LiteFold/GO huggingface dataset:
G1/S transition of mitotic cell cycle (GO:0000082)
Namespace: biological_process
Definition: The mitotic cell cycle transition by which a cell in G1 commits to S phase. The process begins with the build up of G1 cyclin-dependent kinase (G1 CDK), resulting in the activation of transcription of G1 cyclins. The process ends with the positive feedback of the G1 cyclins on the G1 CDK which commits the cell to S phase, in which DNA replication is initiated.
obsolete regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)
Namespace: biological_process
Definition: OBSOLETE. Any process that regulates transcription such that the target genes are involved in the transition between G1 and S phase of the mitotic cell cycle.
Comment: This term was obsoleted because it represents a GO-CAM model.
mitotic S phase (GO:0000084)
Namespace: biological_process
Definition: The cell cycle phase, following G1, during which DNA synthesis takes place as part of a mitotic cell cycle.
Synonyms: S phase of mitotic cell cycle; S-phase of mitotic cell cycle
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
G2/M transition of mitotic cell cycle (GO:0000086)
Namespace: biological_process
Definition: The mitotic cell cycle transition by which a cell in G2 commits to M phase. The process begins when the kinase activity of M cyclin/CDK complex reaches a threshold high enough for the cell cycle to proceed. This is accomplished by activating a positive feedback loop that results in the accumulation of unphosphorylated and active M cyclin/CDK complex.
Synonyms: mitotic G2/M transition
mitotic M phase (GO:0000087)
Namespace: biological_process
Definition: A cell cycle phase during which nuclear division occurs, and which is comprises the phases: prophase, metaphase, anaphase and telophase and occurs as part of a mitotic cell cycle.
Synonyms: M phase of mitotic cell cycle; M-phase of mitotic cell cycle
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
mitotic prophase (GO:0000088)
Namespace: biological_process
Definition: The cell cycle phase which is the first stage of M phase of mitosis and during which chromosomes condense and the two daughter centrioles and their asters migrate toward the poles of the cell.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
mitotic metaphase (GO:0000089)
Namespace: biological_process
Definition: The cell cycle phase, following prophase, during which chromosomes become aligned on the equatorial plate of the cell as part of a mitotic cell cycle.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
mitotic anaphase (GO:0000090)
Namespace: biological_process
Definition: The cell cycle phase during which chromosomes separate and migrate towards the poles of the spindle the as part of a mitotic cell cycle.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
mitotic anaphase A (GO:0000091)
Namespace: biological_process
Definition: The cell cycle phase during which the kinetochore microtubules shorten as chromosomes move toward the spindle poles as part of mitosis.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
mitotic anaphase B (GO:0000092)
Namespace: biological_process
Definition: The cell cycle phase during which the polar microtubules elongate and the two poles of the spindle move farther apart as part of mitosis.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
mitotic telophase (GO:0000093)
Namespace: biological_process
Definition: The cell cycle phase which follows anaphase during M phase of mitosis and during which the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
obsolete septin assembly and septum formation (GO:0000094)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: septin assembly and septum formation
Comment: This term was made obsolete because it was not defined and the string name implied two separate processes.
S-adenosyl-L-methionine transmembrane transporter activity (GO:0000095)
Namespace: molecular_function
Definition: Enables the transfer of S-adenosylmethionine from one side of a membrane to the other. S-adenosylmethionine is S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism.
Synonyms: S-adenosyl methionine permease activity; S-adenosyl methionine transporter activity; S-adenosylmethionine permease activity; S-adenosylmethionine transmembrane transporter activity; S-adenosylmethionine transporter activity; SAM transmembrane transporter activity
sulfur amino acid metabolic process (GO:0000096)
Namespace: biological_process
Definition: The chemical reactions and pathways involving amino acids containing sulfur.
Synonyms: sulfur amino acid metabolism; sulphur amino acid metabolic process; sulphur amino acid metabolism
sulfur amino acid biosynthetic process (GO:0000097)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of amino acids containing sulfur.
Synonyms: sulfur amino acid anabolism; sulfur amino acid biosynthesis; sulfur amino acid formation; sulfur amino acid synthesis; sulphur amino acid biosynthesis; sulphur amino acid biosynthetic process
sulfur amino acid catabolic process (GO:0000098)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of amino acids containing sulfur.
Synonyms: sulfur amino acid breakdown; sulfur amino acid catabolism; sulfur amino acid degradation; sulphur amino acid catabolic process; sulphur amino acid catabolism
sulfur amino acid transmembrane transporter activity (GO:0000099)
Namespace: molecular_function
Definition: Enables the transfer of sulfur amino acids from one side of a membrane to the other. Sulphur amino acids contain sulfur in the form of cystine, methionine or their derivatives.
Synonyms: sulfur amino acid transporter activity; sulphur amino acid transmembrane transporter activity; sulphur amino acid transporter activity
sulfur amino acid transport (GO:0000101)
Namespace: biological_process
Definition: The directed movement of amino acids containing sulfur (cystine, methionine and their derivatives) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: sulphur amino acid transport
succinate dehydrogenase activity (GO:0000104)
Namespace: molecular_function
Definition: Catalysis of the reaction: succinate + acceptor = fumarate + reduced acceptor.
Synonyms: fumarate dehydrogenase activity; fumarate reductase activity; fumaric hydrogenase activity; succinate oxidoreductase activity; succinic acid dehydrogenase activity; succinic dehydrogenase activity; succinodehydrogenase activity; succinyl dehydrogenase activity
L-histidine biosynthetic process (GO:0000105)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of L-histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid.
Synonyms: histidine anabolism; histidine biosynthesis; histidine biosynthetic process; histidine formation; histidine synthesis
imidazoleglycerol-phosphate synthase activity (GO:0000107)
Namespace: molecular_function
Definition: Catalysis of the reaction: phosphoribulosylformimino-AICAR-P + L-glutamine = D-erythro-imidazole-glycerol-phosphate + aminoimidazole carboxamide ribonucleotide + L-glutamate + 2 H+.
Synonyms: glutamine amidotransferase:cyclase activity; imidazole glycerol phosphate synthase activity; imidazole-glycerol-phosphate synthase activity; imidazoleglycerol phosphate synthase activity
obsolete repairosome (GO:0000108)
Namespace: cellular_component
Definition: OBSOLETE. A stable complex of proteins that carry out the DNA damage recognition and incision reactions characteristic of nucleotide excision repair (NER), such as DNA damage recognition, DNA helix unwinding, and endonucleolytic cleavage at sites flanking damaged DNA; includes TFIIH subunits and additional polypeptides; may form in the absence of DNA damage.
Synonyms: repairosome
Comment: This term was made obsolete because 'repairosome' has fallen out of use in the literature, and the large complex described in the definition has not been confirmed to exist. The term has also confused annotators.
nucleotide-excision repair complex (GO:0000109)
Namespace: cellular_component
Definition: Any complex formed of proteins that act in nucleotide-excision repair.
Synonyms: UvrB-UvrC complex; UvrBC complex
Comment: Note that process information is included in the term and definition for the purpose of describing and distinguishing the complex.
nucleotide-excision repair factor 1 complex (GO:0000110)
Namespace: cellular_component
Definition: One of several protein complexes involved in nucleotide-excision repair; possesses DNA damage recognition and endodeoxynuclease activities. In S. cerevisiae, it is composed of Rad1p, Rad10p, and Rad14p; in human the subunits are ERCC4/XPF, ERCC1 and XPA, respectively.
Synonyms: NEF1 complex; XPA-ERCC1-ERCC4 complex
Comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex.
nucleotide-excision repair factor 2 complex (GO:0000111)
Namespace: cellular_component
Definition: One of several protein complexes involved in nucleotide-excision repair; possesses damaged DNA binding activity. In S. cerevisiae, it is composed of Rad4p and Rad23p.
Synonyms: NEF2 complex
Comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex.
nucleotide-excision repair factor 3 complex (GO:0000112)
Namespace: cellular_component
Definition: One of several protein complexes involved in nucleotide-excision repair; possesses endodeoxynuclease and DNA helicase activities. In S. cerevisiae, it is composed of Rad2p and the core TFIIH-Ssl2p complex (core TFIIH is composed of Rad3p, Tfb1p, Tfb2p, Ssl1p, Tfb4p and Tfb5p. Note that Ssl2p is also called Rad25p).
Synonyms: NEF3 complex
Comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex.
nucleotide-excision repair factor 4 complex (GO:0000113)
Namespace: cellular_component
Definition: One of several protein complexes involved in nucleotide-excision repair; possesses DNA damage recognition and DNA-dependent ATPase activities. In S. cerevisiae, it is composed of Rad7p and Rad16p.
Synonyms: NEF4 complex
Comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex.
obsolete regulation of transcription involved in G1 phase of mitotic cell cycle (GO:0000114)
Namespace: biological_process
Definition: OBSOLETE. Any process that regulates transcription such that the target genes are transcribed as part of the G1 phase of the mitotic cell cycle.
Synonyms: G1-specific transcription in mitotic cell cycle; regulation of transcription from RNA polymerase II promoter during G1 phase of cell cycle; regulation of transcription involved in G1 phase of mitotic cell cycle
Comment: This term was made obsolete because it is unclear exactly what it means. It could mean either 'regulation of transcription during phase X' or 'regulation of transition between phase X and phase Y'.
obsolete regulation of transcription involved in S phase of mitotic cell cycle (GO:0000115)
Namespace: biological_process
Definition: OBSOLETE. A cell cycle process that regulates transcription such that the target genes are transcribed as part of the S phase of the mitotic cell cycle.
Synonyms: regulation of transcription from RNA polymerase II promoter during S-phase of mitotic cell cycle; regulation of transcription involved in S phase of mitotic cell cycle; regulation of transcription involved in S-phase of mitotic cell cycle; S-phase-specific transcription in mitotic cell cycle; S-specific transcription in mitotic cell cycle
Comment: This term was made obsolete because it is unclear exactly what it means. It could mean either 'regulation of transcription during phase X' or 'regulation of transition between phase X and phase Y'.
obsolete regulation of transcription involved in G2-phase of mitotic cell cycle (GO:0000116)
Namespace: biological_process
Definition: OBSOLETE. Any process that regulates transcription such that the target genes are transcribed as part of the G2 phase of the mitotic cell cycle.
Synonyms: G2-specific transcription in mitotic cell cycle; regulation of transcription from RNA polymerase II during G2-phase of mitotic cell cycle; regulation of transcription involved in G2-phase of mitotic cell cycle
Comment: This term was made obsolete because it is unclear exactly what it means. It could mean either 'regulation of transcription during phase X' or 'regulation of transition between phase X and phase Y'.
histone deacetylase complex (GO:0000118)
Namespace: cellular_component
Definition: A protein complex that possesses histone deacetylase activity.
Synonyms: HDAC complex
Comment: Note that this term represents a location, not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'histone deacetylase activity ; GO:0004407'.
RNA polymerase I transcription regulator complex (GO:0000120)
Namespace: cellular_component
Definition: A transcription factor complex that acts at a regulatory region of a gene transcribed by RNA polymerase I.
Synonyms: RNA polymerase I transcription factor complex
negative regulation of transcription by RNA polymerase II (GO:0000122)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II.
Synonyms: down regulation of global transcription from RNA polymerase II promoter; down regulation of transcription from RNA polymerase II promoter; down-regulation of global transcription from RNA polymerase II promoter; down-regulation of transcription from RNA polymerase II promoter; downregulation of global transcription from RNA polymerase II promoter; downregulation of transcription from RNA polymerase II promoter; inhibition of global transcription from RNA polymerase II promoter; inhibition of transcription from RNA polymerase II promoter; negative regulation of gene-specific transcription from RNA polymerase II promoter; negative regulation of global transcription from Pol II promoter; negative regulation of transcription from Pol II promoter; negative regulation of transcription from RNA polymerase II promoter; negative regulation of transcription from RNA polymerase II promoter, global
histone acetyltransferase complex (GO:0000123)
Namespace: cellular_component
Definition: A protein complex that possesses histone acetyltransferase activity.
Synonyms: histone acetylase complex
Comment: Note that this term represents a protein complex, not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'histone acetyltransferase activity ; GO:0004402'.
SAGA complex (GO:0000124)
Namespace: cellular_component
Definition: A SAGA-type histone acetyltransferase complex that deubiquitinates H2A and/or H2B. This complex is organized into several functional submodules: a structural core including the activator binding module and consisting of ADA1 or a homolog, members of the SPT and TAF protein families as well as promotor recruitment factor TRRAP/TRA1, a histone acetyltransferase (HAT) module consisting of GCN5/KAT2A or PCAF/KAT2B, ADA2, ADA3/NGG1, and SGF29 or homologues thereof, a histone deubiquitinase (DUB) module consisting of ATXN7/SGF73, ATXN7L3/SGF11, ENY2/SUS1 and USP22/UBP8 or homologues thereof, and in some taxa a splicing module consisting of SF3B3 and SF3B5 or homologues thereof (not in fungi). In budding yeast also contains Spt8 which distinguishes it from SAGA-like (SLIK) complex (GO:0046695).
Synonyms: PCAF complex; PCAF histone acetylase-associated complex; Spt-Ada-Gcn5-acetyltransferase complex; SPT3-TAF9-GCN5 acetylase complex; SPT3-TAF9-PCAF acetylase complex; STAGA coactivator complex; STAGA complex
transcription factor TFIIIB complex (GO:0000126)
Namespace: cellular_component
Definition: A transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIB contains the TATA-binding protein (TBP) and two Pol III-specific proteins, B'' and BRF.
transcription factor TFIIIC complex (GO:0000127)
Namespace: cellular_component
Definition: A heterotrimeric transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIC contains three conserved subunits that associate with the proximal Pol III promoter element, and additional subunits that associate with sequence elements downstream of the promoter and are more diverged among species. It also functions as a boundary element to partition genome content into distinct domains outside Pol III promoter regions.
incipient cellular bud site (GO:0000131)
Namespace: cellular_component
Definition: The portion of the budding yeast plasma membrane where a daughter cell will emerge. The yeast marks this spot with bud-site selection proteins before bud emergence occurs. Actin is polarized to this spot just prior to and during bud emergence.
establishment of mitotic spindle orientation (GO:0000132)
Namespace: biological_process
Definition: A cell cycle process that sets the alignment of mitotic spindle relative to other cellular structures.
Synonyms: establishment of spindle orientation during mitosis; establishment of spindle orientation involved in mitotic cell cycle; mitotic spindle orientation; orienting of mitotic spindle
polarisome (GO:0000133)
Namespace: cellular_component
Definition: Protein complex that plays a role in determining cell polarity by directing the localized assembly of actin filaments at polarization sites; in Saccharomyces the polarisome includes Bni1p, Spa2p, Pea2p, and Bud6p.
mannan polymerase complex (GO:0000136)
Namespace: cellular_component
Definition: A protein complex with alpha-(1->6)-mannosyltransferase activity, located in the cis Golgi membrane; adds mannan to N-linked glycans on proteins.
Synonyms: alpha-1,6-mannosyltransferase complex
Golgi cis cisterna (GO:0000137)
Namespace: cellular_component
Definition: The Golgi cisterna closest to the endoplasmic reticulum; the first processing compartment through which proteins pass after export from the ER.
Synonyms: Golgi apparatus cis cisterna
Golgi trans cisterna (GO:0000138)
Namespace: cellular_component
Definition: The Golgi cisterna farthest from the endoplasmic reticulum; the final processing compartment through which proteins pass before exiting the Golgi apparatus; the compartment in which N-linked protein glycosylation is completed.
Synonyms: late Golgi
Golgi membrane (GO:0000139)
Namespace: cellular_component
Definition: The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
Synonyms: Golgi apparatus membrane
acylglycerone-phosphate reductase (NADP+) activity (GO:0000140)
Namespace: molecular_function
Definition: Catalysis of the reaction: 1-hexadecanoyl-sn-glycero-3-phosphate + NADP+ = 1-hexadecanoylglycerone 3-phosphate + H+ + NADPH.
Synonyms: 1-acyldihydroxyacetone-phosphate reductase activity; 1-palmitoylglycerol-3-phosphate:NADP+ oxidoreductase activity; acyldihydroxyacetone phosphate reductase activity; palmitoyl dihydroxyacetone phosphate reductase activity; palmitoyl-dihydroxyacetone-phosphate reductase activity; palmitoyldihydroxyacetone-phosphate reductase activity