NothingMuch/GO-Terms huggingface dataset:
Assembly of a spliceosomal complex containing the SL RNA and the pre-mRNA to be joined, as well as all the spliceosomal snRNPs involved in trans leader splicing. Formation of the trans leader spliceosome brings together the quadruple SL/U4/U5/U6 snRNP and the complex of the U2 snRNP with the splice site of the pre-mRNA.
trans assembly of spliced leader-containing precatalytic spliceosome
Assembly of a spliceosomal complex containing the intact pre-mRNA and all of the spliceosomal snRNPs. This occurs when the tri-snRNP associates with the pre-mRNA and associated snRNPs in an ATP-dependent manner.
cis assembly of U12-type pre-catalytic spliceosome
cis assembly of U2-type pre-catalytic spliceosome
formation of spliceosomal A2-1 complex
formation of spliceosomal B1 complex
spliceosomal A2-1 complex biosynthesis
spliceosomal A2-1 complex formation
spliceosomal B1 complex biosynthesis
spliceosomal B1 complex formation
The joining together of two independently transcribed RNAs from two different genes, each of which also produces mRNA(s) via cis-splicing.
intergenic mRNA trans splicing
intergenic nuclear mRNA trans splicing
The splicing of Group I introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group I introns and involved in determining the locations of the splice sites (there do not appear to be consensus splice site sequences) as well as having a role in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions, generally with exogenous guanosine as the initiating nucleophile. The intron is excised as a linear piece (though it may subsequently circularize).
mRNA splicing
The splicing of Group II introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group II introns and containing splice site consensus sequences, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions (mechanistically similar to those for splicing of nuclear mRNAs) initiated by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat.
mRNA splicing
The splicing of Group III introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group III introns, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions begun by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat. Though very similar in structure and mechanism to Group II introns, Group III introns are smaller and more streamlined and the splice site consensus sequences are not as well conserved.
mRNA splicing
Any process that modulates the frequency, rate or extent of alternative splicing of nuclear mRNAs.
regulation of alternative nuclear mRNA splicing, via spliceosome
splice site selection
Catalysis of the first transesterification reaction of spliceosomal mRNA splicing. The intron branch site adenosine is the nucleophile attacking the 5' splice site, resulting in cleavage at this position. In cis splicing, this is the step that forms a lariat structure of the intron RNA, while it is still joined to the 3' exon.
lariat formation, 5\'-splice site cleavage
Catalysis of the second transesterification reaction of spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure.
3\'-splice site cleavage, exon ligation
lariat formation, 5\'-splice site cleavage
Rearrangement of the pre-catalytic spliceosome containing U4 (or U4atac) and U1 (or U11) snRNPs to unpair U4 (or U4atac) from U6 (or U6atac) and release it from the spliceosomal complex along with U1 (or U11).
3\'-splice site cleavage, exon ligation
spliceosomal A1 complex biosynthesis
spliceosomal A1 complex formation
spliceosomal B2 complex biosynthesis
spliceosomal B2 complex formation
U12-type spliceosome conformational change to release U4atac and U11
U2-type spliceosome conformational change to release U4 and U1
Disassembly of a spliceosomal complex with the ATP-dependent release of the product RNAs, one of which is composed of the joined exons. In cis splicing, the other product is the excised sequence, often a single intron, in a lariat structure.
spliceosome complex disassembly
spliceosome disassembly
U12-type spliceosome disassembly
U2-type spliceosome disassembly
Binding to a DNA segment containing the open form of a four-way junction, also known as a Holliday junction, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices. The open form of a four-way junction can be diagrammed without any of the strands crossing over.
open form Holliday junction binding
Binding to a DNA segment containing the crossed form of a four-way junction, also known as a Holliday junction, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices. The crossed form of a four-way junction cannot be diagrammed without any of the strands crossing over, and instead contains a single crossover between two of the strands.
crossed form Holliday junction binding
Binding to a DNA segment shaped like a Y. This shape occurs when DNA contains a region of paired double-stranded DNA on one end and a region of unpaired DNA strands on the opposite end.
forked DNA binding
splayed Y-form DNA binding
Binding to a DNA segment containing a loop. A loop occurs when DNA contains a large insertion or deletion that causes a region of unpaired single-stranded DNA to loop out, while the rest of the DNA is in a paired double-stranded configuration.
loop DNA binding
A protein complex involved in t6A tRNA modification. For example, in Saccharomyces cerevisiae the complex contains Bud32p, Kae1p, Gon7p, Cgi121p, and Pcc1p.
endopeptidase-like kinase chromatin-associated protein complex
KEOPS/EKC complex
kinase, putative endopeptidase and other proteins of small size protein complex
TCTC
threonyl-carbamoly transferase complex
The modification of a protein by cis-trans isomerization of a proline residue.
protein proline isomerization
A protein complex proposed to be involved in replication-independent nucleosome assembly, by promoting histone deposition onto DNA. For example, in Saccharomyces, the complex contains Hir1p, Hir2p, Hir3p, and Hpc2p.
HIRA complex
RNA polymerase IV is a multisubunit RNA polymerase complex found in the nucleus of plants and involved in accumulation of siRNAs and in DNA methylation-dependent silencing of endogenous repeated sequences. Pol IV is composed of subunits that are paralogous or identical to the 12 subunits of Pol II. The largest and second-largest subunits of Pol IV are the catalytic subunits and share similarity with the corresponding subunits of other eukaryotic and bacterial multisubunit RNA polymerases. The second largest subunit is also found in RNA polymerase V, while the largest subunit is found only in RNAP IV complex.
DNA-directed RNA polymerase IV complex
DNA-directed RNA polymerase IVa complex
RNA polymerase V is a multisubunit RNA polymerase complex found in the nucleus of plants and involved in accumulation of siRNAs and in DNA methylation-dependent silencing of endogenous repeated sequences. Pol V is composed of subunits that are paralogous or identical to the 12 subunits of Pol II. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The second largest subunit is also found in RNA polymerase IVa, while the largest subunit is found only in the IVa complex and contains an extended C-terminal domain (CTD) that includes multiple repeats of a 16 amino-acid consensus sequence as well as other sequences. The remainder of the complex is composed of smaller subunits.
DNA-directed RNA polymerase IVb complex
DNA-directed RNA polymerase V complex
The selective autophagy process in which a peroxisome is degraded by macroautophagy.
macropexophagy
Any process involving glucose that activates or increases the rate of transcription from an RNA polymerase II promoter.
activation of transcription from RNA polymerase II promoter by glucose
stimulation of transcription from RNA polymerase II promoter by glucose
up regulation of transcription from RNA polymerase II promoter by glucose
up-regulation of transcription from RNA polymerase II promoter by glucose
upregulation of transcription from RNA polymerase II promoter by glucose
A transcription regulation process in which the presence of glucose leads to a decrease in the frequency, rate, or extent of transcription of specific RNA polymerase II-transcribed genes involved in the metabolism of other carbon sources. Carbon catabolite repression is a mechanism of genetic regulation which the accumulation of catabolites of one substance in the cell represses the formation of enzymes that contribute to the catabolism of other substances.
down regulation of transcription from RNA polymerase II promoter by glucose
down-regulation of transcription from RNA polymerase II promoter by glucose
downregulation of transcription from RNA polymerase II promoter by glucose
inhibition of transcription from RNA polymerase II promoter by glucose
Any process involving galactose that stops, prevents or reduces the rate of transcription from an RNA polymerase II promoter.
down regulation of transcription from RNA polymerase II promoter by galactose
down-regulation of transcription from RNA polymerase II promoter by galactose
downregulation of transcription from RNA polymerase II promoter by galactose
inhibition of transcription from RNA polymerase II promoter by galactose
Any process involving galactose that activates or increases the rate of transcription from an RNA polymerase II promoter.
activation of transcription from RNA polymerase II promoter by galactose
stimulation of transcription from RNA polymerase II promoter by galactose
up regulation of transcription from RNA polymerase II promoter by galactose
up-regulation of transcription from RNA polymerase II promoter by galactose
upregulation of transcription from RNA polymerase II promoter by galactose
The core TFIIH complex when it is part of the general transcription factor TFIIH.
SSL2-core TFIIH complex portion of holo TFIIH complex
The core TFIIH complex when it is part of the nucleotide-excision repair factor 3 (NEF3).
SSL2-core TFIIH complex portion of NEF3 complex
A multiprotein kinetochore subcomplex that binds to centromeric chromatin and forms part of the outer kinetochore. It helps to recruit outer kinetochore subunits that will bind to microtubules. In humans, it consists of MIS12, DSN1, NSL1 and PMF1.
MIND complex
Mis12 complex
Mtw1p Including Nnf1p-Nsl1p-Dsn1p complex
nuclear MIS12/MIND complex
The THO complex when it is part of the TREX (TRanscription EXport) complex that is involved in coupling transcription to export of mRNAs to the cytoplasm. In S. cerevisiae, it is composed of four subunits: Hpr1, Tho2, Thp1, and Mft1, while the human complex is composed of 7 subunits.
THO complex part of TREX complex
Endonucleolytic cleavage between the SSU-rRNA and the 5.8S 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.
endonucleolytic cleavage at A2
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.
cleavage at C2
cleavage in ITS2 of tricistronic rRNA transcript to separate 5.8S and LSU rRNAs (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
The posttranscriptional addition of methyl groups to the 2'-oxygen atom of nucleotide residues in an rRNA molecule during ribosome biogenesis using a snoRNA guide that targets the position of methylation.
snoRNA guided rRNA 2\'-O-ribose methylation
Endonucleolytic cleavage at the 3'-end of the SSU-rRNA from an originally 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, to produce the mature end of the SSU-rRNA.
endonucleolytic cleavage at site D
Endonucleolytic cleavage within Internal Transcribed Spacer 1 (ITS1) upstream of the 5.8S rRNA derived from an originally 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. In S. cerevisiae, this endonucleolytic cleavage within ITS1 initiates the maturation of the LSU and the 5.8S rRNAs.
endonucleolytic cleavage at A3
Any process involved in generating the mature 3'-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.
processing at B2
Endonucleolytic cleavage between the 5'-External Transcribed Spacer (5'-ETS) and the 5' end of the SSU-rRNA 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, to produce the mature end of the SSU-rRNA.
endonucleolytic cleavage at A1
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.
processing at C1
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.
endonucleolytic cleavage at A-prime
endonucleolytic cleavage at A0
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.
box C/D small nucleolar ribonucleoprotein complex assembly
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.
box H/ACA small nucleolar ribonucleoprotein complex assembly
Any process involved in forming the mature 3' end of a box C/D RNA molecule.
box C/D RNA 3\' end processing
box C/D snoRNA 3\'-end processing
box C/D sRNA 3\'-end processing
Any process involved in forming the mature 3' end of a box H/ACA RNA molecule.
box H/ACA RNA 3\' end processing
box H/ACA snoRNA 3\'-end processing
box H/ACA sRNA 3\'-end processing
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.
RNA polymerase I upstream activation factor complex
UAF
An enzyme complex that catalyzes the transfer of GlcNAc from UDP-GlcNAc to an acceptor phosphatidylinositol, the first step in the production of GPI anchors for cell surface proteins. The complex contains PIG-A, PIG-C, PIG-H, PIG-Q, PIG-P, and DPM2 in human, and Eri1p, Gpi1p, Gpi2p, Gpi15p, Gpi19p, and Spt14p in budding yeast.
GPI-GlcNAc transferase complex
GPI-GnT complex
GPI-N-acetylglucosaminyltransferase complex
A histone chaperone that carries a H2A-H2B histone complex.
H2A-H2B histone carrier activity
A post-transcriptional gene silencing pathway in which regulatory long noncoding RNAs (lncRNAs) elicit silencing of specific target genes, often miRNAs or mRNAs.
lncRNA-mediated gene silencing
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.
A/G-specific adenine DNA glycosylase activity
The first division of meiosis in which homologous chromosomes are paired and segregated from each other, occurring in the constitutive absence of chiasmata.
achiasmate meiosis I nuclear division
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.
resolution of meiotic joint molecules as recombinants
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.
pyrimidine-dimer repair, DNA damage recognition
The repair of UV-induced T-T, C-T and C-C dimers by directly reversing the damage to restore the original pyrimidines.
pyrimidine-dimer repair by photolyase
Catalysis of the reversible reaction: (R,R)-butane-2,3-diol + NAD+ = (R)-acetoin + NADH + H+.
(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
During sexual reproduction, the creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei. This occurs after cytogamy.
karyogamy during conjugation with cellular fusion
The microtubule-based movement of nuclei towards one another as a prelude to karyogamy in organisms undergoing conjugation with cellular fusion.
nuclear congression
nuclear migration during conjugation with cellular fusion
The net movement of nuclei towards one another, leading to the bilateral transfer of genetic material in organisms undergoing conjugation without cellular fusion.
nuclear exchange during conjugation without cellular fusion
nuclear migration involved in conjugation without cellular fusion
The cell cycle regulatory process in which the mitotic cell cycle is halted during G1 as a result of a pheromone stimulus. An example of this process is found in Saccharomyces cerevisiae.
cell cycle arrest in response to pheromone
The aggregation or adhesion of compatible mating types via complementary cell-cell interactions during conjugation with cellular fusion of a unicellular organism. An example of this process is agglutination in Saccharomyces cerevisiae.
agglutination
cell-cell adhesion during conjugation with cellular fusion
cell-cell adhesion during mating
The aggregation or adhesion of compatible mating types via complementary cell-cell interactions during conjugation without cellular fusion of a unicellular organism.
agglutination involved in conjugation without cellular fusion
sexual flocculation
In organisms that undergo conjugation without cellular fusion, the process resulting in desensitization following exposure to pheromone stimulus that act to down-regulate further stimulation or block initial conjugation responses.
adaptation to pheromone involved conjugation without cellular fusion
desensitization to pheromone during conjugation without cellular fusion
In organisms that undergo pheromone-induced unidirectional conjugation, the process involved in desensitization following exposure to pheromone stimulus that acts to down-regulate further stimulation or block initial conjugation responses.
adaptation to pheromone during pheromone-induced unidirectional conjugation
desensitization to pheromone during pheromone-induced unidirectional conjugation
negative adaptation of signalling pathway by response to pheromone involved in pheromone-induced unidirectional conjugation
The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by one or more rounds of nuclear division without cytokinesis.
syncytium formation by mitosis without cell division
Catalysis of the reaction: S-adenosyl-L-methionine + phosphatidyl-N-methylethanolamine = S-adenosyl-L-homocysteine + phosphatidyl-N-dimethylethanolamine. Also catalyzes the transfer of a further methylgroup, producing phosphatidylcholine.
methyltransferase II
phosphatidyl-N-methylethanolamine methyltransferase activity
phosphatidyl-N-monomethylethanolamine methyltransferase activity
phosphatidylethanolamine methyltransferase I
phosphatidylmonomethylethanolamine methyltransferase activity
phospholipid methyltransferase activity
PLMT
S-adenosyl-L-methionine:phosphatidyl-N-methylethanolamine N-methyltransferase activity
A dispersed and relatively uncompacted form of chromatin that is in a transcription-competent conformation.
nuclear euchromatin
transcriptionally active chromatin
A multisubunit protein complex that plays a central role in chromosome condensation in meiosis and mitosis.
13S condensin complex
8S condensin complex
condensin core heterodimer
condensin I complex
nuclear condensin complex
SMC complex
Smc2-Smc4 complex
A proteinaceous core found between sister chromatids during meiotic prophase.
axial element
A multisubunit complex that is located at the replication origins of a chromosome in the cytoplasm.
cytoplasmic ORC
prokaryotic ORC
Catalysis of the reaction: a 1,2-diacyl-sn-glycerol 3-diphosphate + H2O = a 1,2-diacyl-sn-glycerol 3-phosphate + phosphate.
DGPP phosphatase activity
DGPP phosphohydrolase activity
diacylglycerol pyrophosphate phosphatase activity
A heterotetrameric protein complex that associates with replication origins, where it is required for the initiation of DNA replication, and with replication forks.
Go, Ichi, Ni and San complex
A multisubunit protein complex that is involved in chromatin remodeling. It is required for the incorporation of the histone variant H2AZ into chromatin. In S. cerevisiae, the complex contains Swr1p, a Swi2/Snf2-related ATPase, and 12 additional subunits.
SWR-C
An endosomal sorting complex required for transport. It consists of the class E vacuolar protein sorting (Vps) proteins and interacts with ubiquitinated cargoes.
endosomal sorting complex required for transport
An endosomal sorting complex required for transport and functions downstream of ESCRT I complex. It consists of the class E vacuolar protein sorting (Vps) proteins and is required for the membrane recruitment of ESCRT III complex and binds to ubiquitinated cargoes.
endosomal sorting complex required for transport
A complex with membrane scission activity that plays a major role in many processes where membranes are remodelled - including endosomal transport (vesicle budding), nuclear envelope organisation (membrane closure, mitotic bridge cleavage), and cytokinesis (abscission).
endosomal sorting complex required for transport
A kinetochore multiprotein complex that bridges the subunits that are in contact with centromeric DNA and the subunits bound to microtubules during kinetochore assembly. In yeast, consists of Ctf19p, Okp1p, Mcm21p, and Ame1p.
Ctf19p-Okp1p-Mcm1p-Ame1p complex
Binding to inositol hexakisphosphate.
InsP6 binding
IP6 binding