNA backbone 3' of the apyrimidinic (AP) site.
Synonyms: bifunctional DNA glycosylase; DNA glycosylase/AP-lyase; DNA glycosylase/beta-lyase; endodeoxyribonuclease III; endonuclease III; endonuclease VIII activity; oxidized pyrimidine base lesion DNA N-glycosylase activity; pyrimidine-specific oxidized base lesion DNA N-glycosylase activity
Comment: Consider also annotating to the molecular function term 'DNA-(apurinic or apyrimidinic site) lyase activity ; GO:0003906'.
pyrimidine dimer DNA N-glycosylase activity (GO:0000704)
Namespace: molecular_function
Definition: Catalysis of the removal of pyrimidine dimers by removing the 5' pyrimidine of the dimer by cleaving the N-C1' glycosidic bond between the 5' pyrimidine of the dimer and the deoxyribose sugar. The reaction releases the 5' pyrimidine of the dimer and leaves an apurinic (AP) site. The reaction involves the formation of a covalent enzyme substrate intermediate. Release of the enzyme and free base by a beta-elimination or a beta, gamma-elimination mechanism results in the cleavage of the DNA backbone 3' of the apyrimidinic (AP) site.
achiasmate meiosis I (GO:0000705)
Namespace: biological_process
Definition: The first division of meiosis in which homologous chromosomes are paired and segregated from each other, occurring in the constitutive absence of chiasmata.
Synonyms: achiasmate meiosis I nuclear division
meiotic DNA double-strand break processing (GO:0000706)
Namespace: biological_process
Definition: The cell cycle process in which the 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang occurs. This takes place during meiosis.
meiotic DNA recombinase assembly (GO:0000707)
Namespace: biological_process
Definition: During meiosis, the aggregation, arrangement and bonding together of strand exchange proteins (recombinases) to form higher order oligomers on single-stranded DNA.
meiotic strand invasion (GO:0000708)
Namespace: biological_process
Definition: The cell cycle process in which the nucleoprotein complex (composed of the broken single-strand DNA and the recombinase) searches and identifies a region of homology in intact duplex DNA. The broken single-strand DNA displaces the like strand and forms Watson-Crick base pairs with its complement, forming a duplex in which each strand is from one of the two recombining DNA molecules. This occurs during meiosis.
Synonyms: meiotic D-loop biosynthesis; meiotic D-loop formation; meiotic displacement loop biosynthesis; meiotic displacement loop formation
meiotic joint molecule formation (GO:0000709)
Namespace: biological_process
Definition: The conversion of the paired broken DNA and homologous duplex DNA into a four-stranded branched intermediate, known as a joint molecule, formed during meiotic recombination. These joint molecules contain Holliday junctions on either side of heteroduplex DNA.
meiotic DNA repair synthesis (GO:0000711)
Namespace: biological_process
Definition: During meiosis, the synthesis of DNA proceeding from the broken 3' single-strand DNA end that uses the homologous intact duplex as the template.
resolution of meiotic recombination intermediates (GO:0000712)
Namespace: biological_process
Definition: The cleavage and rejoining of intermediates, such as Holliday junctions, formed during meiotic recombination to produce two intact molecules in which genetic material has been exchanged.
Synonyms: resolution of meiotic joint molecules as recombinants
meiotic heteroduplex formation (GO:0000713)
Namespace: biological_process
Definition: During meiosis, the formation of a stable duplex DNA that contains one strand from each of the two recombining DNA molecules.
meiotic strand displacement (GO:0000714)
Namespace: biological_process
Definition: The cell cycle process in which the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA is rejected. The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules. This occurs during meiosis.
Synonyms: meiotic D-loop dissociation; meiotic D-loop processing; meiotic displacement loop dissociation; meiotic displacement loop processing
nucleotide-excision repair, DNA damage recognition (GO:0000715)
Namespace: biological_process
Definition: The identification of lesions in DNA, such as pyrimidine-dimers, intrastrand cross-links, and bulky adducts. The wide range of substrate specificity suggests the repair complex recognizes distortions in the DNA helix.
Synonyms: pyrimidine-dimer repair, DNA damage recognition
transcription-coupled nucleotide-excision repair, DNA damage recognition (GO:0000716)
Namespace: biological_process
Definition: The identification of lesions on the actively transcribed strand of the DNA duplex as well as a small subset of lesions not recognized by the general nucleotide-excision repair pathway.
Synonyms: pyrimidine-dimer repair, DNA damage recognition
obsolete nucleotide-excision repair, DNA damage removal (GO:0000718)
Namespace: biological_process
Definition: OBSOLETE. The removal of the oligonucleotide that contains the DNA damage. The oligonucleotide is formed by dual incisions that flank the site of DNA damage.
Comment: The reason for obsoletion is that this term represents a molecular function.
photoreactive repair (GO:0000719)
Namespace: biological_process
Definition: The repair of UV-induced T-T, C-T and C-C dimers by directly reversing the damage to restore the original pyrimidines.
Synonyms: pyrimidine-dimer repair by photolyase
pyrimidine dimer repair by nucleotide-excision repair (GO:0000720)
Namespace: biological_process
Definition: The repair of UV-induced T-T, C-T, and C-C dimers by the recognition and removal of the damaged DNA strand from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.
Comment: Note that the repair of pyrimidine dimers by nucleotide excision repair involves the same gene products that are involved in general nucleotide excision repair. Consider also annotating to other children of the biological process term 'nucleotide-excision repair ; GO:0006289'.
(R,R)-butanediol dehydrogenase activity (GO:0000721)
Namespace: molecular_function
Definition: Catalysis of the reversible reaction: (R,R)-butane-2,3-diol + NAD+ = (R)-acetoin + NADH + H+.
Synonyms: (R)-2,3-butanediol dehydrogenase activity; (R)-diacetyl reductase activity; 1-amino-2-propanol dehydrogenase activity; 1-amino-2-propanol oxidoreductase activity; 2,3-butanediol dehydrogenase activity; aminopropanol oxidoreductase activity; butylene glycol dehydrogenase activity; butyleneglycol dehydrogenase activity; D-(-)-butanediol dehydrogenase activity; D-1-amino-2-propanol dehydrogenase activity; D-1-amino-2-propanol:NAD(2) oxidoreductase activity; D-aminopropanol dehydrogenase activity; D-butanediol dehydrogenase activity; diacetyl (acetoin) reductase activity
telomere maintenance via recombination (GO:0000722)
Namespace: biological_process
Definition: Any recombinational process that contributes to the maintenance of proper telomeric length.
Synonyms: telomerase-independent telomere maintenance
double-strand break repair via homologous recombination (GO:0000724)
Namespace: biological_process
Definition: The error-free repair of a double-strand break in DNA in which the broken DNA molecule is repaired using homologous sequences. A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule.
Synonyms: HDR; homologous recombinational repair; homology-directed repair; HRR; Rad51-dependent recombinational repair; Rhp51-dependent recombinational repair
obsolete non-recombinational repair (GO:0000726)
Namespace: biological_process
Definition: OBSOLETE. A DNA repair process in which that does not require the exchange of genetic material between the broken DNA molecule and a homologous DNA region.
Comment: This term was obsoleted because it was defined negatively, and it represents an unnecessary grouping class.
double-strand break repair via break-induced replication (GO:0000727)
Namespace: biological_process
Definition: The error-free repair of a double-strand break in DNA in which the centromere-proximal end of a broken chromosome searches for a homologous region in an intact chromosome. DNA synthesis initiates from the 3' end of the invading DNA strand, using the intact chromosome as the template, and progresses to the end of the chromosome.
DNA double-strand break processing (GO:0000729)
Namespace: biological_process
Definition: The 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang.
DNA recombinase assembly (GO:0000730)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of strand exchange proteins (recombinases) into higher order oligomers on single-stranded DNA.
Synonyms: Rad51 nucleoprotein filament formation
DNA strand displacement (GO:0000732)
Namespace: biological_process
Definition: The rejection of the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA. The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules.
Synonyms: D-loop dissociation; D-loop processing; displacement loop dissociation; displacement loop processing; strand displacement
removal of nonhomologous ends (GO:0000735)
Namespace: biological_process
Definition: The removal of nonhomologous sequences at the broken 3' single-strand DNA end before DNA repair synthesis can occur.
double-strand break repair via single-strand annealing, removal of nonhomologous ends (GO:0000736)
Namespace: biological_process
Definition: During DSBR via single-strand annealing, the removal of nonhomologous sequences at the broken 3' single-strand DNA end before DNA repair synthesis can occur.